Psyllid ID: psy549

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250---
Protein Sequence
MENKKQDLDKGLQTDYRKMPGACERLRLHSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTGSASSKGRYMLKRNSCTVA
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEccccccHHHHHHHHHHccccccccccccccEEEEEEEccccEEEEEEEEcccccccHHHHHHHcccccEEEEEEEcccHHHHHHHHHHHHHHHHHccccccEEEEEcccccccccEEHHHHHHHHHHcccccEEEccccccccHHHHHHHHHHHHHHHccccHHHHcccccccccccccccccccccccccccccEEc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccHcccccccccccccccccccHHHEEEEEEEccccccHcEHHHEHcccccccccEEEEEEEEEEEEEEEcccEEEEEEEEEccccccccHHHHHHHHccEEEEEEEcccHHHHHcHHHHHHHHHHHcccccEEEEEccccccHcccccHHHHHHHHHHHccccEEEcccHccccHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MENKKQDLDKGlqtdyrkmpgacerlrlhslgtestsssgtgvglqkdkRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELhrgeyelpdgaqlTLDILdtsgayqfpamrelsISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYnlspavrrrrqslpnyigttgsasskgrymlkrnsctva
Flexible Loop (DISEMBL)
menkkqdldkglqtdyrkmPGACERLRLhslgtestsssgtgvglqkdkrRVVVMggarvgkssiisqflyDRFISRYKETVEELHRgeyelpdgAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQivnkrglmvpiVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYnlspavrrrrqslpnyigttgsasskgrymlkrnsctva
Low Complexity Region (SEG)
MENKKQDLDKGLQTDYRKMPGACERLRlhslgtestsssgtgvglQKDKrrvvvmggarvgKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTGSASSKGRYMLKRNSCTVA
Disordered region (IsUnstruct)
*************************************************RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAV*********************************
Disordered Region (DISOPRED)
***************************************************VVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLA**************************************RNSCTV*
Disordered Region (DISEMBL)
MENKKQDLDKGLQTDYRKMPGACERLRLHSLG**************KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTGSASSKGRYML********
Disordered Region (DISPRO)
******************************************VGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYN**************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MENKKQDLDKGLQTDYRKMPGACERLRLHSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTGSASSKGRYMLKRNSCTVA
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	253	2.2.26 [Sep-21-2011]
Q96D21	266	GTP-binding protein Rhes	yes	N/A	0.687	0.654	0.405	8e-33
P63033	266	GTP-binding protein Rhes	yes	N/A	0.687	0.654	0.4	1e-32
P63032	266	GTP-binding protein Rhes	yes	N/A	0.687	0.654	0.4	1e-32
Q9Y272	281	Dexamethasone-induced Ras	no	N/A	0.679	0.612	0.391	8e-32
O35626	280	Dexamethasone-induced Ras	no	N/A	0.679	0.614	0.385	2e-31
Q9JKF8	280	Dexamethasone-induced Ras	no	N/A	0.679	0.614	0.385	2e-31
Q95KD9	199	GTP-binding protein Di-Ra	N/A	N/A	0.632	0.804	0.418	3e-27
Q94694	188	Ras-related protein Rap-1	N/A	N/A	0.687	0.925	0.387	4e-27
Q96HU8	199	GTP-binding protein Di-Ra	no	N/A	0.632	0.804	0.412	1e-26
Q5PR73	199	GTP-binding protein Di-Ra	no	N/A	0.632	0.804	0.412	1e-26

>sp|Q96D21|RHES_HUMAN GTP-binding protein Rhes OS=Homo sapiens GN=RASD2 PE=1 SV=1

 Score =  140 bits (353), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 77/190 (40%), Positives = 118/190 (62%), Gaps = 16/190 (8%)

Query: 47  KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTS 106
           K+  R+VV+G +RVGKSSI+S+FL  RF  +Y  T+E+ HR  Y +  G    LDILDTS
Sbjct: 17  KNSYRMVVLGASRVGKSSIVSRFLNGRFEDQYTPTIEDFHRKVYNI-RGDMYQLDILDTS 75

Query: 107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV---------NKRGLMVPI 157
           G + FPAMR LSI T D F+LV+++D+  ++D VK L++QI+          K    +P+
Sbjct: 76  GNHPFPAMRRLSILTGDVFILVFSLDNRESFDEVKRLQKQILEVKSCLKNKTKEAAELPM 135

Query: 158 VVVGNKCELEFKDVRREI----AETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           V+ GNK   +  ++ R++    AE +   D  C + E SAK+N N+ ++F  L + AK+ 
Sbjct: 136 VICGNKN--DHGELCRQVPTTEAELLVSGDENCAYFEVSAKKNTNVDEMFYVLFSMAKLP 193

Query: 214 YNLSPAVRRR 223
           + +SPA+ R+
Sbjct: 194 HEMSPALHRK 203

GTPase signaling protein that binds to and hydrolyzes GTP. Regulates signaling pathways involving G-proteins-coupled receptor and heterotrimeric proteins such as GNB1, GNB2 and GNB3. May be involved in selected striatal competencies, mainly locomotor activity and motor coordination.
Homo sapiens (taxid: 9606)

>sp|P63033|RHES_RAT GTP-binding protein Rhes OS=Rattus norvegicus GN=Rasd2 PE=1 SV=1

 Score =  139 bits (351), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 76/190 (40%), Positives = 116/190 (61%), Gaps = 16/190 (8%)

Query: 47  KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTS 106
           K+  R+VV+G +RVGKSSI+S+FL  RF  +Y  T+E+ HR  Y +  G    LDILDTS
Sbjct: 17  KNSYRMVVLGASRVGKSSIVSRFLNGRFEDQYTPTIEDFHRKVYNI-HGDMYQLDILDTS 75

Query: 107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV---------NKRGLMVPI 157
           G + FPAMR LSI T D F+LV+++D   ++D VK L++QI+          K    +P+
Sbjct: 76  GNHPFPAMRRLSILTGDVFILVFSLDSRESFDEVKRLQKQILEVKSCLKNKTKEAAELPM 135

Query: 158 VVVGNKCELEFKDVRREI----AETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           V+ GNK   +  ++ R++    AE +   D  C + E SAK+N N+ ++F  L + AK+ 
Sbjct: 136 VICGNKN--DHSELCRQVPAMEAELLVSGDENCAYFEVSAKKNTNVNEMFYVLFSMAKLP 193

Query: 214 YNLSPAVRRR 223
           + +SPA+  +
Sbjct: 194 HEMSPALHHK 203

GTPase signaling protein that binds to and hydrolyzes GTP. Regulates signaling pathways involving G-proteins-coupled receptor and heterotrimeric proteins such as GNB1, GNB2 and GNB3. May be involved in selected striatal competencies, mainly locomotor activity and motor coordination.

Rattus norvegicus (taxid: 10116)

>sp|P63032|RHES_MOUSE GTP-binding protein Rhes OS=Mus musculus GN=Rasd2 PE=2 SV=1

 Score =  139 bits (351), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 76/190 (40%), Positives = 116/190 (61%), Gaps = 16/190 (8%)

Query: 47  KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTS 106
           K+  R+VV+G +RVGKSSI+S+FL  RF  +Y  T+E+ HR  Y +  G    LDILDTS
Sbjct: 17  KNSYRMVVLGASRVGKSSIVSRFLNGRFEDQYTPTIEDFHRKVYNI-HGDMYQLDILDTS 75

Query: 107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV---------NKRGLMVPI 157
           G + FPAMR LSI T D F+LV+++D   ++D VK L++QI+          K    +P+
Sbjct: 76  GNHPFPAMRRLSILTGDVFILVFSLDSRESFDEVKRLQKQILEVKSCLKNKTKEAAELPM 135

Query: 158 VVVGNKCELEFKDVRREI----AETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           V+ GNK   +  ++ R++    AE +   D  C + E SAK+N N+ ++F  L + AK+ 
Sbjct: 136 VICGNKN--DHSELCRQVPAMEAELLVSGDENCAYFEVSAKKNTNVNEMFYVLFSMAKLP 193

Query: 214 YNLSPAVRRR 223
           + +SPA+  +
Sbjct: 194 HEMSPALHHK 203

GTPase signaling protein that binds to and hydrolyzes GTP. Regulates signaling pathways involving G-proteins-coupled receptor and heterotrimeric proteins such as GNB1, GNB2 and GNB3. May be involved in selected striatal competencies, mainly locomotor activity and motor coordination.

Mus musculus (taxid: 10090)

>sp|Q9Y272|RASD1_HUMAN Dexamethasone-induced Ras-related protein 1 OS=Homo sapiens GN=RASD1 PE=1 SV=1

 Score =  137 bits (345), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 72/184 (39%), Positives = 119/184 (64%), Gaps = 12/184 (6%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           R+V++G ++VGK++I+S+FL  RF   Y  T+E+ HR  Y +  G    LDILDTSG + 
Sbjct: 26  RMVILGSSKVGKTAIVSRFLTGRFEDAYTPTIEDFHRKFYSI-RGEVYQLDILDTSGNHP 84

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM---------VPIVVVG 161
           FPAMR LSI T D F+LV+++D+  +++ V+ LR+QI++ +  +         VP+V+ G
Sbjct: 85  FPAMRRLSILTGDVFILVFSLDNRDSFEEVQRLRQQILDTKSCLKNKTKENVDVPLVICG 144

Query: 162 NKCELEF-KDV-RREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPA 219
           NK + +F ++V +REI + +     +C + E SAK+N ++ Q+F+ L A AK+   +SP 
Sbjct: 145 NKGDRDFYREVDQREIEQLVGDDPQRCAYFEISAKKNSSLDQMFRALFAMAKLPSEMSPD 204

Query: 220 VRRR 223
           + R+
Sbjct: 205 LHRK 208

Small GTPase. Negatively regulates the transcription regulation activity of the APBB1/FE65-APP complex via its interaction with APBB1/FE65.

Homo sapiens (taxid: 9606)

>sp|O35626|RASD1_MOUSE Dexamethasone-induced Ras-related protein 1 OS=Mus musculus GN=Rasd1 PE=1 SV=1

 Score =  136 bits (342), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 71/184 (38%), Positives = 119/184 (64%), Gaps = 12/184 (6%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           R+V++G ++VGK++I+S+FL  RF   Y  T+E+ HR  Y +  G    LDILDTSG + 
Sbjct: 26  RMVILGSSKVGKTAIVSRFLTGRFEDAYTPTIEDFHRKFYSI-RGEVYQLDILDTSGNHP 84

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM---------VPIVVVG 161
           FPAMR LSI T D F+LV+++D+  +++ V+ L++QI++ +  +         VP+V+ G
Sbjct: 85  FPAMRRLSILTGDVFILVFSLDNRDSFEEVQRLKQQILDTKSCLKNKTKENVDVPLVICG 144

Query: 162 NKCELEF-KDV-RREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPA 219
           NK + +F ++V +REI + +     +C + E SAK+N ++ Q+F+ L A AK+   +SP 
Sbjct: 145 NKGDRDFYREVEQREIEQLVGDDPQRCAYFEISAKKNSSLDQMFRALFAMAKLPSEMSPD 204

Query: 220 VRRR 223
           + R+
Sbjct: 205 LHRK 208

Small GTPase. Negatively regulates the transcription regulation activity of the APBB1/FE65-APP complex via its interaction with APBB1/FE65.

Mus musculus (taxid: 10090)

>sp|Q9JKF8|RASD1_RAT Dexamethasone-induced Ras-related protein 1 OS=Rattus norvegicus GN=Rasd1 PE=1 SV=1

 Score =  135 bits (341), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 71/184 (38%), Positives = 119/184 (64%), Gaps = 12/184 (6%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           R+V++G ++VGK++I+S+FL  RF   Y  T+E+ HR  Y +  G    LDILDTSG + 
Sbjct: 26  RMVILGSSKVGKTAIVSRFLTGRFEDAYTPTIEDFHRKFYSI-RGEVYQLDILDTSGNHP 84

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM---------VPIVVVG 161
           FPAMR LSI T D F+LV+++D+  +++ V+ L++QI++ +  +         VP+V+ G
Sbjct: 85  FPAMRRLSILTGDVFILVFSLDNRDSFEEVQRLKQQILDTKSCLKNKTKENVDVPLVICG 144

Query: 162 NKCELEF-KDV-RREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPA 219
           NK + +F ++V +REI + +     +C + E SAK+N ++ Q+F+ L A AK+   +SP 
Sbjct: 145 NKGDRDFYREVEQREIEQLVGDDPQRCAYFEISAKKNSSLDQMFRALFAMAKLPSEMSPD 204

Query: 220 VRRR 223
           + R+
Sbjct: 205 LHRK 208

Small GTPase. Negatively regulates the transcription regulation activity of the APBB1/FE65-APP complex via its interaction with APBB1/FE65.

Rattus norvegicus (taxid: 10116)

>sp|Q95KD9|DIRA2_MACFA GTP-binding protein Di-Ras2 OS=Macaca fascicularis GN=DIRAS2 PE=2 SV=1

 Score =  122 bits (306), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 69/165 (41%), Positives = 103/165 (62%), Gaps = 5/165 (3%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
           Q +  RV V G   VGKSS++ +F+   F   Y  TVE+ +R      D +  TL I DT
Sbjct: 4   QSNDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISC-DKSICTLQITDT 62

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVVVGNK 163
           +G++QFPAM+ LSIS   AF+LVY++    + + +K + EQI   +G M  +PI++VGNK
Sbjct: 63  TGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDMESIPIMLVGNK 122

Query: 164 C-ELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL 207
           C E   ++V+   AE +A   W+C F+E SAK N+N+ ++F+ELL
Sbjct: 123 CDESPSREVQSSEAEALA-RTWKCAFMETSAKLNHNVKELFQELL 166

Displays low GTPase activity and exist predominantly in the GTP-bound form.

Macaca fascicularis (taxid: 9541)

>sp|Q94694|RAP1_PHYPO Ras-related protein Rap-1 OS=Physarum polycephalum GN=RAP1 PE=2 SV=1

 Score =  121 bits (304), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 69/178 (38%), Positives = 110/178 (61%), Gaps = 4/178 (2%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G   VGKS++  QF+   F+ +Y  T+E+ +R + E+ DG Q  L+ILDT+G  Q
Sbjct: 7   KIVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEV-DGQQCMLEILDTAGTEQ 65

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKCEL-EF 168
           F AMR+L +     FVLVY++   ST++ + DLREQI+  +    VP+V+VGNKC+L E 
Sbjct: 66  FTAMRDLYMKNGQGFVLVYSIIAMSTFNDLPDLREQILRVKDCDDVPMVLVGNKCDLAEQ 125

Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQS 226
           + +  E  + +A     C F+E SAK   N+ Q+F +L+ Q   + N  P  ++ ++S
Sbjct: 126 RVISTEQGDELARKFGGCAFLEASAKNKINVEQIFYDLIRQIN-RKNPGPTNKKEKKS 182

Physarum polycephalum (taxid: 5791)

>sp|Q96HU8|DIRA2_HUMAN GTP-binding protein Di-Ras2 OS=Homo sapiens GN=DIRAS2 PE=1 SV=1

 Score =  120 bits (300), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 68/165 (41%), Positives = 103/165 (62%), Gaps = 5/165 (3%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
           Q +  RV V G   VGKSS++ +F+   F   Y  TVE+ +R      D +  TL I DT
Sbjct: 4   QSNDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISC-DKSICTLQITDT 62

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVVVGNK 163
           +G++QFPAM+ LSIS   AF+LVY++    + + +K + EQI   +G +  +PI++VGNK
Sbjct: 63  TGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNK 122

Query: 164 C-ELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL 207
           C E   ++V+   AE +A   W+C F+E SAK N+N+ ++F+ELL
Sbjct: 123 CDESPSREVQSSEAEALA-RTWKCAFMETSAKLNHNVKELFQELL 166

Displays low GTPase activity and exist predominantly in the GTP-bound form.

Homo sapiens (taxid: 9606)

>sp|Q5PR73|DIRA2_MOUSE GTP-binding protein Di-Ras2 OS=Mus musculus GN=Diras2 PE=2 SV=1

 Score =  119 bits (299), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 68/165 (41%), Positives = 103/165 (62%), Gaps = 5/165 (3%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
           Q +  RV V G   VGKSS++ +F+   F   Y  TVE+ +R      D +  TL I DT
Sbjct: 4   QSNDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISC-DKSICTLQITDT 62

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVVVGNK 163
           +G++QFPAM+ LSIS   AF+LVY++    + + +K + EQI   +G +  +PI++VGNK
Sbjct: 63  TGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNK 122

Query: 164 C-ELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL 207
           C E   ++V+   AE +A   W+C F+E SAK N+N+ ++F+ELL
Sbjct: 123 CDESPNREVQSSEAEALA-RTWKCAFMETSAKLNHNVKELFQELL 166

Displays low GTPase activity and exist predominantly in the GTP-bound form.

Mus musculus (taxid: 10090)

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	253
328719067	268	PREDICTED: GTP-binding protein Rhes-like	0.924	0.873	0.698	2e-88
157125173	241	MRAS2, putative [Aedes aegypti] gi|10887	0.924	0.970	0.595	2e-77
170049844	243	MRAS2 [Culex quinquefasciatus] gi|167871	0.920	0.958	0.604	4e-77
312384833	338	hypothetical protein AND_01505 [Anophele	0.924	0.692	0.519	6e-74
158285791	273	AGAP007369-PA [Anopheles gambiae str. PE	0.877	0.813	0.586	2e-73
242003656	188	conserved hypothetical protein [Pediculu	0.739	0.994	0.626	5e-68
346469349	234	hypothetical protein [Amblyomma maculatu	0.913	0.987	0.546	9e-64
427787407	234	Putative membrane [Rhipicephalus pulchel	0.913	0.987	0.525	1e-62
346468989	236	hypothetical protein [Amblyomma maculatu	0.802	0.860	0.590	5e-62
346468987	270	hypothetical protein [Amblyomma maculatu	0.802	0.751	0.585	8e-62

>gi|328719067|ref|XP_001944566.2| PREDICTED: GTP-binding protein Rhes-like [Acyrthosiphon pisum]

 Score =  331 bits (848), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 169/242 (69%), Positives = 195/242 (80%), Gaps = 8/242 (3%)

Query: 19  MPGAC-ERLRLHSLGTESTSSSGTGVGL------QKDKRRVVVMGGARVGKSSIISQFLY 71
           MPG   ER+RL S+G EST S+ +  G        K +RRVV+MG ARVGK+SII QFLY
Sbjct: 28  MPGQQQERIRLSSMGGESTCSNSSSGGSGSGSTTMKIRRRVVMMGAARVGKTSIIKQFLY 87

Query: 72  DRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAV 131
           D+F  RYKET+EELHRG+YELPDGA+LTLDILDTSGAYQFPAMRELSISTADAF+LV+ V
Sbjct: 88  DQFPDRYKETIEELHRGDYELPDGARLTLDILDTSGAYQFPAMRELSISTADAFLLVFCV 147

Query: 132 DDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVEC 191
           D   TWD VK  +EQI+ +RG  +PIV+VGNKCEL  + +  EI E I+ YDW+CG++EC
Sbjct: 148 DREDTWDQVKHFKEQIIERRGPKIPIVIVGNKCELTERFLPVEITEAISKYDWECGYMEC 207

Query: 192 SAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTGSASSKGRYMLKRNSCT 251
           SAKEN NIVQVFKELLAQAKVQYNLSPAVRRRR SLPNY+    S S+KGRYMLKRNSCT
Sbjct: 208 SAKENRNIVQVFKELLAQAKVQYNLSPAVRRRRMSLPNYVDNR-SGSTKGRYMLKRNSCT 266

Query: 252 VA 253
           VA
Sbjct: 267 VA 268

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157125173|ref|XP_001654247.1| MRAS2, putative [Aedes aegypti] gi|108873745|gb|EAT37970.1| AAEL010105-PA [Aedes aegypti]

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 143/240 (59%), Positives = 181/240 (75%), Gaps = 6/240 (2%)

Query: 19  MPGACERLRLHSLGTESTSSSGTG----VGLQKDKRRVVVMGGARVGKSSIISQFLYDRF 74
           MPG C RLR+ SL T S SS G+     +  +K++ RV +MG ARVGKSSIISQFLY+++
Sbjct: 1   MPGTCHRLRIPSLVTSSRSSRGSNDSEPMTPKKERHRVAMMGAARVGKSSIISQFLYEKY 60

Query: 75  ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDA 134
           +SRYK+TVE++HRGEYELPDG+ LTLDILDTSG+YQFPAMR LSI+T+ AF+LVYAVDD 
Sbjct: 61  LSRYKQTVEDMHRGEYELPDGSCLTLDILDTSGSYQFPAMRALSINTSGAFILVYAVDDE 120

Query: 135 STWDVVKDLREQIVNKRGLMVPIVVVGNKCEL--EFKDVRREIAETIALYDWQCGFVECS 192
            TW  V+ LR QIV  RGL VPIV+VGNK ++  E + V  ++A+  A  +W CG+ ECS
Sbjct: 121 ETWFEVERLRGQIVQARGLRVPIVIVGNKADVPEEVRQVPLKVAQAKATLEWSCGYAECS 180

Query: 193 AKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTGSASSKGRYMLKRNSCTV 252
           AK N  I+ VFK+LL QA ++YNLSPAVRRRR+SLP+Y     + S   RY LKR+SC +
Sbjct: 181 AKNNEGILTVFKQLLRQANIEYNLSPAVRRRRKSLPSYTNQNQNRSLSARYYLKRHSCAI 240

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170049844|ref|XP_001870938.1| MRAS2 [Culex quinquefasciatus] gi|167871544|gb|EDS34927.1| MRAS2 [Culex quinquefasciatus]

 Score =  293 bits (751), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 147/243 (60%), Positives = 185/243 (76%), Gaps = 10/243 (4%)

Query: 19  MPGACERLRLHSLGTESTSSSGTG------VGLQKDKRRVVVMGGARVGKSSIISQFLYD 72
           MPG C RLR+ SL   + SS GT       +  +K++ RV +MG ARVGKSSIISQFLY+
Sbjct: 1   MPGTCHRLRIPSL-VSNRSSKGTNSSDLEPITPRKERHRVTMMGAARVGKSSIISQFLYE 59

Query: 73  RFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVD 132
           +++SRYK+TVE++HRGEYELPDG+ LTLDILDTSG+YQFPAMR LSI+ + AF+LVYAVD
Sbjct: 60  KYLSRYKQTVEDMHRGEYELPDGSCLTLDILDTSGSYQFPAMRALSINISGAFILVYAVD 119

Query: 133 DASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL--EFKDVRREIAETIALYDWQCGFVE 190
           D  TW  V+ LREQIV  RGL VPIV+VGNK ++  E + V+++ A+T A  +W CG+ E
Sbjct: 120 DEETWLEVERLREQIVEARGLRVPIVIVGNKADIPEEDRQVQQKEAQTKATLEWGCGYAE 179

Query: 191 CSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTG-SASSKGRYMLKRNS 249
           CSAK N  I+ VFK+LL QA ++YNLSPAVRRRR+SLPNY  + G +  S  RY LKR+S
Sbjct: 180 CSAKNNEGILTVFKQLLRQANIEYNLSPAVRRRRKSLPNYASSQGQNRPSTARYYLKRHS 239

Query: 250 CTV 252
           CTV
Sbjct: 240 CTV 242

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312384833|gb|EFR29466.1| hypothetical protein AND_01505 [Anopheles darlingi]

 Score =  283 bits (723), Expect = 6e-74,   Method: Compositional matrix adjust.
 Identities = 144/277 (51%), Positives = 190/277 (68%), Gaps = 43/277 (15%)

Query: 19  MPGACERLRLHSLGTESTSSSGTG------------------------------------ 42
           MPGAC RLR+ S+G+  T  +  G                                    
Sbjct: 61  MPGACHRLRIPSIGSSRTPKALVGGPPSSSTPSSSSSASSASAADAACNDDIFSCDGGPL 120

Query: 43  ---VG-LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQL 98
              VG ++K++ RV +MG ARVGKSSIISQFLY++++SRYK+T+EE+HRGEYELPDG+ L
Sbjct: 121 SPPVGTVKKERHRVTMMGAARVGKSSIISQFLYEKYLSRYKQTIEEMHRGEYELPDGSSL 180

Query: 99  TLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIV 158
           TLDILDTSG+YQFPAMR LSI+T+ AF+LVYAVDD  TW+ V+ LREQI++ RG  VPIV
Sbjct: 181 TLDILDTSGSYQFPAMRALSINTSGAFILVYAVDDEETWNEVERLREQIISVRGSRVPIV 240

Query: 159 VVGNKCEL--EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNL 216
           +VGNK ++  E + +  ++A + AL +W CG+ ECSAK N  I+ VFK+LL QA ++YNL
Sbjct: 241 IVGNKADVPEEQRQIPFKVARSRALLEWGCGYAECSAKNNEGILTVFKQLLRQANIEYNL 300

Query: 217 SPAVRRRRQSLPNYIGTTGSA-SSKGRYMLKRNSCTV 252
           SPAVRRRR+SLP+Y G +  A ++  RY LKR+SC+V
Sbjct: 301 SPAVRRRRKSLPSYTGGSNPARANTTRYYLKRHSCSV 337

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158285791|ref|XP_564861.2| AGAP007369-PA [Anopheles gambiae str. PEST] gi|157020162|gb|EAL41805.2| AGAP007369-PA [Anopheles gambiae str. PEST]

 Score =  281 bits (718), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 132/225 (58%), Positives = 175/225 (77%), Gaps = 3/225 (1%)

Query: 31  LGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEY 90
            G E    +     ++K++ RV +MG ARVGKSSIISQFLY++++SRYK+T+EE+HRGEY
Sbjct: 48  FGCEGAVPASPPATVKKERHRVTMMGAARVGKSSIISQFLYEKYLSRYKQTIEEMHRGEY 107

Query: 91  ELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNK 150
           ELPDG+ LTLDILDTSG+YQFPAMR LSI+T+ AF+LVYAVDD  TW+ V+ LREQI++ 
Sbjct: 108 ELPDGSSLTLDILDTSGSYQFPAMRALSINTSGAFILVYAVDDEETWNEVERLREQIISV 167

Query: 151 RGLMVPIVVVGNKCELEFKD--VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLA 208
           RG  VPIV+VGNK ++  +D  +  ++A + AL +W CG+ ECSAK N  I+ VFK+LL 
Sbjct: 168 RGTRVPIVIVGNKADVPEEDRQIPFKVARSRALLEWGCGYAECSAKNNEGILTVFKQLLR 227

Query: 209 QAKVQYNLSPAVRRRRQSLPNYIGTTGSA-SSKGRYMLKRNSCTV 252
           QA ++YNLSPAVRRRR+SLP+Y G T  A ++  +Y LKR+SC+V
Sbjct: 228 QANIEYNLSPAVRRRRKSLPSYTGATNPARANSAKYYLKRHSCSV 272

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242003656|ref|XP_002422816.1| conserved hypothetical protein [Pediculus humanus corporis] gi|212505674|gb|EEB10078.1| conserved hypothetical protein [Pediculus humanus corporis]

 Score =  263 bits (672), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 126/201 (62%), Positives = 161/201 (80%), Gaps = 14/201 (6%)

Query: 54  VMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA 113
           +MG A+VGKSSIISQFLYD+++++Y          +Y LPDGA LTLDILDTSGAYQFPA
Sbjct: 1   MMGSAKVGKSSIISQFLYDKYLTKY----------QYVLPDGASLTLDILDTSGAYQFPA 50

Query: 114 MRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-KDVR 172
           MR LSISTADAF+LV+AVD++ +W+ V+ LREQI+  RG  VPIVVVGNK ++E  +   
Sbjct: 51  MRALSISTADAFILVFAVDNSDSWEEVQKLREQIIEVRGHKVPIVVVGNKIDVETNRATS 110

Query: 173 REIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIG 232
           +EI E+ A++DW+CG+VEC AK+N +I+ VFKELL QAK++Y LSPAVRRRRQSLPNY  
Sbjct: 111 KEITESTAVFDWECGYVECCAKDNIHIIDVFKELLVQAKIRYKLSPAVRRRRQSLPNY-- 168

Query: 233 TTGSASSKGRYMLKRNSCTVA 253
            + + S+K ++MLKRNSCTVA
Sbjct: 169 -SSNGSAKSKHMLKRNSCTVA 188

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346469349|gb|AEO34519.1| hypothetical protein [Amblyomma maculatum]

 Score =  249 bits (635), Expect = 9e-64,   Method: Compositional matrix adjust.
 Identities = 130/238 (54%), Positives = 164/238 (68%), Gaps = 7/238 (2%)

Query: 19  MPGACERLRLHSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRY 78
           MPG      + +L      S   G    KD+ RVVV+G ARVGK++I+ QFLYD F   Y
Sbjct: 1   MPGTGHVPSVSALQPPHEESGHHGGHPAKDQYRVVVLGAARVGKTAIVHQFLYDEFPVDY 60

Query: 79  KETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWD 138
             TVEE H GEYEL +GA LTLDI+DTSG+Y FPAMR L+ISTADAFVLVYA+DD  +++
Sbjct: 61  FATVEEFHTGEYEL-NGASLTLDIVDTSGSYPFPAMRRLAISTADAFVLVYAIDDPESFE 119

Query: 139 VVKDLREQIVNKRGLMVPIVVVGNKCELE--FKDVRREIAETIALYDWQCGFVECSAKEN 196
             + + +QIV  R    P+VVVGNKC+L    + VRRE+AETI   DW+ GFVE SAKEN
Sbjct: 120 EARRIHDQIVELRSARAPVVVVGNKCDLPTAMRRVRREVAETIISIDWEHGFVESSAKEN 179

Query: 197 YNIVQVFKELLAQAKVQYNLSPA-VRRRRQSLPNYIGTTGSASSKGRYMLKRNSCTVA 253
            NI+ +FKELL QAK+ Y+L+PA V +RR+SLP Y     S + K + +LKRNSC V+
Sbjct: 180 INILGIFKELLVQAKIPYDLNPAVVNKRRRSLPVY---PTSPTIKDKALLKRNSCAVS 234

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427787407|gb|JAA59155.1| Putative membrane [Rhipicephalus pulchellus]

 Score =  245 bits (626), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 125/238 (52%), Positives = 163/238 (68%), Gaps = 7/238 (2%)

Query: 19  MPGACERLRLHSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRY 78
           MP   +   L +L       +       KD+ RVVV+G ARVGK++I+ QFLYD F   Y
Sbjct: 1   MPSTGQVPSLSALQPPPHEDAHHSHHPAKDQYRVVVLGAARVGKTAIVHQFLYDEFPVDY 60

Query: 79  KETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWD 138
             TVEE H GEYEL +GA LTLDI+DTSG+Y FPAMR L+I+TADAF+LVYA+DD  +++
Sbjct: 61  FATVEEFHTGEYEL-NGASLTLDIVDTSGSYPFPAMRRLAITTADAFILVYAIDDPESFE 119

Query: 139 VVKDLREQIVNKRGLMVPIVVVGNKCELE--FKDVRREIAETIALYDWQCGFVECSAKEN 196
             + + +QIV  R    P+VVVGNKC+L    + VRRE+AETI   DW+ GFVE SAKEN
Sbjct: 120 EARRIHDQIVELRSAKAPVVVVGNKCDLPPAMRRVRREVAETIISIDWEHGFVEASAKEN 179

Query: 197 YNIVQVFKELLAQAKVQYNLSPA-VRRRRQSLPNYIGTTGSASSKGRYMLKRNSCTVA 253
            N++ +FKELL QAK+ Y+L+PA V +RR+SLP Y     S + K + +LKRNSC V+
Sbjct: 180 INVLGIFKELLVQAKIPYDLNPAVVNKRRRSLPVY---PTSPTIKDKTLLKRNSCAVS 234

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346468989|gb|AEO34339.1| hypothetical protein [Amblyomma maculatum]

 Score =  243 bits (621), Expect = 5e-62,   Method: Compositional matrix adjust.
 Identities = 124/210 (59%), Positives = 156/210 (74%), Gaps = 7/210 (3%)

Query: 47  KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTS 106
           KD  RVVV+G ARVGK++I+ QFLYD F   Y  TVEE H G+YEL +GA LTLDI+DTS
Sbjct: 31  KDHYRVVVLGAARVGKTAIVHQFLYDEFPVDYFATVEEFHTGQYEL-NGASLTLDIVDTS 89

Query: 107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL 166
           G+Y FPAMR L+ISTADAFVLVYAVDD  +++ V+ +R+QI+ +R   VP+VVVGNKCEL
Sbjct: 90  GSYSFPAMRLLAISTADAFVLVYAVDDPESFEEVRRIRDQIIEQRSASVPLVVVGNKCEL 149

Query: 167 E--FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAV-RRR 223
               + VRRE+AETI   DW+ GFVE SAKEN NI+ +FKELL QAK+  +L+P V  +R
Sbjct: 150 PTSVRRVRREVAETIISIDWENGFVESSAKENINILGIFKELLVQAKIPQDLNPTVINKR 209

Query: 224 RQSLPNYIGTTGSASSKGRYMLKRNSCTVA 253
           R+SLP +     S   K + +LKRNSC V+
Sbjct: 210 RRSLPVF---PTSPPIKNKALLKRNSCAVS 236

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346468987|gb|AEO34338.1| hypothetical protein [Amblyomma maculatum]

 Score =  243 bits (619), Expect = 8e-62,   Method: Compositional matrix adjust.
 Identities = 123/210 (58%), Positives = 157/210 (74%), Gaps = 7/210 (3%)

Query: 47  KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTS 106
           KD  RVVV+G ARVGK++I+ QFLYD F   Y  TVEE H G+YEL +GA LTLDI+DTS
Sbjct: 65  KDHYRVVVLGAARVGKTAIVHQFLYDEFPVDYFATVEEFHTGQYEL-NGASLTLDIVDTS 123

Query: 107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL 166
           G+Y FPAMR L+ISTADAFVLVYAVDD  +++ V+ +R+QI+++R   +P+VVVGNKCEL
Sbjct: 124 GSYSFPAMRLLAISTADAFVLVYAVDDPESFEEVRRIRDQIIDQRSASIPLVVVGNKCEL 183

Query: 167 E--FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAV-RRR 223
               + VRRE+AETI   DW+ GFVE SAKEN NI+ +FKELL QAK+  +L+P V  +R
Sbjct: 184 PSSVRRVRREVAETIISIDWEHGFVESSAKENINILGIFKELLVQAKIPQDLNPTVINKR 243

Query: 224 RQSLPNYIGTTGSASSKGRYMLKRNSCTVA 253
           R+SLP +     S   K + +LKRNSC V+
Sbjct: 244 RRSLPVF---PTSPPIKNKSLLKRNSCAVS 270

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

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	253
FB|FBgn0040370	306	CG13375 [Drosophila melanogast	0.695	0.575	0.568	2.9e-48
UNIPROTKB|F1P3K5	208	RAP2B "Uncharacterized protein	0.723	0.879	0.487	4.8e-39
ZFIN|ZDB-GENE-050506-133	208	zgc:153845 "zgc:153845" [Danio	0.723	0.879	0.456	3.9e-37
ZFIN|ZDB-GENE-060818-9	211	zgc:152698 "zgc:152698" [Danio	0.735	0.881	0.425	3.2e-33
UNIPROTKB|F1NCA3	268	RASD2 "Uncharacterized protein	0.636	0.600	0.393	1.7e-27
ZFIN|ZDB-GENE-040426-1473	265	rasd1 "RAS, dexamethasone-indu	0.636	0.607	0.401	2.2e-27
UNIPROTKB|Q19NX1	278	RASD1 "Uncharacterized protein	0.719	0.654	0.372	2.8e-27
UNIPROTKB|F1SB13	281	RASD1 "Uncharacterized protein	0.636	0.572	0.404	4.5e-27
WB|WBGene00006055	320	ssr-2 [Caenorhabditis elegans	0.565	0.446	0.429	7.3e-27
UNIPROTKB|Q9Y272	281	RASD1 "Dexamethasone-induced R	0.636	0.572	0.393	1.5e-26

FB|FBgn0040370 CG13375 [Drosophila melanogaster (taxid:7227)]

 Score = 504 (182.5 bits), Expect = 2.9e-48, P = 2.9e-48
 Identities = 104/183 (56%), Positives = 135/183 (73%)

Query:    62 KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
             K+SII+QFLY+ F ++YK T+EE+H+G + +  G  LTLDILDT+G+Y+FPAMR LSIS+
Sbjct:    60 KTSIITQFLYNTFSTKYKRTIEEMHQGNFSIA-GVSLTLDILDTAGSYEFPAMRALSISS 118

Query:   122 ADAFVLVYAVDDASTWDVVKDLREQI-VNKRGLMVPIVVVGNKCELEFK-DVRREI---- 175
             ADAF+LVY V DA+T++ V+ +R+QI   K    VPIVVVGNK +L    +  RE+    
Sbjct:   119 ADAFILVYDVTDATTFEEVRTIRDQIHETKATTAVPIVVVGNKIDLLADGETEREVEYAT 178

Query:   176 AETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTG 235
              E++   DW+ GFVE SA  N NI QVFKELLAQAK+ YNLSPA+RRRRQSLP  IG  G
Sbjct:   179 TESVVTVDWENGFVEASASSNENITQVFKELLAQAKITYNLSPALRRRRQSLPQQIGNNG 238

Query:   236 SAS 238
              ++
Sbjct:   239 PST 241

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

GO:0016020 "membrane" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

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

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|F1P3K5 RAP2B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 417 (151.9 bits), Expect = 4.8e-39, P = 4.8e-39
 Identities = 94/193 (48%), Positives = 128/193 (66%)

Query:    62 KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
             K+++I +FL D F  +++ TVEELH  EYE+  GA +TL+ILDTSG+Y FPAMR+LSI  
Sbjct:    23 KTALIRRFLLDTFEPKHRRTVEELHSKEYEV-SGATVTLEILDTSGSYSFPAMRKLSIQN 81

Query:   122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEF-KDVRREIAETI 179
             +DAF LVYAVDDA +++ +K LRE+I+  K     PIVVVGNK E    + V  E A ++
Sbjct:    82 SDAFALVYAVDDAESFESIKSLREEILEVKEDKFPPIVVVGNKAESGGERQVPAEDALSL 141

Query:   180 ALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTGSASS 239
                DW   FVE SAK+N N+++VF+ELL QA++   L PA+ RRR++ P+  G       
Sbjct:   142 VELDWNSRFVETSAKDNENVLEVFRELLQQARLPGRLGPALCRRRETFPSEHGLRPP--- 198

Query:   240 KGRYMLKRNSCTV 252
                 M K NSC+V
Sbjct:   199 ----MNKTNSCSV 207

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

ZFIN|ZDB-GENE-050506-133 zgc:153845 "zgc:153845" [Danio rerio (taxid:7955)]

 Score = 399 (145.5 bits), Expect = 3.9e-37, P = 3.9e-37
 Identities = 89/195 (45%), Positives = 127/195 (65%)

Query:    62 KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
             K+++I +FL D F  +++ TVEELH  EYE+  G ++T++I+DTSG+Y FPAMR+LSI  
Sbjct:    23 KTALIKRFLQDSFEPKHRRTVEELHSKEYEVA-GVKVTINIMDTSGSYSFPAMRKLSIQN 81

Query:   122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCE--LEFKDVRREIAET 178
              DAF LVY+VDD  + +VV  LRE+I+  K     PIVVVGNK +  +E +    ++   
Sbjct:    82 GDAFALVYSVDDPESLEVVNRLREEILEVKEDKFTPIVVVGNKKDRLIERRVSADDVLAK 141

Query:   179 IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTGSAS 238
             + + DW   F+E SAKEN N+++VFKELL QA +   LSPA+RRRR++ P  +       
Sbjct:   142 VEM-DWNNCFMEASAKENENVMEVFKELLQQANLPSRLSPALRRRRETFPKDLSLRPP-- 198

Query:   239 SKGRYMLKRNSCTVA 253
                  M K NSC+V+
Sbjct:   199 -----MNKTNSCSVS 208

GO:0005525 "GTP binding" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

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

GO:0000166 "nucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-060818-9 zgc:152698 "zgc:152698" [Danio rerio (taxid:7955)]

 Score = 362 (132.5 bits), Expect = 3.2e-33, P = 3.2e-33
 Identities = 83/195 (42%), Positives = 122/195 (62%)

Query:    62 KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
             K+++I++FL DRF S+Y  TVEELH  EY+  +GA++ ++ILDTSG+Y FPAMR L I T
Sbjct:    23 KTALITRFLQDRFDSKYTRTVEELHALEYDT-EGARVRIEILDTSGSYPFPAMRALCIRT 81

Query:   122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFKDVRREIAETIA 180
              DAF LVYA D+  + + V+ LRE+I+  +G     I V+ NK +L  +  R+  AE + 
Sbjct:    82 GDAFALVYAADEPDSLEEVQRLREEILELKGESFTGITVIENKADLCSRS-RQATAEAMR 140

Query:   181 LY--DWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTGSAS 238
                 DW  GFVE SA+   N+  VF++LL Q K+   +SPA+RRR Q++   +    +  
Sbjct:   141 AVEEDWGAGFVETSARTGDNVTAVFRDLLQQMKLPSRVSPALRRRTQTMSREL----TEK 196

Query:   239 SKGRYMLKRNSCTVA 253
              +   M K NSC ++
Sbjct:   197 REKPPMKKNNSCILS 211

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1NCA3 RASD2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 308 (113.5 bits), Expect = 1.7e-27, P = 1.7e-27
 Identities = 68/173 (39%), Positives = 106/173 (61%)

Query:    62 KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
             KSSI+S+FL  RF  +Y  T+E+ HR  Y +  G    LDILDTSG + FPAMR LSI T
Sbjct:    34 KSSIVSRFLNGRFEDQYTPTIEDFHRKVYNIR-GDMYQLDILDTSGNHPFPAMRRLSILT 92

Query:   122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM---------VPIVVVGNKCELE--FKD 170
              D F+LV+++D+  ++D VK L++QI+  +  +         +P+V+ GNK +    ++ 
Sbjct:    93 GDVFILVFSLDNRESFDEVKRLQKQILEVKSCLKNKTKESADLPMVICGNKNDHSEIYRK 152

Query:   171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRR 223
             VR +  E +   D  C + E SAK+N N+ ++F  L + AK+ + +SPA+ R+
Sbjct:   153 VRSDEGENLVSSDENCAYFEVSAKKNTNVDEMFYVLFSMAKLPHEMSPALHRK 205

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

GO:0001963 "synaptic transmission, dopaminergic" evidence=IEA

GO:0007626 "locomotory behavior" evidence=IEA

GO:0031681 "G-protein beta-subunit binding" evidence=IEA

ZFIN|ZDB-GENE-040426-1473 rasd1 "RAS, dexamethasone-induced 1" [Danio rerio (taxid:7955)]

 Score = 307 (113.1 bits), Expect = 2.2e-27, P = 2.2e-27
 Identities = 69/172 (40%), Positives = 105/172 (61%)

Query:    62 KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
             K++I+S+FL  RF  +Y  T+E+ HR  Y +  G    LDILDTSG + FPAMR LSI T
Sbjct:    32 KTAIVSRFLNGRFEEQYTPTIEDFHRKLYSIK-GDVYQLDILDTSGNHPFPAMRRLSILT 90

Query:   122 ADAFVLVYAVDDASTWDVVKDLREQIVN---------KRGLMVPIVVVGNKCELEF-KDV 171
              D F+LV+++D+  ++  V+ L++QI           K  + VP+V+ GNK + EF ++V
Sbjct:    91 GDVFILVFSLDNRESFHEVQRLKQQIYETKSCLKNKTKENVDVPLVICGNKGDREFYREV 150

Query:   172 RREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRR 223
             +R+  E +   D QC + E SAK N N+ Q+F+ L   AK+   +SP + R+
Sbjct:   151 QRDEIEQLIAGDEQCAYFEISAKRNTNVDQMFQRLFTLAKLPNEMSPDLHRK 202

GO:0005525 "GTP binding" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

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

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q19NX1 RASD1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 306 (112.8 bits), Expect = 2.8e-27, P = 2.8e-27
 Identities = 73/196 (37%), Positives = 119/196 (60%)

Query:    62 KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
             K++I+S+FL  RF  +Y  T+E+ HR  Y +  G    LDILDTSG + FPAMR LSI T
Sbjct:    37 KTAIVSRFLTGRFEEQYTPTIEDFHRKFYSIR-GEVYQLDILDTSGNHPFPAMRRLSILT 95

Query:   122 ADAFVLVYAVDDASTWDVVKDLREQIVN---------KRGLMVPIVVVGNKCELEF-KDV 171
              D F+LV+++D+  +++ V+ L++QI+          K  + VP+V+ GNK + +F ++V
Sbjct:    96 GDVFILVFSLDNRDSFEEVQRLKQQILETKSCLKNKTKENIEVPLVICGNKGDRDFYREV 155

Query:   172 R-REIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNY 230
             + REI + +     +C + E SAK+N ++ Q+F+ L A AK+   +SP + R+  S+  Y
Sbjct:   156 QPREIEQLVGADPKKCAYFEISAKKNSSLDQMFQALFAMAKLPSEMSPDLHRK-VSV-QY 213

Query:   231 IGTTGSASSKGRYMLK 246
                    + KG+ +LK
Sbjct:   214 CDILHKKALKGKKLLK 229

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

GO:0003924 "GTPase activity" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|F1SB13 RASD1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 304 (112.1 bits), Expect = 4.5e-27, P = 4.5e-27
 Identities = 70/173 (40%), Positives = 108/173 (62%)

Query:    62 KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
             K++I+S+FL  RF   Y  TVE+ HR  Y +  G    LDILDTSG + FPAMR LSI T
Sbjct:    42 KTAIVSRFLTGRFEDAYTPTVEDFHRKFYRIR-GEVYQLDILDTSGNHPFPAMRRLSILT 100

Query:   122 ADAFVLVYAVDDASTWDVVKDLREQIVN---------KRGLMVPIVVVGNKCELEF-KDV 171
              D F+LV+++D+  +++ V+ L++QI++         K+ + VP+V+ GNK + +F ++V
Sbjct:   101 GDVFILVFSLDNRDSFEEVQRLKQQILDTKSCLKNKTKKNVDVPLVICGNKGDRDFHREV 160

Query:   172 -RREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRR 223
              RREI + +      C + E SAK N ++ Q+F+ L A AK+   +SP + RR
Sbjct:   161 ERREIEQLVGADSRCCAYFEISAKRNSSLDQMFRALFAMAKLPCEMSPDLHRR 213

GO:0016020 "membrane" evidence=IEA

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

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

WB|WBGene00006055 ssr-2 [Caenorhabditis elegans (taxid:6239)]

 Score = 302 (111.4 bits), Expect = 7.3e-27, P = 7.3e-27
 Identities = 64/149 (42%), Positives = 100/149 (67%)

Query:    62 KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
             K++II ++LY+ F S+YKET+E+LH  E+ +  G  L LDILDT+  + FP MR LSI++
Sbjct:    18 KTNIIRRYLYNEFSSKYKETIEDLHSREFRI-QGVPLPLDILDTN--FNFPDMRRLSIAS 74

Query:   122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVVVGNKCELEFKDVRREIAETI 179
             A AF+LV++VDD +++  + D+ ++I ++R  +  +PIVVVGNKC++E K +  E A+  
Sbjct:    75 ASAFLLVFSVDDVTSFKEMSDIWQEICSRRSDLNELPIVVVGNKCDVENKKIYEETAKAF 134

Query:   180 A-LYDWQCGFVECSAKENYNIVQVFKELL 207
                      ++E SAK+N  I  VF+ LL
Sbjct:   135 TNRLSSDVRYIEVSAKDNIRITDVFRTLL 163

GO:0005525 "GTP binding" evidence=IEA

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

GO:0003924 "GTPase activity" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

UNIPROTKB|Q9Y272 RASD1 "Dexamethasone-induced Ras-related protein 1" [Homo sapiens (taxid:9606)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 68/173 (39%), Positives = 109/173 (63%)

Query:    62 KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
             K++I+S+FL  RF   Y  T+E+ HR  Y +  G    LDILDTSG + FPAMR LSI T
Sbjct:    37 KTAIVSRFLTGRFEDAYTPTIEDFHRKFYSIR-GEVYQLDILDTSGNHPFPAMRRLSILT 95

Query:   122 ADAFVLVYAVDDASTWDVVKDLREQIVN---------KRGLMVPIVVVGNKCELEF-KDV 171
              D F+LV+++D+  +++ V+ LR+QI++         K  + VP+V+ GNK + +F ++V
Sbjct:    96 GDVFILVFSLDNRDSFEEVQRLRQQILDTKSCLKNKTKENVDVPLVICGNKGDRDFYREV 155

Query:   172 -RREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRR 223
              +REI + +     +C + E SAK+N ++ Q+F+ L A AK+   +SP + R+
Sbjct:   156 DQREIEQLVGDDPQRCAYFEISAKKNSSLDQMFRALFAMAKLPSEMSPDLHRK 208

GO:0003924 "GTPase activity" evidence=IEA

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

GO:0005525 "GTP binding" evidence=IEA

GO:0007263 "nitric oxide mediated signal transduction" evidence=IEA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0007165 "signal transduction" evidence=TAS

GO:0007186 "G-protein coupled receptor signaling pathway" evidence=TAS

---

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)
O94363	RHB1_SCHPO	No assigned EC number	0.3216	0.6600	0.9027	yes	N/A
Q96D21	RHES_HUMAN	No assigned EC number	0.4052	0.6877	0.6541	yes	N/A
P63032	RHES_MOUSE	No assigned EC number	0.4	0.6877	0.6541	yes	N/A
P63033	RHES_RAT	No assigned EC number	0.4	0.6877	0.6541	yes	N/A
P18613	RAPA_DICDI	No assigned EC number	0.3828	0.6798	0.9247	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	253
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	2e-79
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	6e-56
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	7e-51
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	4e-50
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	2e-48
pfam00071	162	pfam00071, Ras, Ras family	9e-40
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	1e-36
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	2e-36
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	4e-36
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	4e-34
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	3e-33
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	3e-32
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	5e-31
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	6e-29
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	1e-28
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	1e-28
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	2e-28
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	4e-27
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	2e-25
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	9e-23
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	4e-22
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	1e-20
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	5e-20
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	7e-20
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	1e-19
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	7e-19
pfam08477	116	pfam08477, Miro, Miro-like protein	1e-18
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	3e-18
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	3e-17
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	7e-17
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	4e-16
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	4e-16
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	1e-15
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	1e-15
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	2e-14
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	7e-14
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	1e-13
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	1e-13
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	1e-13
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	3e-12
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	1e-11
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	2e-11
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	4e-11
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	3e-10
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	7e-10
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	2e-09
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	6e-09
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	6e-09
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	7e-09
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	9e-09
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	1e-08
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	1e-08
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	2e-08
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	2e-08
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	3e-08
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	3e-08
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	4e-08
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	4e-08
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	5e-08
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	6e-08
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	6e-08
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	7e-08
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	8e-08
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	1e-07
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	3e-07
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	6e-07
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	8e-07
cd01887	169	cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ euk	1e-06
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	2e-06
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	2e-06
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	3e-06
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	4e-06
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	5e-06
cd00880	161	cd00880, Era_like, E	5e-06
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	6e-06
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	7e-06
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	8e-06
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	9e-06
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	2e-05
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	2e-05
TIGR00487	587	TIGR00487, IF-2, translation initiation factor IF-	3e-05
cd04103	158	cd04103, Centaurin_gamma, Centaurin gamma (CENTG)	3e-05
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	8e-05
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	1e-04
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	2e-04
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	2e-04
pfam00009	184	pfam00009, GTP_EFTU, Elongation factor Tu GTP bind	0.001
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	0.001
cd00881	183	cd00881, GTP_translation_factor, GTP translation f	0.001
TIGR00483	426	TIGR00483, EF-1_alpha, translation elongation fact	0.002
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	0.002
COG0532	509	COG0532, InfB, Translation initiation factor 2 (IF	0.003
CHL00189	742	CHL00189, infB, translation initiation factor 2; P	0.004

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

 Score =  237 bits (606), Expect = 2e-79
 Identities = 105/205 (51%), Positives = 136/205 (66%), Gaps = 10/205 (4%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           R+V MG A VGK+++I +FLYD F  +++ TVEELH  EYE   G ++T+DILDTSG+Y 
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVEELHSKEYE-VAGVKVTIDILDTSGSYS 59

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCE-LEF 168
           FPAMR+LSI   DAF LVY+VDD  +++ VK LRE+I+  K    VPIVVVGNK + L  
Sbjct: 60  FPAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPIVVVGNKIDSLAE 119

Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLP 228
           + V    A +    DW  GFVE SAK+N N+ +VFKELL QA +   LSPA+RRRR+S P
Sbjct: 120 RQVEAADALSTVELDWNNGFVEASAKDNENVTEVFKELLQQANLPSWLSPALRRRRESAP 179

Query: 229 NYIGTTGSASSKGRYMLKRNSCTVA 253
                  S   +   M K NSC+V+
Sbjct: 180 -------SEIQRRPPMNKTNSCSVS 197

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

 Score =  176 bits (448), Expect = 6e-56
 Identities = 64/166 (38%), Positives = 99/166 (59%), Gaps = 12/166 (7%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G   VGKS++  +F+   F+  Y  T+E+ +R +  + DG   TLDILDT+G  +
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIEDSYRKQIVV-DGETYTLDILDTAGQEE 59

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELE-- 167
           F AMR+  I   D F+LVY++    +++ +K++REQI+  K    VPIV+VGNKC+LE  
Sbjct: 60  FSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENE 119

Query: 168 ---FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
                +    +AE      W C F+E SAK N NI ++F  L+ + 
Sbjct: 120 RQVSTEEGEALAEE-----WGCPFLETSAKTNINIDELFNTLVREI 160

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

 Score =  163 bits (415), Expect = 7e-51
 Identities = 64/164 (39%), Positives = 102/164 (62%), Gaps = 4/164 (2%)

Query: 50  RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
            ++VV+GG  VGKS++  QF+   F+  Y  T+E+ +R + E+ DG    LDILDT+G  
Sbjct: 3   YKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIEDSYRKQIEI-DGEVCLLDILDTAGQE 61

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELEF 168
           +F AMR+  + T + F+LVY++ D  +++ +   REQI+  +    VPIV+VGNKC+LE 
Sbjct: 62  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDDVPIVLVGNKCDLEN 121

Query: 169 K-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +  V  E  + +A   W C F+E SAKE  N+ + F +L+ + +
Sbjct: 122 ERVVSTEEGKELA-RQWGCPFLETSAKERINVDEAFYDLVREIR 164

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|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score =  161 bits (410), Expect = 4e-50
 Identities = 64/164 (39%), Positives = 102/164 (62%), Gaps = 4/164 (2%)

Query: 50  RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
            ++VV+G   VGKS++  QF+   F+  Y  T+E+ +R + E+ DG    LDILDT+G  
Sbjct: 1   YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIEDSYRKQIEI-DGEVCLLDILDTAGQE 59

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELEF 168
           +F AMR+  + T + F+LVY++ D  +++ +K  REQI+  +    VPIV+VGNKC+LE 
Sbjct: 60  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLES 119

Query: 169 K-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +  V  E  + +A   W C F+E SAKE  N+ + F +L+ + +
Sbjct: 120 ERVVSTEEGKELA-RQWGCPFLETSAKERVNVDEAFYDLVREIR 162

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

 Score =  159 bits (405), Expect = 2e-48
 Identities = 73/184 (39%), Positives = 118/184 (64%), Gaps = 11/184 (5%)

Query: 50  RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
            R+VV+G ++VGK++I+S+FL  RF  +Y  T+E+ HR  Y +  G    LDILDTSG +
Sbjct: 1   YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIEDFHRKLYSI-RGEVYQLDILDTSGNH 59

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN---------KRGLMVPIVVV 160
            FPAMR LSI T D F+LV+++D+  +++ V  LREQI+          K  + +P+V+ 
Sbjct: 60  PFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVIC 119

Query: 161 GNKCELEF-KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPA 219
           GNK + +F ++V+R+  E +   D  C + E SAK+N N+ ++F+ L + AK+   +SP+
Sbjct: 120 GNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFSLAKLPNEMSPS 179

Query: 220 VRRR 223
           + R+
Sbjct: 180 LHRK 183

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|215692 pfam00071, Ras, Ras family

 Score =  134 bits (341), Expect = 9e-40
 Identities = 57/163 (34%), Positives = 91/163 (55%), Gaps = 4/163 (2%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETV-EELHRGEYELPDGAQLTLDILDTSGAY 109
           ++V++G   VGKSS++ +F  ++F   Y  T+  + +    E+ DG  + L I DT+G  
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEV-DGKTVKLQIWDTAGQE 59

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK 169
           +F A+R L    A  F+LVY +    +++ VK   E+I+      VPIV+VGNKC+LE +
Sbjct: 60  RFRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQ 119

Query: 170 D-VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
             V  E  E +A  +    F+E SAK N N+ + F+EL  +  
Sbjct: 120 RVVSTEEGEALA-KELGLPFMETSAKTNENVEEAFEELAREIL 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|133375 cd04175, Rap1, Rap1 family GTPase consists of Rap1a and Rap1b isoforms

 Score =  127 bits (320), Expect = 1e-36
 Identities = 66/161 (40%), Positives = 105/161 (65%), Gaps = 4/161 (2%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G   VGKS++  QF+   F+ +Y  T+E+ +R + E+ DG Q  L+ILDT+G  Q
Sbjct: 3   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEV-DGQQCMLEILDTAGTEQ 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELEFK 169
           F AMR+L +     FVLVY++   ST++ ++DLREQI+  +    VP+++VGNKC+LE +
Sbjct: 62  FTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDE 121

Query: 170 D-VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
             V +E  + +A   W C F+E SAK   N+ ++F +L+ Q
Sbjct: 122 RVVGKEQGQNLA-RQWGCAFLETSAKAKINVNEIFYDLVRQ 161

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 =  126 bits (317), Expect = 2e-36
 Identities = 62/163 (38%), Positives = 101/163 (61%), Gaps = 4/163 (2%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           + +VVV+G   VGKS++  QF+   FI +Y  T+E+ +R E E+ D +   L+ILDT+G 
Sbjct: 1   EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIEDFYRKEIEV-DSSPSVLEILDTAGT 59

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELE 167
            QF +MR+L I     F++VY++ +  T+  +K +R+QIV  +G   VPI++VGNK +LE
Sbjct: 60  EQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLE 119

Query: 168 F-KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
             ++V       +A  +W C F+E SAK    + ++F E++ Q
Sbjct: 120 SEREVSSAEGRALA-EEWGCPFMETSAKSKTMVNELFAEIVRQ 161

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|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score =  125 bits (316), Expect = 4e-36
 Identities = 65/162 (40%), Positives = 102/162 (62%), Gaps = 5/162 (3%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G   VGKS++  QF+ + FI  Y  T+E+ +R + E+ DG Q  L+ILDT+G  Q
Sbjct: 3   KIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYRKQVEI-DGRQCDLEILDTAGTEQ 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEF- 168
           F AMREL I +   F+LVY+V   ++ + + +LREQ++  K    VP+V+VGNK +LE  
Sbjct: 62  FTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDD 121

Query: 169 KDVRREIAETIALYDW-QCGFVECSAKENYNIVQVFKELLAQ 209
           + V RE   +++   W    F E SA++  N+ +VF +L+ Q
Sbjct: 122 RQVSREDGVSLS-QQWGNVPFYETSARKRTNVDEVFIDLVRQ 162

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

 Score =  120 bits (304), Expect = 4e-34
 Identities = 54/175 (30%), Positives = 94/175 (53%), Gaps = 8/175 (4%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           +R++ V+G   VGKSS+  QF+   F+  Y  T+E           G +  L+I+DT+G 
Sbjct: 1   QRKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFSKIITY-KGQEYHLEIVDTAGQ 59

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELE 167
            ++  + +        ++LVY+V    +++VVK + ++I++  G   VPIV+VGNK +L 
Sbjct: 60  DEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDL- 118

Query: 168 FKDVRREI--AETIALYD-WQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPA 219
              + R++   E   L + W   F+E SAKEN N+ + F+ L+ + +   N  P 
Sbjct: 119 --HMERQVSAEEGKKLAESWGAAFLESSAKENENVEEAFELLIEEIEKVENPLPP 171

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

 Score =  118 bits (297), Expect = 3e-33
 Identities = 63/161 (39%), Positives = 101/161 (62%), Gaps = 3/161 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G   VGKS++  QF+   F+ +Y  T+E+ +R + E+ D  Q  L+ILDT+G  Q
Sbjct: 3   KLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIEDSYRKQIEV-DCQQCMLEILDTAGTEQ 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEF- 168
           F AMR+L I     F LVY++    +++ ++DLREQI+  K    VP+++VGNKC+LE  
Sbjct: 62  FTAMRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDE 121

Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           + V +E  + +A     C F+E SAK   N+ ++F +L+ Q
Sbjct: 122 RVVSKEEGQNLARQWGNCPFLETSAKSKINVDEIFYDLVRQ 162

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

 Score =  115 bits (290), Expect = 3e-32
 Identities = 63/161 (39%), Positives = 94/161 (58%), Gaps = 6/161 (3%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           RVVV G   VGKSS++ +F+   F   Y  T+E+ +R           TL I DT+G++Q
Sbjct: 3   RVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYRQVISCSKSI-CTLQITDTTGSHQ 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM---VPIVVVGNKC-EL 166
           FPAM+ LSIS   AF+LVY++    + + +K + E I   +G     +PI++VGNKC E 
Sbjct: 62  FPAMQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDES 121

Query: 167 EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL 207
             ++V       +A   W C F+E SAK N+N+ ++F+ELL
Sbjct: 122 PSREVSSSEGAALAR-TWNCAFMETSAKTNHNVQELFQELL 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|206713 cd04146, RERG_RasL11_like, Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families

 Score =  112 bits (282), Expect = 5e-31
 Identities = 66/162 (40%), Positives = 96/162 (59%), Gaps = 8/162 (4%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF 111
           + V+G + VGKS++  +FL  RFI  Y+  +E L+  +  + DG Q++L+I DT G  Q 
Sbjct: 2   IAVLGASGVGKSALTVRFLTKRFIGEYEPNLESLYSRQVTI-DGEQVSLEIQDTPGQQQN 60

Query: 112 --PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQI--VNKRGLMVPIVVVGNKCELE 167
             P   E S+  AD FVLVY++ D S++DVV  L + I  + KR   +P+++VGNK +L 
Sbjct: 61  EDPESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPVILVGNKADLL 120

Query: 168 -FKDVRREIAETIALYDWQCGFVECSAKENYNIVQ-VFKELL 207
             + V  E  + +AL +  C F E SA ENY  VQ VF EL 
Sbjct: 121 HSRQVSTEEGQKLAL-ELGCLFFEVSAAENYLEVQNVFHELC 161

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

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

 Score =  106 bits (267), Expect = 6e-29
 Identities = 51/157 (32%), Positives = 89/157 (56%), Gaps = 3/157 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G   VGKS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  +
Sbjct: 3   KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEE 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFK 169
           + AMR+  + T + F+ V+A++   +++ +   REQI   K    VP+V+VGNKC+L  +
Sbjct: 62  YSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAAR 121

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
            V     + +A   +   ++E SAK    + + F  L
Sbjct: 122 TVSTRQGQDLAK-SYGIPYIETSAKTRQGVEEAFYTL 157

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

 Score =  106 bits (266), Expect = 1e-28
 Identities = 56/158 (35%), Positives = 96/158 (60%), Gaps = 4/158 (2%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +V+++G   VGKS++  QF+YD F+  Y+ T  + +R +  L DG ++ L+ILDT+G   
Sbjct: 2   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQLNILDTAGQED 60

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFK 169
           + A+R+    + + F+LV+++ D  ++  + + REQI+  K    VP+++VGNKC+LE K
Sbjct: 61  YAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLEDK 120

Query: 170 DVRREIAETIAL-YDWQCGFVECSAKENYNIVQVFKEL 206
             +  + E   L   W   +VE SAK   N+ +VF +L
Sbjct: 121 -RQVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDL 157

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

 Score =  106 bits (267), Expect = 1e-28
 Identities = 64/185 (34%), Positives = 94/185 (50%), Gaps = 15/185 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETV-EELHRGEYELPDGAQLTLDILDTSGAY 109
           RV V+G   VGK++I+ QFL   F   Y  T    L+R    L  G    L ILD     
Sbjct: 2   RVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVL-SGRVYDLHILDVPNMQ 60

Query: 110 QFPA--------MRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM---VPIV 158
           ++P          R   +  + AF+LVY +    ++  VK LR+QI+  R       PIV
Sbjct: 61  RYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIV 120

Query: 159 VVGNKCELE-FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ-YNL 216
           VVGNK + +  +   R +   +    W+CG++ECSAK N++I+ +FKELL  A  +  + 
Sbjct: 121 VVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELLISATTRGRST 180

Query: 217 SPAVR 221
            PA+R
Sbjct: 181 HPALR 185

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

 Score =  105 bits (264), Expect = 2e-28
 Identities = 57/158 (36%), Positives = 95/158 (60%), Gaps = 4/158 (2%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+GG  VGKS++  QF+   F++ Y  T+E+ +  + E+ DG    LDILDT+G  +
Sbjct: 4   KLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCEI-DGQWARLDILDTAGQEE 62

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEF- 168
           F AMRE  + T + F+LV++V D  +++ V     QI+  K     P+++VGNK +LE  
Sbjct: 63  FSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQ 122

Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
           + V RE  + +A    +  ++E SAK+  N+ + F +L
Sbjct: 123 RQVSREEGQELA-RQLKIPYIETSAKDRVNVDKAFHDL 159

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

 Score =  103 bits (257), Expect = 4e-27
 Identities = 55/165 (33%), Positives = 98/165 (59%), Gaps = 8/165 (4%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+GG  VGKS++  QF+ + FI  Y  T+E+ +R +  + +   L LDILDT+G  +
Sbjct: 7   KLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYRKQCVIDEETCL-LDILDTAGQEE 65

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFK 169
           + AMR+  + T   F+ VY++   S+++ +   REQI+  K    VP+++VGNKC+L+ +
Sbjct: 66  YSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSE 125

Query: 170 DVRREIAETIAL---YDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              R+++          +   F+E SAK+  N+ + F EL+ + +
Sbjct: 126 ---RQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREIR 167

Length = 189

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

 Score = 97.9 bits (245), Expect = 2e-25
 Identities = 45/158 (28%), Positives = 84/158 (53%), Gaps = 4/158 (2%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETV-EELHRGEYELPDGAQLTLDILDTSGAY 109
           ++V++G + VGK+S++ +F+ ++F   YK T+  +      E+ DG ++ L I DT+G  
Sbjct: 2   KIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEV-DGKKVKLQIWDTAGQE 60

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF- 168
           +F ++       A   +LVY V +  +++ +     ++       +PI++VGNK +LE  
Sbjct: 61  RFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDLEDE 120

Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
           + V  E A+  A  +    F E SAK   N+ + F+ L
Sbjct: 121 RQVSTEEAQQFAK-ENGLLFFETSAKTGENVDEAFESL 157

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

 Score = 91.4 bits (227), Expect = 9e-23
 Identities = 55/169 (32%), Positives = 96/169 (56%), Gaps = 6/169 (3%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G   VGK+++  Q   + F+  Y  T+E+ +R +  + DG    L++LDT+G  +
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVVV-DGQPCMLEVLDTAGQEE 59

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV---NKRGLMVPIVVVGNKCELE 167
           + A+R+  I   + F+LVY++   ST++ V+  REQI    ++    VPI++VGNKC+  
Sbjct: 60  YTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKV 119

Query: 168 F-KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYN 215
           + ++V  E    +A     C F+E SAK N N+ + F  L+   + Q  
Sbjct: 120 YEREVSTEEGAALA-RRLGCEFIEASAKTNVNVERAFYTLVRALRQQRQ 167

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 89.1 bits (222), Expect = 4e-22
 Identities = 48/168 (28%), Positives = 89/168 (52%), Gaps = 14/168 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETV------EELHRGEYELPDGAQLTLDILD 104
           +++++G + VGKSS++S+F   +F  +YK T+      + +        DG ++ L I D
Sbjct: 2   KIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEV------DGKRVKLQIWD 55

Query: 105 TSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC 164
           T+G  +F ++       A   +LVY + +  +++ +++  +++       V I++VGNK 
Sbjct: 56  TAGQERFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKS 115

Query: 165 ELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +LE +  V RE AE  A  +    F E SAK N N+ + F+EL  +  
Sbjct: 116 DLEEQRQVSREEAEAFAE-EHGLPFFETSAKTNTNVEEAFEELAREIL 162

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 85.2 bits (211), Expect = 1e-20
 Identities = 42/164 (25%), Positives = 70/164 (42%), Gaps = 13/164 (7%)

Query: 53  VVMGGARVGKSSIISQFLYDRF---ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
           VV+G   VGKSS+++  L             T +       EL  G ++ L ++DT G  
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDP-DVYVKELDKG-KVKLVLVDTPGLD 58

Query: 110 QFPAMRE-----LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC 164
           +F  +       L +  AD  +LV    D  + +  K L   +   R   +PI++VGNK 
Sbjct: 59  EFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLI--LRRLRKEGIPIILVGNKI 116

Query: 165 ELEFKDVRREIAETIALY-DWQCGFVECSAKENYNIVQVFKELL 207
           +L  +    E+     L         E SAK    + ++F++L+
Sbjct: 117 DLLEEREVEELLRLEELAKILGVPVFEVSAKTGEGVDELFEKLI 160

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

 Score = 85.0 bits (210), Expect = 5e-20
 Identities = 47/215 (21%), Positives = 90/215 (41%), Gaps = 18/215 (8%)

Query: 45  LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILD 104
           L   + ++VV+G   VGK++++++ + D F   Y  T+  L   +   P    + L + D
Sbjct: 1   LFMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWD 60

Query: 105 TSGAYQFPAMRELSISTADAFVLVYAV-DDASTWDVVKDLREQIVNKRGLMVPIVVVGNK 163
           T+G  ++ ++R      A+  ++VY      S+ ++ ++  E++       VPI++VGNK
Sbjct: 61  TAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNK 120

Query: 164 CELEFKDVRREIA------ETIALYDWQC---------GFVECSAK--ENYNIVQVFKEL 206
            +L  +    E        E + L                +E SAK     N+ ++FKEL
Sbjct: 121 IDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKEL 180

Query: 207 LAQAKVQYNLSPAVRRRRQSLPNYIGTTGSASSKG 241
           L +   +          RQ          +A +  
Sbjct: 181 LRKLLEEIEKLVLKNELRQLDRLNNPIEQAALASF 215

Length = 219

>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 = 83.4 bits (206), Expect = 7e-20
 Identities = 48/158 (30%), Positives = 85/158 (53%), Gaps = 4/158 (2%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++V++G   VGKS++  QF+   F   +  T+E+ ++ +  + +   L LDILDT+G  +
Sbjct: 4   KIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKTQARIDNEPAL-LDILDTAGQAE 62

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELE-F 168
           F AMR+  +   + F++ Y+V D  ++    + +E I   +    +P+V+VGNK +LE  
Sbjct: 63  FTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKELITRVRLTEDIPLVLVGNKVDLEQQ 122

Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
           + V  E    +A  ++ C F E SA   + I   F  L
Sbjct: 123 RQVTTEEGRNLA-REFNCPFFETSAALRFYIDDAFHGL 159

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

 Score = 82.8 bits (205), Expect = 1e-19
 Identities = 51/173 (29%), Positives = 80/173 (46%), Gaps = 18/173 (10%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELP-DG--AQLTLDILDTSG 107
           R+V++G   VGKSS+I   + + F       + E       +P D    ++   I+DTS 
Sbjct: 4   RIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPE-----ITIPADVTPERVPTTIVDTSS 58

Query: 108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE 167
             Q  A     I  A+   LVY+VD  ST + ++     ++ + G+ VPI++VGNK +L 
Sbjct: 59  RPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLR 118

Query: 168 FKDVRREIAETIALYDWQCGF------VECSAKENYNIVQVFKELLAQAKVQY 214
               +  + E +        F      VECSAK   N+ +VF    AQ  V +
Sbjct: 119 DGSSQAGLEEEMLPI--MNEFREIETCVECSAKTLINVSEVF--YYAQKAVLH 167

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

 Score = 80.3 bits (199), Expect = 7e-19
 Identities = 46/157 (29%), Positives = 84/157 (53%), Gaps = 2/157 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +VV++G  RVGK+S++ +++ ++F  +++ T +     +     G ++ L I DT+G  +
Sbjct: 2   KVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQER 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-K 169
           + A+  +    AD  +LVY + DA ++  VK   +++   RG  + +V+VGNK +LE  +
Sbjct: 62  YHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQR 121

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
            V +  AE  A         E SAK    I ++F  L
Sbjct: 122 VVSKSEAEEYA-KSVGAKHFETSAKTGKGIEELFLSL 157

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|219856 pfam08477, Miro, Miro-like protein

 Score = 78.6 bits (194), Expect = 1e-18
 Identities = 34/116 (29%), Positives = 55/116 (47%), Gaps = 2/116 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +VVV+G    GKSS++SQ +   F     E   +    +    DG    L+I D  G  +
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQI--VNKRGLMVPIVVVGNKC 164
                 + +  ADA +LVY + D  + + V  L   +  + K G  +P+++VGNK 
Sbjct: 61  LKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRKLGGKIPVILVGNKL 116

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

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

 Score = 79.7 bits (197), Expect = 3e-18
 Identities = 51/191 (26%), Positives = 87/191 (45%), Gaps = 17/191 (8%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           K ++VV+G    GK+ ++  +    F   Y  TV E +    ++P+G  + L + DT+G 
Sbjct: 3   KVKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTVFENYVTTLQVPNGKIIELALWDTAGQ 62

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF 168
             +  +R LS    D  ++ Y+VD+ ++ D V+D     VN      PIV+VG K +L  
Sbjct: 63  EDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEVNHFCPGTPIVLVGLKTDLR- 121

Query: 169 KDVRR--------------EIAETIALYDWQCGFVECSAKENYNIVQVFKE--LLAQAKV 212
           KD                 E  E++A       ++ECSAK   N+ +VF     +A +K 
Sbjct: 122 KDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVFDAAINVALSKS 181

Query: 213 QYNLSPAVRRR 223
                   +++
Sbjct: 182 GRAARKKKKKK 192

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

 Score = 76.3 bits (188), Expect = 3e-17
 Identities = 38/162 (23%), Positives = 77/162 (47%), Gaps = 4/162 (2%)

Query: 50  RRVVVMGGARVGKSSIISQFLY-DRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
            ++V++G   VGKS+++++ L     I+ YK      +       DG     ++LDT+G 
Sbjct: 2   IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ 61

Query: 109 YQFPAMRELSISTADAFVLVYAVDDA--STWDVVKDLREQIVNKRGLMVPIVVVGNKCEL 166
             + A+R L     ++ + V+ +        ++++   ++I++     VPI++VGNK +L
Sbjct: 62  EDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDL 121

Query: 167 EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLA 208
               ++  +A   A  +     +  SA+   NI   FK + A
Sbjct: 122 RDAKLKTHVAFLFAKLN-GEPIIPLSAETGKNIDSAFKIVEA 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|206641 cd00157, Rho, Ras homology family (Rho) of small guanosine triphosphatases (GTPases)

 Score = 75.3 bits (186), Expect = 7e-17
 Identities = 46/176 (26%), Positives = 80/176 (45%), Gaps = 33/176 (18%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF 111
           +VV+G   VGK+ ++  +  ++F + Y  TV + +     + DG Q+ L + DT+G  ++
Sbjct: 3   IVVVGDGAVGKTCLLISYTTNKFPTEYVPTVFDNYSANVTV-DGKQVNLGLWDTAGQEEY 61

Query: 112 PAMRELSISTADAFVLVYAVDDASTWDVVKD-----LREQIVNKRGLMVPIVVVGNKCEL 166
             +R LS    D F+L ++VD  S+++ VK      ++    N     VPI++VG K   
Sbjct: 62  DRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYCPN-----VPIILVGTKI-- 114

Query: 167 EFKDVRREIAETIALYDWQ-----------------CGFVECSAKENYNIVQVFKE 205
              D+R +      L   Q                   ++ECSA     + +VF E
Sbjct: 115 ---DLRDDGNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVFDE 167

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

 Score = 73.0 bits (180), Expect = 4e-16
 Identities = 49/164 (29%), Positives = 87/164 (53%), Gaps = 9/164 (5%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETV-EELHRGEYELPDGAQLTLDILDTSGAY 109
           ++V +G   VGK+SII++F+YD F ++Y+ T+  +       + D   + L + DT+G  
Sbjct: 2   KLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYV-DDKTVRLQLWDTAGQE 60

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK 169
           +F ++    I  +   V+VY + +  ++D      + + ++RG  V IV+VGNK +L   
Sbjct: 61  RFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDL--- 117

Query: 170 DVRRE--IAETIALYDWQ-CGFVECSAKENYNIVQVFKELLAQA 210
             +R+    E           F+E SAK  +N+ Q+FK  +AQA
Sbjct: 118 SDKRQVSTEEGEKKAKENNAMFIETSAKAGHNVKQLFK-KIAQA 160

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

 Score = 73.5 bits (181), Expect = 4e-16
 Identities = 51/179 (28%), Positives = 91/179 (50%), Gaps = 27/179 (15%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETV------EELHRGEYELPDGAQLTLDILD 104
           +V+++G + VGK+S+++Q++  +F ++YK T+      +E+        D   +TL I D
Sbjct: 2   KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEV------TVDDRLVTLQIWD 55

Query: 105 TSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM----VPIVVV 160
           T+G  +F ++       AD  VLVY V +  +++ +   R++ + +         P VV+
Sbjct: 56  TAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVL 115

Query: 161 GNKCELEFKDVRREIAETIALYDWQCG------FVECSAKENYNIVQVFKELLAQAKVQ 213
           GNK +LE K   R+++   A   W C       + E SAKE  N+ Q F+ +   A  Q
Sbjct: 116 GNKIDLEEK---RQVSTKKAQ-QW-CKSKGNIPYFETSAKEAINVDQAFETIARLALEQ 169

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

 Score = 72.2 bits (177), Expect = 1e-15
 Identities = 44/165 (26%), Positives = 93/165 (56%), Gaps = 8/165 (4%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGA 108
           +V+++G   VGKSS++++++ ++F ++   T  VE L++ + E+ DG  +TL I DT+G 
Sbjct: 7   KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNK-DLEV-DGHFVTLQIWDTAGQ 64

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN----KRGLMVPIVVVGNKC 164
            +F ++R      +D  +L ++VDD+ ++  + + +++ +     K     P V++GNK 
Sbjct: 65  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 124

Query: 165 ELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           ++  + V  E A+     +    + E SAK+  N+   F+E + +
Sbjct: 125 DIPERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRR 169

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 = 71.7 bits (176), Expect = 1e-15
 Identities = 44/162 (27%), Positives = 87/162 (53%), Gaps = 5/162 (3%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGA 108
           +V+V+G   VGKSS+I +F+   F   YK+T  V+ L +  +       + L + DT+G 
Sbjct: 2   KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ 61

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-E 167
            +F A+ +     A A +LV++  D  +++ ++  +E++  + G  +P+V+V  K +L +
Sbjct: 62  EEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECG-DIPMVLVQTKIDLLD 120

Query: 168 FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
              +  E AE +A    Q      S K+++N+ ++F+ L  +
Sbjct: 121 QAVITNEEAEALAK-RLQLPLFRTSVKDDFNVTELFEYLAEK 161

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

 Score = 68.8 bits (169), Expect = 2e-14
 Identities = 45/167 (26%), Positives = 81/167 (48%), Gaps = 14/167 (8%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF 111
           +VV+G   VGK+ ++  +  + F   Y  TV E +  + E+ DG  + L + DT+G   +
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTVFENYSADVEV-DGKPVELGLWDTAGQEDY 59

Query: 112 PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL----- 166
             +R LS    D F++ ++VD  ++++ VK+     V      VPI++VG K +L     
Sbjct: 60  DRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNVPIILVGTKLDLRNDKS 119

Query: 167 --------EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE 205
                   + + V  E  + +A       ++ECSA     + +VF+E
Sbjct: 120 TLEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVFEE 166

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

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

 Score = 67.0 bits (164), Expect = 7e-14
 Identities = 48/161 (29%), Positives = 78/161 (48%), Gaps = 8/161 (4%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++++G + VGKSS++ +F  D F      T+    + +    DG ++ L I DT+G  +
Sbjct: 2   KILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQER 61

Query: 111 FPAMRELSIS---TADAFVLVYAVDDASTWDVVKD-LREQIVNKRGLMVPIVVVGNKCEL 166
           F   R L+ S    A   +LVY V    T+D +   L E            ++VGNK + 
Sbjct: 62  F---RTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDK 118

Query: 167 EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL 207
           E ++V RE  +  A       F+E SAK    + Q F+EL+
Sbjct: 119 ENREVTREEGQKFA-RKHNMLFIETSAKTRIGVQQAFEELV 158

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

 Score = 67.4 bits (165), Expect = 1e-13
 Identities = 53/196 (27%), Positives = 95/196 (48%), Gaps = 29/196 (14%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELP---------DGAQLTLD 101
           RVV++G + VGKSS+ + F            V E    E             DG + TL 
Sbjct: 2   RVVLLGDSGVGKSSLANIFTAG---------VYEDSAYEASGDDTYERTVSVDGEEATLV 52

Query: 102 ILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVV 160
           + D         + +  +   DA+V+VY+V D S+++   +LR Q+   R    +PI++V
Sbjct: 53  VYDHWEQEDGMWLEDSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRRARQAEDIPIILV 112

Query: 161 GNKCEL-EFKDVRREIAETIA-LYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYN--- 215
           GNK +L   ++V  +     A ++D  C F+E SA   +N+ ++F+ ++ Q +++ +   
Sbjct: 113 GNKSDLVRSREVSVQEGRACAVVFD--CKFIETSAALQHNVDELFEGIVRQVRLRRDSKE 170

Query: 216 ---LSPAVRRRRQSLP 228
                 A R+RR+S+ 
Sbjct: 171 KNTRRMASRKRRESIT 186

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

 Score = 66.5 bits (162), Expect = 1e-13
 Identities = 44/162 (27%), Positives = 85/162 (52%), Gaps = 10/162 (6%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++++G + VGK+S + ++  D F S +  TV    + +    +  ++ L I DT+G  +
Sbjct: 3   KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQER 62

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           +  +       A  F+L+Y + +  +++ V+D   QI         +++VGNKC++E + 
Sbjct: 63  YRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDER 122

Query: 171 V-----RREIAETIALYDWQCGFVECSAKENYNIVQVFKELL 207
           V      R++A+ +        F E SAKEN N+ QVF+ L+
Sbjct: 123 VVSAERGRQLADQLGFE-----FFEASAKENINVKQVFERLV 159

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

 Score = 66.7 bits (163), Expect = 1e-13
 Identities = 42/169 (24%), Positives = 76/169 (44%), Gaps = 24/169 (14%)

Query: 53  VVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP 112
           V++G   VGK+S+I  +  + + + Y  T  +       + DG  + L + DT+G  +F 
Sbjct: 4   VLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVVVLV-DGKPVRLQLCDTAGQDEFD 62

Query: 113 AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR 172
            +R L     D F+L ++V + S++  + +     + K     PI++VG + +L   DV 
Sbjct: 63  KLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLR-TDVN 121

Query: 173 ------------------REIAETIALYDWQCGFVECSAKENYNIVQVF 203
                             + +AE I      C ++ECSA    N+ +VF
Sbjct: 122 VLIQLARYGEKPVSQSRAKALAEKIG----ACEYIECSALTQKNLKEVF 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|206653 cd01860, Rab5_related, Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

 Score = 62.6 bits (153), Expect = 3e-12
 Identities = 47/183 (25%), Positives = 83/183 (45%), Gaps = 54/183 (29%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGA------------QL 98
           ++V++G + VGKSSI+ +F+ + F    + T+            GA             +
Sbjct: 3   KLVLLGDSSVGKSSIVLRFVKNEFSENQESTI------------GAAFLTQTVNLDDTTV 50

Query: 99  TLDILDTSGAYQFPAMRELSISTADAFVLVYAV------DDASTWDVVKDLREQ----IV 148
             +I DT+G  ++ ++  +    A A ++VY +      + A +W  VK+L+E     IV
Sbjct: 51  KFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSW--VKELQEHGPPNIV 108

Query: 149 NKRGLMVPIVVVGNKCELEFK-----DVRREIAETIALYDWQCGFVECSAKENYNIVQVF 203
                   I + GNK +LE K     +  +E A+   L      F+E SAK   N+ ++F
Sbjct: 109 --------IALAGNKADLESKRQVSTEEAQEYADENGLL-----FMETSAKTGENVNELF 155

Query: 204 KEL 206
            E+
Sbjct: 156 TEI 158

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

 Score = 61.8 bits (150), Expect = 1e-11
 Identities = 53/181 (29%), Positives = 86/181 (47%), Gaps = 17/181 (9%)

Query: 50  RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
           R+VVV+G    GK+S+++ F    F   Y+ TV E +  +  + DG  + L + DT+G  
Sbjct: 1   RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYIHDIFV-DGLAVELSLWDTAGQE 59

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVV--KDLREQIVNKRGLMVPIVVVGNKCELE 167
           +F  +R LS +     +L ++VD+  + + V  K L E   +  G  V +V+V  KC+L 
Sbjct: 60  EFDRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIRHHCPG--VKLVLVALKCDLR 117

Query: 168 FKDVRREIAETIALYDW---------QCGFVECSAKENYNIVQVFKELLAQAKVQYNLSP 218
                R+       Y+           C ++ECSAK N  + + F E    A+V  N  P
Sbjct: 118 EPRNERDRGTHTISYEEGLAVAKRINACRYLECSAKLNRGVNEAFTEA---ARVALNARP 174

Query: 219 A 219
            
Sbjct: 175 P 175

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

 Score = 60.5 bits (147), Expect = 2e-11
 Identities = 47/177 (26%), Positives = 83/177 (46%), Gaps = 32/177 (18%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           ++++V++G    GK+ ++  F  D+F   Y  TV E +  + E+ DG Q+ L + DT+G 
Sbjct: 1   RKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQ 59

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF 168
             +  +R LS    D  ++ +++D   + + + +     V      VPI++VGNK     
Sbjct: 60  EDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNK----- 114

Query: 169 KDVR----------------------REIAETIALYDWQCGFVECSAKENYNIVQVF 203
           KD+R                      R +AE I  +    G++ECSAK    + +VF
Sbjct: 115 KDLRNDEHTIRELAKMKQEPVKPEEGRAMAEKIGAF----GYLECSAKTKEGVREVF 167

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

 Score = 60.2 bits (146), Expect = 4e-11
 Identities = 42/167 (25%), Positives = 80/167 (47%), Gaps = 12/167 (7%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           +R++V++G    GK+S++  F    F   Y  TV E +  +  + DG  + L + DT+G 
Sbjct: 1   RRKLVIVGDGACGKTSLLYVFTLGEFPEEYHPTVFENYVTDCRV-DGKPVQLALWDTAGQ 59

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF 168
            ++  +R LS S A   ++ +A+D   + + V+    + V +    VP+++VG K +L  
Sbjct: 60  EEYERLRPLSYSKAHVILIGFAIDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQ 119

Query: 169 KD-----------VRREIAETIALYDWQCGFVECSAKENYNIVQVFK 204
           +            V  + A+ +A       ++ECSA     +  VF+
Sbjct: 120 EAVAKGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVFE 166

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

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

 Score = 57.1 bits (138), Expect = 3e-10
 Identities = 39/157 (24%), Positives = 81/157 (51%), Gaps = 1/157 (0%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++++G + VGK+ ++ +F    F  R   T+      +     G ++ L I DT+G  +
Sbjct: 5   KIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTAGQER 64

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFK 169
           F  + +    +A+  ++ Y +   S+++ V    E++       V ++++GNKC+L E +
Sbjct: 65  FRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQR 124

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
           +V  E A T+A +      +E SAKE+ N+ + F  +
Sbjct: 125 EVLFEEACTLAEHYGILAVLETSAKESSNVEEAFLLM 161

Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet characterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

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

 Score = 56.9 bits (137), Expect = 7e-10
 Identities = 44/160 (27%), Positives = 81/160 (50%), Gaps = 3/160 (1%)

Query: 50  RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
            +V+++G   VGK+S++ +F  D F    K TV    + +     G ++ L I DT+G  
Sbjct: 1   LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQE 60

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK--CELE 167
           +F ++      +A   +LVY +    T+D +    + I         +++VGNK  CE +
Sbjct: 61  RFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETD 120

Query: 168 FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL 207
            +++ R+  E  A       F E SAK+N+N+ ++F +L+
Sbjct: 121 -REITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLV 159

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

 Score = 55.0 bits (133), Expect = 2e-09
 Identities = 45/173 (26%), Positives = 79/173 (45%), Gaps = 24/173 (13%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++++G + VGKS ++ +F  D +   Y  T+    +      DG  + L I DT+G  +
Sbjct: 4   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAGQER 63

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQI-------VNKRGLMVPIVVVGNK 163
           F  +       A   ++VY V D  +++ VK   ++I       VNK       ++VGNK
Sbjct: 64  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNK-------LLVGNK 116

Query: 164 CELEFK-----DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           C+L  K        +E A+ +        F+E SAK   N+ + F  +  + K
Sbjct: 117 CDLTDKKVVDYTEAKEFADEL-----GIPFLETSAKNATNVEEAFMTMAREIK 164

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

 Score = 53.3 bits (128), Expect = 6e-09
 Identities = 42/169 (24%), Positives = 83/169 (49%), Gaps = 15/169 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAY 109
           +++++G + VGKS ++ +FL D +  +   T    L++   +  +G  + +D  DT+G  
Sbjct: 2   KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKF-EGKTILVDFWDTAGQE 60

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK 169
           +F  M       A A +LV+ V    T+  +    E++   R   +P +VV NK +L+  
Sbjct: 61  RFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRP-EIPCIVVANKIDLDPS 119

Query: 170 DVRREIA----ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQY 214
             +++        + LY     +V  SA +  N+V++F++ +  A V Y
Sbjct: 120 VTQKKFNFAEKHNLPLY-----YV--SAADGTNVVKLFQDAIKLA-VSY 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|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score = 53.4 bits (128), Expect = 6e-09
 Identities = 43/163 (26%), Positives = 85/163 (52%), Gaps = 8/163 (4%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++V++G A VGK+ ++ +F    F      T+      +     G ++ L I DT+G  +
Sbjct: 9   KIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQER 68

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKD-LRE--QIVNKRGLMVPIVVVGNKCEL- 166
           F ++ +    +A+A +L Y +    ++  + + LRE  Q  N +   V  ++VGNK +L 
Sbjct: 69  FRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNK---VITILVGNKIDLA 125

Query: 167 EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           E ++V ++ AE  +       ++E SAKE+ N+ ++F +L  +
Sbjct: 126 ERREVSQQRAEEFSDAQ-DMYYLETSAKESDNVEKLFLDLACR 167

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

 Score = 54.0 bits (130), Expect = 7e-09
 Identities = 36/121 (29%), Positives = 62/121 (51%), Gaps = 4/121 (3%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAY 109
           ++VV+G    GK+S+I +F  + F   YK+T+  +       LP    +TL + D  G  
Sbjct: 2   KIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQQ 61

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQI--VNKRGLMVP-IVVVGNKCEL 166
               M +  I  A A  LVY + ++ +++ ++D    +  VN+     P +V+VGNK +L
Sbjct: 62  IGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTDL 121

Query: 167 E 167
           E
Sbjct: 122 E 122

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

 Score = 52.9 bits (127), Expect = 9e-09
 Identities = 48/160 (30%), Positives = 80/160 (50%), Gaps = 10/160 (6%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAY 109
           + +++G   VGKS ++ QF   +F++    T+  E      E+ +G ++ L I DT+G  
Sbjct: 4   KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-NGQKIKLQIWDTAGQE 62

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP---IVVVGNKCEL 166
           +F A+       A   ++VY +   ST++    L   + + R L  P   I ++GNK +L
Sbjct: 63  RFRAVTRSYYRGAAGALMVYDITRRSTYN---HLSSWLTDARNLTNPNTVIFLIGNKADL 119

Query: 167 E-FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE 205
           E  +DV  E A+  A  +    F+ECSAK   N+   F E
Sbjct: 120 EAQRDVTYEEAKQFADEN-GLLFLECSAKTGENVEDAFLE 158

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

 Score = 52.7 bits (127), Expect = 1e-08
 Identities = 36/169 (21%), Positives = 81/169 (47%), Gaps = 9/169 (5%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAY 109
           ++V++G    GK++ + + L   F  +Y  T+  E+H  ++   +  ++  ++ DT+G  
Sbjct: 2   KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDF-HTNRGKIRFNVWDTAGQE 60

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK 169
           +F  +R+         ++++ V    T+  V +    +V      +PIV+ GNK +++ +
Sbjct: 61  KFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDR 119

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVF----KELLAQAKVQY 214
            V+ +        +    + E SAK NYN  + F    ++LL    +++
Sbjct: 120 KVKPKQITFHRKKN--LQYYEISAKSNYNFEKPFLWLARKLLGNPNLEF 166

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 53.1 bits (127), Expect = 1e-08
 Identities = 56/178 (31%), Positives = 86/178 (48%), Gaps = 16/178 (8%)

Query: 37  SSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELP--- 93
           SSSG   G      +++++G + VGKSS++  F     IS   E +      ++++    
Sbjct: 3   SSSGQSSGYDL-SFKILLIGDSGVGKSSLLVSF-----ISSSVEDLAPTIGVDFKIKQLT 56

Query: 94  -DGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRG 152
             G +L L I DT+G  +F  +       A   +LVY V    T+  + D+  + V    
Sbjct: 57  VGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYS 116

Query: 153 LMVPIV--VVGNKCELEF-KDVRREIAETIALY-DWQCGFVECSAKENYNIVQVFKEL 206
                V  +VGNK + E  +DV RE  E +AL  +  C F+ECSAK   N+ Q F+EL
Sbjct: 117 TNQDCVKMLVGNKVDRESERDVSRE--EGMALAKEHGCLFLECSAKTRENVEQCFEEL 172

Length = 211

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

 Score = 52.6 bits (126), Expect = 2e-08
 Identities = 43/163 (26%), Positives = 85/163 (52%), Gaps = 3/163 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFIS-RYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
           +V+++G + VGK+ ++ +F    F++  +  TV      +    DG ++ L I DT+G  
Sbjct: 2   KVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQE 61

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF- 168
           +F ++       A A +L+Y V + S++D ++    +I+      V I+++GNK ++   
Sbjct: 62  RFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADMSGE 121

Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           + V+RE  E +A  ++   F+E SAK   N+   F  +  + K
Sbjct: 122 RVVKREDGERLA-KEYGVPFMETSAKTGLNVELAFTAVAKELK 163

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|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 52.3 bits (125), Expect = 2e-08
 Identities = 43/170 (25%), Positives = 76/170 (44%), Gaps = 18/170 (10%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + VV+G   VGK+ ++  +  D F   Y  TV + H        G Q  L + DT+G   
Sbjct: 2   KCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFD-HYAVSVTVGGKQYLLGLYDTAGQED 60

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVVVGNKCEL-- 166
           +  +R LS    D F++ ++V + +++  VK+  E +   +     VP +++G + +L  
Sbjct: 61  YDRLRPLSYPMTDVFLICFSVVNPASFQNVKE--EWVPELKEYAPNVPYLLIGTQIDLRD 118

Query: 167 -----------EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE 205
                      + K +  E  + +A     C +VECSA     +  VF E
Sbjct: 119 DPKTLARLNDMKEKPITVEQGQKLAKEIGACCYVECSALTQKGLKTVFDE 168

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

 Score = 52.5 bits (126), Expect = 3e-08
 Identities = 48/164 (29%), Positives = 85/164 (51%), Gaps = 9/164 (5%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAY 109
           R++V+G + VGKSS++ +F   RF      TV  +      E+  G ++ L + DT+G  
Sbjct: 4   RLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQE 63

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKD-LREQIVNKRGLMVPIVVVGNKCELEF 168
           +F ++       +   +LV+ + +  +++ V D L E   + +      ++VG+KC+LE 
Sbjct: 64  RFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLES 123

Query: 169 -KDVRREIAETIALYDWQCG--FVECSAKENYNIVQVFKELLAQ 209
            + V RE AE +A      G  ++E SA+   N+ + F ELL Q
Sbjct: 124 QRQVTREEAEKLAKD---LGMKYIETSARTGDNVEEAF-ELLTQ 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|206659 cd01867, Rab8_Rab10_Rab13_like, Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13)

 Score = 51.5 bits (124), Expect = 3e-08
 Identities = 49/170 (28%), Positives = 84/170 (49%), Gaps = 28/170 (16%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVE--------ELHRGEYELPDGAQLTLDI 102
           +++++G + VGKS ++ +F  D F   +  T+         EL        DG ++ L I
Sbjct: 5   KLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIEL--------DGKKIKLQI 56

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI 157
            DT+G  +F      +I+T     A   +LVY + D  +++ +K+    I       V  
Sbjct: 57  WDTAGQERFR-----TITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVER 111

Query: 158 VVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
           ++VGNKC++E K  V +E  E +A  ++   F+E SAK N N+ + F  L
Sbjct: 112 MLVGNKCDMEEKRVVSKEEGEALAR-EYGIKFLETSAKANINVEEAFLTL 160

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

 Score = 51.4 bits (123), Expect = 4e-08
 Identities = 46/168 (27%), Positives = 67/168 (39%), Gaps = 13/168 (7%)

Query: 51  RVVVMGGARVGKSSIISQFLYD--RFISRYKETVE-ELHRGEYELPD-GAQLTLDILDTS 106
           +  V+G   VGKS+++  F  D   F   Y  T   +L      +PD    + L I D++
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQI-VNKRGLMVPIVVVGNKCE 165
           G   F  M E          +VY V +  +++       ++  +  GL  P V+VGNKC+
Sbjct: 62  GQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHSHGLHTPGVLVGNKCD 121

Query: 166 LEFKDVRREIAETIALYDWQCG----FVECSAKENYNIVQVFKELLAQ 209
           L     RRE+    A           F E SAKE       F  L   
Sbjct: 122 LT---DRREVDAAQA-QALAQANTLKFYETSAKEGVGYEAPFLSLARA 165

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

 Score = 50.9 bits (122), Expect = 4e-08
 Identities = 47/159 (29%), Positives = 75/159 (47%), Gaps = 16/159 (10%)

Query: 53  VVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG-EYELP----DGAQLTLDILDTSG 107
           +++G   VGKS ++ QF   RF     + V +L  G E+       DG Q+ L I DT+G
Sbjct: 8   IIIGDTGVGKSCLLLQFTDKRF-----QPVHDLTIGVEFGARMITIDGKQIKLQIWDTAG 62

Query: 108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE 167
              F ++       A   +LVY +    T++ +    E         + I+++GNKC+LE
Sbjct: 63  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLE 122

Query: 168 FK-DVRREIAETIALYDWQCG--FVECSAKENYNIVQVF 203
            + +V  E  E  A    + G  F+E SAK   N+ + F
Sbjct: 123 SRREVSYEEGEAFAR---EHGLIFMETSAKTASNVEEAF 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|133277 cd01875, RhoG, Ras homolog family, member G (RhoG) of small guanosine triphosphatases (GTPases)

 Score = 51.2 bits (122), Expect = 5e-08
 Identities = 44/189 (23%), Positives = 88/189 (46%), Gaps = 19/189 (10%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + VV+G   VGK+ ++  +  + F   Y  TV + +  +  + DG  ++L++ DT+G  +
Sbjct: 5   KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTAV-DGRTVSLNLWDTAGQEE 63

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-K 169
           +  +R LS    + F++ +++   S+++ V+      V      VPI++VG K +L    
Sbjct: 64  YDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDA 123

Query: 170 DVRREIAE------------TIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLS 217
           D  +++ E             +A       ++ECSA     + +VF E      V+  L+
Sbjct: 124 DTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAE-----AVRAVLN 178

Query: 218 PAVRRRRQS 226
           P   +  +S
Sbjct: 179 PTPIKDTKS 187

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|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 50.8 bits (121), Expect = 6e-08
 Identities = 43/174 (24%), Positives = 82/174 (47%), Gaps = 24/174 (13%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
           Q  K ++VV+G ++ GK++++  F  D F   Y  TV E +   +E+ D  ++ L + DT
Sbjct: 2   QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI-DTQRIELSLWDT 60

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE 165
           SG+  +  +R LS   +DA ++ + +    T D V    +  + +      +++VG K  
Sbjct: 61  SGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCK-- 118

Query: 166 LEFKDVRREIAETIAL---------YDWQCG---------FVECSAKENYNIVQ 201
               D+R +++  + L         YD             ++ECSA ++ N V+
Sbjct: 119 ---SDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVR 169

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 51.5 bits (123), Expect = 6e-08
 Identities = 41/160 (25%), Positives = 78/160 (48%), Gaps = 2/160 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++V++G + VGKS+I+S+F  + F    K T+           +G  +   I DT+G  +
Sbjct: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFK 169
           + A+       A   +LVY +    T+D V+    ++ +     + I++ GNK +L   +
Sbjct: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLR 133

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            V  E  + +A  +    F+E SA E  N+ + F+ +L +
Sbjct: 134 SVAEEDGQALAEKE-GLSFLETSALEATNVEKAFQTILLE 172

Length = 216

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

 Score = 50.5 bits (120), Expect = 7e-08
 Identities = 39/142 (27%), Positives = 72/142 (50%), Gaps = 4/142 (2%)

Query: 70  LYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY 129
           +YD F + Y+ T+      +    D   + L + DT+G  +F ++    I  + A ++VY
Sbjct: 1   MYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVY 60

Query: 130 AVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAE--TIALYDWQCG 187
            + +  +++      + I+N+RG  V I +VGNK +L   D+R+   E       ++   
Sbjct: 61  DITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDL--GDLRKVTYEEGMQKAQEYNTM 118

Query: 188 FVECSAKENYNIVQVFKELLAQ 209
           F E SAK  +NI  +FK++ A+
Sbjct: 119 FHETSAKAGHNIKVLFKKIAAK 140

Length = 176

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

 Score = 50.5 bits (121), Expect = 8e-08
 Identities = 42/169 (24%), Positives = 80/169 (47%), Gaps = 24/169 (14%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++V++G ++ GK++++  F  D F   Y  TV E +   +E+ D  ++ L + DTSG+  
Sbjct: 3   KIVLVGDSQCGKTALLQVFAKDSFPENYVPTVFENYTASFEV-DKQRIELSLWDTSGSPY 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           +  +R LS   +DA ++ + +    T D V    +  V +     P+++VG K      D
Sbjct: 62  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREFCPNTPVLLVGCK-----SD 116

Query: 171 VRREIAETIALYDWQC------------------GFVECSAKENYNIVQ 201
           +R +++    L + +                    +VECSAK + N V+
Sbjct: 117 LRTDLSTLTELSNKRQIPVSHEQGRNLAKQIGAAAYVECSAKTSENSVR 165

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

 Score = 50.4 bits (121), Expect = 1e-07
 Identities = 45/162 (27%), Positives = 81/162 (50%), Gaps = 19/162 (11%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG-EYELP-----DGAQLTLDILD 104
           +V+V+G   VGK+SII ++++  F   YK T+     G ++ L          + L + D
Sbjct: 2   KVLVIGDLGVGKTSIIKRYVHGVFSQHYKATI-----GVDFALKVIEWDPNTVVRLQLWD 56

Query: 105 TSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNK----RGLMVPIVVV 160
            +G  +F  M  +    A   ++V+ V   ST++ V   +  + +K     G  +P +++
Sbjct: 57  IAGQERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLL 116

Query: 161 GNKCELEFKDVRREIAETIALYDWQCGFV---ECSAKENYNI 199
            NKC+L+ K+   +  E +  +  + GF+   E SAKEN NI
Sbjct: 117 ANKCDLK-KERLAKDPEQMDQFCKENGFIGWFETSAKENINI 157

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|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score = 49.1 bits (117), Expect = 3e-07
 Identities = 46/194 (23%), Positives = 85/194 (43%), Gaps = 9/194 (4%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++++G + VGKSS++ +F  + F   Y  T+    +      +G ++ L I DT+G  +
Sbjct: 8   KLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQER 67

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F  +           ++VY V +  ++  VK   ++I       V  V+VGNK +    D
Sbjct: 68  FRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCD-DVCKVLVGNKND----D 122

Query: 171 VRREIAETIALYDW----QCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQS 226
             R++ ET   Y +         E SAKEN N+ ++F  +          + A ++++Q 
Sbjct: 123 PERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKKDNLAKQQQQQQ 182

Query: 227 LPNYIGTTGSASSK 240
                    S   K
Sbjct: 183 NDVVKLPKNSKRKK 196

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

 Score = 47.9 bits (114), Expect = 6e-07
 Identities = 43/173 (24%), Positives = 77/173 (44%), Gaps = 14/173 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + VV+G   VGK+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFD-NYAVTVMIGGEPYTLGLFDTAGQED 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL---- 166
           +  +R LS    D F++ ++V   S+++ VK+     +       P ++VG + +L    
Sbjct: 62  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 121

Query: 167 ---------EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
                    + K +  E  E +A       +VECSA     +  VF E +  A
Sbjct: 122 STIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 174

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

 Score = 47.9 bits (114), Expect = 8e-07
 Identities = 37/163 (22%), Positives = 84/163 (51%), Gaps = 10/163 (6%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
           +VV++G   VGK+S++ ++++ RF +  Y+ T+      +  +     +TL I DT+G+ 
Sbjct: 2   KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSE 61

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL--E 167
           ++ AM  +    A A ++ Y + D+S+++  K   +++ N       I + G K +L  +
Sbjct: 62  RYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEE-HCKIYLCGTKSDLIEQ 120

Query: 168 FKDVRR----EIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
            + +R+    ++ +       Q    E S+K   N+ ++F+++
Sbjct: 121 DRSLRQVDFHDVQDFADEIKAQ--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|206674 cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family

 Score = 46.7 bits (112), Expect = 1e-06
 Identities = 37/140 (26%), Positives = 57/140 (40%), Gaps = 20/140 (14%)

Query: 86  HRGEYELP-DGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDD---ASTWDVVK 141
           H G Y++P D     +  +DT G   F  MR    S  D  +LV A DD     T + + 
Sbjct: 36  HIGAYQVPIDVKIPGITFIDTPGHEAFTNMRARGASVTDIAILVVAADDGVMPQTIEAIN 95

Query: 142 DLREQIVNKRGLMVPIVVVGNKCELEFKD------VRREIAET-IALYDW--QCGFVECS 192
             +          VPI+V  NK +  +        V+ E++E  +   +W      V  S
Sbjct: 96  HAK----AAN---VPIIVAINKIDKPYGTEADPERVKNELSELGLVGEEWGGDVSIVPIS 148

Query: 193 AKENYNIVQVFKELLAQAKV 212
           AK    I  + + +L  A+V
Sbjct: 149 AKTGEGIDDLLEAILLLAEV 168

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. Length = 169

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

 Score = 46.6 bits (111), Expect = 2e-06
 Identities = 44/172 (25%), Positives = 75/172 (43%), Gaps = 21/172 (12%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET------VEELHRGEYELPDGAQLTLDILD 104
           +V+ MG + VGKS II ++   RF+S+Y  T      V+++           ++ ++  D
Sbjct: 2   KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSV------RNKEVRVNFFD 55

Query: 105 TSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVV-KDLRE--QIVNKRGLMVPI--VV 159
            SG  ++  +R          +LVY V D  +++ +   L+E  Q     G M  I  VV
Sbjct: 56  LSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVV 115

Query: 160 VGNKCELEFKDVRREIAETIALYDWQCGFV--ECSAKENYNIVQVFKELLAQ 209
             NK +L       E  +   L+    GF   E SA     + ++F+ L + 
Sbjct: 116 CANKIDLTKHRAVSE--DEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSS 165

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

 Score = 46.4 bits (110), Expect = 2e-06
 Identities = 47/168 (27%), Positives = 76/168 (45%), Gaps = 22/168 (13%)

Query: 53  VVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP 112
           V +G   VGK+ ++  +  + F + Y  TV +       + DG  + L + DT+G   + 
Sbjct: 5   VTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVV-DGNTVNLGLWDTAGQEDYN 63

Query: 113 AMRELSISTADAFVLVYA-VDDASTWDVVK----DLREQIVNKRGLMVPIVVVGNKCELE 167
            +R LS   AD F+L ++ +  AS  +V+K    +LR          VPIV+VG K +L 
Sbjct: 64  RLRPLSYRGADVFLLAFSLISKASYENVLKKWIPELRHYAPG-----VPIVLVGTKLDLR 118

Query: 168 -----FKDVRREIAETIALYDWQ------CGFVECSAKENYNIVQVFK 204
                F D    +  T A  +          ++ECS+K   N+  VF 
Sbjct: 119 DDKQFFADHPGAVPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFD 166

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 = 46.1 bits (109), Expect = 3e-06
 Identities = 43/157 (27%), Positives = 75/157 (47%), Gaps = 3/157 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + +++G + VGK  I++        S Y   +   ++    L DG ++ L + DTSG  +
Sbjct: 8   KFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGR 67

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK- 169
           F  +       A   +LVY + +  ++D +    ++I ++    VP ++VGN+  L FK 
Sbjct: 68  FCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEI-DEHAPGVPKILVGNRLHLAFKR 126

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
            V  E A+  A  +    F E S   N+NI + F EL
Sbjct: 127 QVATEQAQAYAERN-GMTFFEVSPLCNFNITESFTEL 162

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 46.1 bits (109), Expect = 4e-06
 Identities = 50/200 (25%), Positives = 85/200 (42%), Gaps = 10/200 (5%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + +++G   VGKS ++ QF   RF   +  T+           D   + L I DT+G   
Sbjct: 8   KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQES 67

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F ++       A   +LVY +    T++ +    E         + I+++GNKC+L  + 
Sbjct: 68  FRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRR 127

Query: 171 -VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ--AKVQ------YNLSPAVR 221
            V  E  E  A  +    F+E SAK   N+ + F +  A+   K+Q       N S  ++
Sbjct: 128 AVSTEEGEQFA-KEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDGVFDVSNESYGIK 186

Query: 222 RRRQSLPNYIGTTGSASSKG 241
               ++P   G     SS+G
Sbjct: 187 VGYGAIPGASGGRDGTSSQG 206

Length = 210

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

 Score = 45.5 bits (108), Expect = 5e-06
 Identities = 45/185 (24%), Positives = 85/185 (45%), Gaps = 25/185 (13%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGA 108
           ++ ++G A++GK+S++ +++   F   Y +T  V  + +       G ++T  I D  G 
Sbjct: 2   KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTIS--IRGTEITFSIWDLGGQ 59

Query: 109 YQFPAMRELSISTADAFVLVYAVD--DASTWDVVKDLREQIVNKRGL---MVPIVVVGNK 163
            +F  M  L +   DA  +++  D    ST + +K+   Q    RG     +PI+V G K
Sbjct: 60  REFINM--LPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQA---RGFNKTAIPILV-GTK 113

Query: 164 CELEFKDVRREIAETIALYD------WQCGFVECSAKENYNIVQVFKELLAQAKVQYNLS 217
            +L F D+  E  E I           +   + CS   + N+ ++FK +LA+    ++L 
Sbjct: 114 YDL-FADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKFVLAKV---FDLP 169

Query: 218 PAVRR 222
             +  
Sbjct: 170 LTIPE 174

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|206646 cd00880, Era_like, E

 Score = 44.9 bits (107), Expect = 5e-06
 Identities = 33/163 (20%), Positives = 58/163 (35%), Gaps = 21/163 (12%)

Query: 60  VGKSSIISQFLYDRFISRYKETVEELH-------RGEYELPDGAQLTLDILDTSG-AYQF 111
           VGKSS+++  L  + +      V  +        R E+EL     + L  +DT G   + 
Sbjct: 8   VGKSSLLN-ALLGQNVG----IVSPIPGTTRDPVRKEWELLPLGPVVL--IDTPGLDEEG 60

Query: 112 PAMRELSISTADAFV---LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-E 167
              RE             LV  V D+    V  +   ++   R    P+++V NK +L  
Sbjct: 61  GLGRERVEEARQVADRADLVLLVVDSDLTPV--EEEAKLGLLRERGKPVLLVLNKIDLVP 118

Query: 168 FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
             +    + E           +  SA     I ++ K++    
Sbjct: 119 ESEEEELLRERKLELLPDLPVIAVSALPGEGIDELRKKIAELL 161

coli Ras-like protein (Era)-like GTPase. The Era (E. coli Ras-like protein)-like family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngB), 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 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. Length = 161

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

 Score = 45.5 bits (108), Expect = 6e-06
 Identities = 42/179 (23%), Positives = 85/179 (47%), Gaps = 19/179 (10%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAY 109
           ++V++G    GK++ + + L   F  +Y+ T+  E+H  ++    G ++     DT+G  
Sbjct: 15  KLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCG-KIRFYCWDTAGQE 73

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVV----KDLREQIVNKRGLMVPIVVVGNKCE 165
           +F  +R+         ++++ V    T+  V    +DL     N     +PIV+ GNK +
Sbjct: 74  KFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCEN-----IPIVLCGNKVD 128

Query: 166 LEFKDVRREIAETIALYDWQC-GFVECSAKENYNIVQVF----KELLAQAKVQYNLSPA 219
           ++ + V+   A+ +  +  +   + E SAK NYN  + F    ++L     + +  SPA
Sbjct: 129 VKNRQVK---AKQVTFHRKKNLQYYEISAKSNYNFEKPFLYLARKLAGDPNLHFVESPA 184

Length = 219

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

 Score = 44.7 bits (106), Expect = 7e-06
 Identities = 48/170 (28%), Positives = 81/170 (47%), Gaps = 13/170 (7%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++V+G + VGK+ +  +F   RF  R + T+    R      DG ++ + + DT+G  +
Sbjct: 4   KIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQER 63

Query: 111 F-PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQI--VNKRGL--MVPIVVVGNKCE 165
           F  +M +       A V VY V + +++     L   I    +  L   VP ++VGNKC+
Sbjct: 64  FRKSMVQHYYRNVHAVVFVYDVTNMASF---HSLPSWIEECEQHSLPNEVPRILVGNKCD 120

Query: 166 L-EFKDVRREIAETIALYDWQCGFVECSAK---ENYNIVQVFKELLAQAK 211
           L E   V  ++A+  A       F E SAK   EN ++  +F  L  + K
Sbjct: 121 LREQIQVPTDLAQRFADAHSMPLF-ETSAKDPSENDHVEAIFMTLAHKLK 169

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

 Score = 44.5 bits (106), Expect = 8e-06
 Identities = 50/166 (30%), Positives = 85/166 (51%), Gaps = 14/166 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGA 108
           ++V++G + VGKS+++S+F  + F    K T  VE   R      DG  +   I DT+G 
Sbjct: 5   KIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQI--DGKTIKAQIWDTAGQ 62

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVV----KDLREQIVNKRGLMVPIVVVGNKC 164
            ++ A+       A   +LVY +   ST++ V    K+LR+   +     + I++VGNK 
Sbjct: 63  ERYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADSN----IVIMLVGNKS 118

Query: 165 ELE-FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +L   + V  E A+  A  +    F+E SA +  N+ + FK+LL +
Sbjct: 119 DLRHLRAVPTEEAKAFAEKN-GLSFIETSALDGTNVEEAFKQLLTE 163

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|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 = 44.4 bits (105), Expect = 9e-06
 Identities = 40/168 (23%), Positives = 76/168 (45%), Gaps = 14/168 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + VV+G   VGK+ ++  +  + F   Y  TV + +     + DG  + L + DT+G   
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANV-MVDGKPVNLGLWDTAGQED 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFK 169
           +  +R LS    D F++ +++   ++++ V+      V       PI++VG K +L + K
Sbjct: 62  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 121

Query: 170 DVRREIAET-IALYDWQCG-----------FVECSAKENYNIVQVFKE 205
           D   ++ E  +    +  G           ++ECSA     +  VF E
Sbjct: 122 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 169

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

 Score = 44.2 bits (104), Expect = 2e-05
 Identities = 40/176 (22%), Positives = 83/176 (47%), Gaps = 19/176 (10%)

Query: 55  MGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPA 113
           +G    GK++ + + L   F  +Y  T+  E+H   +    G  +  ++ DT+G  +F  
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRG-PIRFNVWDTAGQEKFGG 59

Query: 114 MRELSISTADAFVLVYAVDDASTWDVV----KDLREQIVNKRGLMVPIVVVGNKCELEFK 169
           +R+         ++++ V    T+  V    +DL     N     +PIV+ GNK +++ +
Sbjct: 60  LRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCEN-----IPIVLCGNKVDVKDR 114

Query: 170 DVRREIAETIALYDWQ-CGFVECSAKENYNIVQVF----KELLAQAKVQYNLSPAV 220
            V+   A++I  +  +   + + SAK NYN  + F    ++L+    +++   PA+
Sbjct: 115 KVK---AKSITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL 167

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

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

 Score = 43.9 bits (103), Expect = 2e-05
 Identities = 25/90 (27%), Positives = 50/90 (55%), Gaps = 1/90 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G  + GK++++  F  D +   Y  TV E +   +E+ D  ++ L++ DTSG+  
Sbjct: 3   KIVVVGDTQCGKTALLHVFAKDNYPESYVPTVFENYTASFEI-DKHRIELNMWDTSGSSY 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVV 140
           +  +R L+   +DA ++ + +    T D V
Sbjct: 62  YDNVRPLAYPDSDAVLICFDISRPETLDSV 91

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

>gnl|CDD|232995 TIGR00487, IF-2, translation initiation factor IF-2

 Score = 44.4 bits (105), Expect = 3e-05
 Identities = 51/174 (29%), Positives = 69/174 (39%), Gaps = 25/174 (14%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETVEEL-----HRGEY--ELPDGAQLTLDILD 104
           V +MG    GK+S++        I + K    E      H G Y  E  DG  +T   LD
Sbjct: 90  VTIMGHVDHGKTSLLD------SIRKTKVAQGEAGGITQHIGAYHVENEDGKMITF--LD 141

Query: 105 TSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC 164
           T G   F +MR       D  VLV A DD     V+    E I + +   VPI+V  NK 
Sbjct: 142 TPGHEAFTSMRARGAKVTDIVVLVVAADDG----VMPQTIEAISHAKAANVPIIVAINKI 197

Query: 165 ELEFKDVRREIAETIAL----YDW--QCGFVECSAKENYNIVQVFKELLAQAKV 212
           +    +  R   E         DW     FV  SA     I ++   +L Q++V
Sbjct: 198 DKPEANPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDGIDELLDMILLQSEV 251

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 [Protein synthesis, Translation factors]. Length = 587

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

 Score = 42.5 bits (100), Expect = 3e-05
 Identities = 39/172 (22%), Positives = 78/172 (45%), Gaps = 37/172 (21%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFIS-------RYKETVEELHRGEYELPDGAQLTLDIL 103
           ++ ++G  R GKS+++ ++L   ++        R+K+ V         L DG    L I 
Sbjct: 2   KLGIVGNLRSGKSALVHRYLTGSYVQLESPEGGRFKKEV---------LVDGQSHLLLIR 52

Query: 104 DTSGA--YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVV 160
           D  GA   QF           DA + V++++D +++  V  L  Q+ + R +  +P+++V
Sbjct: 53  DEGGAPDAQFA-------GWVDAVIFVFSLEDEASFQTVYRLYHQLSSYRNISEIPLILV 105

Query: 161 GNKCELEFKDVR-------REIAETIALYDWQCGFVECSAKENYNIVQVFKE 205
           G +  +   + R       R++   +     +C + E  A    N+ +VF+E
Sbjct: 106 GTQDAISASNPRVIDDARARQLCADMK----RCSYYETCATYGLNVERVFQE 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|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 42.2 bits (99), Expect = 8e-05
 Identities = 54/232 (23%), Positives = 93/232 (40%), Gaps = 62/232 (26%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +VV++G   VGK+S++ +++  RF    K+TV  +  G + L       + I DT+G  Q
Sbjct: 2   KVVLLGDMNVGKTSLLHRYMERRF----KDTVSTVG-GAFYLKQWGPYNISIWDTAGREQ 56

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV------NKRGLMVPIVVVGNKC 164
           F  +  +    A A +L Y   D S    +++L ++ +      N+  L     VVGNK 
Sbjct: 57  FHGLGSMYCRGAAAVILTY---DVSNVQSLEELEDRFLGLTDTANEDCLF---AVVGNKL 110

Query: 165 EL----------------EFKDVRREIA--ETIALY-----------------DWQCGFV 189
           +L                   + +R++   +  A Y                 +  C   
Sbjct: 111 DLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMC--F 168

Query: 190 ECSAKENYNIVQVFKELLAQAKVQYNLS-PAVRRRRQSLPNYIGTTGSASSK 240
           E SAK  YN+ ++F+ L       +NL  P +  +R       GT    + K
Sbjct: 169 ETSAKTGYNVDELFEYL-------FNLVLPLILAQRAEANRTQGTVNLPNPK 213

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|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score = 40.9 bits (96), Expect = 1e-04
 Identities = 42/158 (26%), Positives = 70/158 (44%), Gaps = 14/158 (8%)

Query: 53  VVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP 112
           +++G A  GKS ++ QF+ ++F      T+            G  + L I DT+G  +F 
Sbjct: 4   LIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQERFR 63

Query: 113 AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP---IVVVGNKCELEFK 169
           ++       A   +LVY   D ++ +    L   + + R L  P   I++VGNK +LE  
Sbjct: 64  SVTRSYYRGAAGALLVY---DITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLE-- 118

Query: 170 DVRREI----AETIALYDWQCGFVECSAKENYNIVQVF 203
              RE+    A   A  +    F+E SA    N+ + F
Sbjct: 119 -DDREVTFLEASRFA-QENGLLFLETSALTGENVEEAF 154

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

 Score = 41.2 bits (97), Expect = 2e-04
 Identities = 39/179 (21%), Positives = 84/179 (46%), Gaps = 19/179 (10%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAY 109
           +++++G   VGK++ + + L   F  +Y  T+  E+H  ++   +   +  ++ DT+G  
Sbjct: 11  KLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYT-NCGPICFNVWDTAGQE 69

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVV----KDLREQIVNKRGLMVPIVVVGNKCE 165
           +F  +R+         ++++ V    T+  V    +D+     N     +PIV+VGNK +
Sbjct: 70  KFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCEN-----IPIVLVGNKVD 124

Query: 166 LEFKDVRREIAETIALY-DWQCGFVECSAKENYN----IVQVFKELLAQAKVQYNLSPA 219
           ++ + V+   A  I  +      + + SAK NYN     + + + L     + +  +PA
Sbjct: 125 VKDRQVK---ARQITFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTNDPNLVFVGAPA 180

Length = 215

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

 Score = 40.0 bits (94), Expect = 2e-04
 Identities = 35/116 (30%), Positives = 53/116 (45%), Gaps = 8/116 (6%)

Query: 99  TLDILDTSGAYQFPAMRELSISTADAFVLVYAVD--DASTWDVVKDLREQIVNKRGLM-V 155
           T+ + D  G  +F +M E      +A  +VY VD  D    +V K+    ++ K  L  +
Sbjct: 45  TIKVWDLGGQPRFRSMWERYCRGVNA--IVYVVDAADREKLEVAKNELHDLLEKPSLEGI 102

Query: 156 PIVVVGNKCELEFKDVRREIAETIALYDWQCGFVEC---SAKENYNIVQVFKELLA 208
           P++V+GNK +L       E+ E + L       V C   SAKE  NI  V   L+ 
Sbjct: 103 PLLVLGNKNDLPGALSVDELIEQMNLKSITDREVSCYSISAKEKTNIDIVLDWLIK 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|215653 pfam00009, GTP_EFTU, Elongation factor Tu GTP binding domain

 Score = 38.2 bits (90), Expect = 0.001
 Identities = 43/198 (21%), Positives = 68/198 (34%), Gaps = 50/198 (25%)

Query: 47  KDKRRVVVMGGARVGKSSIISQFLYD------------RFISRYKETVEELHRG------ 88
           K  R + ++G    GK+++    LY             R + + KE   E  RG      
Sbjct: 1   KRHRNIGIIGHVDHGKTTLTDALLYVTGAISKESAKGARVLDKLKE---ERERGITIKIA 57

Query: 89  --EYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDD---AST---WDVV 140
              +E        ++I+DT G   F        S AD  +LV    +     T     + 
Sbjct: 58  AVSFETKKR---LINIIDTPGHVDFTKEMIRGASQADGAILVVDAVEGVMPQTREHLLLA 114

Query: 141 KDLREQIVNKRGLMVPIVVVGNKC----ELEFKDVRREIAET-IALYDWQ---CGFVECS 192
           K L           VPI+V  NK     + E ++V  EI+   +  Y +       V  S
Sbjct: 115 KTLG----------VPIIVFINKIDRVDDAELEEVVEEISRELLEKYGFGGETVPVVPGS 164

Query: 193 AKENYNIVQVFKELLAQA 210
           A     I ++ + L    
Sbjct: 165 ALTGEGIDELLEALDLYL 182

This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains. Length = 184

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

 Score = 38.3 bits (89), Expect = 0.001
 Identities = 26/89 (29%), Positives = 46/89 (51%), Gaps = 6/89 (6%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVE---ELHRGEYELPDGAQLTLDILDTSG 107
           +V+V+G   VGK+ +I++F  D F   YK T+    E+ R E     G   +L + DT+G
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVL---GVPFSLQLWDTAG 58

Query: 108 AYQFPAMRELSISTADAFVLVYAVDDAST 136
             +F  +       A A ++V+ + D ++
Sbjct: 59  QERFKCIASTYYRGAQAIIIVFDLTDVAS 87

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|206647 cd00881, GTP_translation_factor, GTP translation factor family primarily contains translation initiation, elongation and release factors

 Score = 38.4 bits (90), Expect = 0.001
 Identities = 43/176 (24%), Positives = 65/176 (36%), Gaps = 34/176 (19%)

Query: 51  RVVVMGGARVGKS----SIISQFLYDRFISRYKETV-----EELHRG--------EYELP 93
            V V+G    GK+    S++ Q          KET      EE  RG        E+E P
Sbjct: 1   NVGVIGHVDHGKTTLTGSLLYQTGAIDRRGTRKETFLDTLKEERERGITIKTGVVEFEWP 60

Query: 94  DGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL 153
                 ++ +DT G   F       ++ AD  +LV   ++     V    RE +      
Sbjct: 61  K---RRINFIDTPGHEDFSKETVRGLAQADGALLVVDANEG----VEPQTREHLNIALAG 113

Query: 154 MVPIVVVGNKCEL----EFKDVRREIAETIALYDW------QCGFVECSAKENYNI 199
            +PI+V  NK +     +F +V REI E + L  +          +  SA     I
Sbjct: 114 GLPIIVAVNKIDRVGEEDFDEVLREIKELLKLIGFTFLKGKDVPIIPISALTGEGI 169

The GTP translation factor 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. Length = 183

>gnl|CDD|129574 TIGR00483, EF-1_alpha, translation elongation factor EF-1 alpha

 Score = 39.1 bits (91), Expect = 0.002
 Identities = 44/198 (22%), Positives = 78/198 (39%), Gaps = 40/198 (20%)

Query: 43  VGLQKDKRRVVVMGGARVGKSSIISQFLYD------RFISRYKETVEELHRGEYELP--- 93
           +  +K+   V  +G    GKS+ +   LY       + I ++++  +E  +  +E     
Sbjct: 1   MAKEKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVM 60

Query: 94  DGAQ------LTLD--------------ILDTSGAYQFPAMRELSISTADAFVLVYAVDD 133
           D  +      +T+D              I+D  G   F        S ADA VLV AV D
Sbjct: 61  DRLKEERERGVTIDVAHWKFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGD 120

Query: 134 ASTWDVVKDLREQIVNKRGLMV-PIVVVGNKCEL------EFKDVRREIAETIALYDW-- 184
               +V    RE     R L +  ++V  NK +       EF+ +++E++  I    +  
Sbjct: 121 GEF-EVQPQTREHAFLARTLGINQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNP 179

Query: 185 -QCGFVECSAKENYNIVQ 201
               F+  SA    N+++
Sbjct: 180 DTVPFIPISAWNGDNVIK 197

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 [Protein synthesis, Translation factors]. Length = 426

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

 Score = 37.9 bits (88), Expect = 0.002
 Identities = 33/169 (19%), Positives = 75/169 (44%), Gaps = 13/169 (7%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRY----------KETVEELHRGEYELPDGAQLTL 100
           +++ +G + VGK++ + ++  ++F  ++          K  V      +       ++ L
Sbjct: 6   KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAFRVHL 65

Query: 101 DILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVV 159
            + DT+G  +F ++       A  F+L++ +    ++  V++   Q+        P IV+
Sbjct: 66  QLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENPDIVL 125

Query: 160 VGNKCELE-FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL 207
           +GNK +L   ++V    A  +A   +   + E SA    N+ +  + LL
Sbjct: 126 IGNKADLPDQREVSERQARELA-DKYGIPYFETSAATGQNVEKAVETLL 173

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|223606 COG0532, InfB, Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 38.3 bits (90), Expect = 0.003
 Identities = 51/178 (28%), Positives = 73/178 (41%), Gaps = 29/178 (16%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETV---EEL----HRGEY--ELPDGAQLTLDI 102
           V +MG    GK++++     D+   R K  V   E      H G Y   L       +  
Sbjct: 8   VTIMGHVDHGKTTLL-----DKI--R-KTNVAAGEAGGITQHIGAYQVPLDVIKIPGITF 59

Query: 103 LDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGN 162
           +DT G   F AMR    S  D  +LV A DD     V+    E I + +   VPIVV  N
Sbjct: 60  IDTPGHEAFTAMRARGASVTDIAILVVAADDG----VMPQTIEAINHAKAAGVPIVVAIN 115

Query: 163 KCELE----FKDVRREIAE---TIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           K +       K V++E+ E       +     FV  SAK    I ++ + +L  A+V 
Sbjct: 116 KIDKPEANPDK-VKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELILLLAEVL 172

Length = 509

>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional

 Score = 37.9 bits (88), Expect = 0.004
 Identities = 32/112 (28%), Positives = 45/112 (40%), Gaps = 16/112 (14%)

Query: 103 LDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGN 162
           LDT G   F +MR    +  D  +L+ A DD     V     E I   +   VPI+V  N
Sbjct: 300 LDTPGHEAFSSMRSRGANVTDIAILIIAADDG----VKPQTIEAINYIQAANVPIIVAIN 355

Query: 163 KCELEFKDVRREIAETIALY-----DW--QCGFVECSAKENYNIVQVFKELL 207
           K +    +  R I + +A Y      W      +  SA +  NI     +LL
Sbjct: 356 KIDKANANTER-IKQQLAKYNLIPEKWGGDTPMIPISASQGTNI----DKLL 402

Length = 742

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	253
KOG0084|consensus	205		100.0
KOG0092|consensus	200		100.0
KOG0094|consensus	221		100.0
KOG0078|consensus	207		100.0
KOG0394|consensus	210		100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0095|consensus	213		100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
KOG0098|consensus	216		100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
KOG0079|consensus	198		100.0
KOG0087|consensus	222		100.0
PLN03110	216	Rab GTPase; Provisional	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
KOG0091|consensus	213		100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
KOG0080|consensus	209		100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
KOG0093|consensus	193		100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
KOG0086|consensus	214		99.98
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.98
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.98
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.98
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.98
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.98
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.98
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.98
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.98
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.98
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.98
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.98
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.97
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.97
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.97
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.97
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.97
PLN03108	210	Rab family protein; Provisional	99.97
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.97
KOG0088|consensus	218		99.97
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.97
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.97
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.97
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.97
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.97
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.97
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.97
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.97
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.97
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.97
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.97
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.97
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.97
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.97
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.97
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.97
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.97
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.97
KOG0081|consensus	219		99.97
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.97
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.97
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.97
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.97
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.97
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.97
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.97
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.97
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.97
PLN03118	211	Rab family protein; Provisional	99.97
KOG0097|consensus	215		99.96
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.96
KOG0395|consensus	196		99.96
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.96
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.96
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.96
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.96
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.96
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.96
KOG0083|consensus	192		99.96
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.96
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.96
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.96
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.96
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.96
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.96
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.95
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.95
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.95
PTZ00133	182	ADP-ribosylation factor; Provisional	99.95
PLN00223	181	ADP-ribosylation factor; Provisional	99.95
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.95
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.95
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.95
KOG0393|consensus	198		99.95
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.95
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.95
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.94
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.94
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.94
KOG4252|consensus	246		99.94
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.93
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.93
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.93
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.93
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.93
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.93
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.93
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.92
PLN00023	334	GTP-binding protein; Provisional	99.92
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.92
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.92
PRK12299	335	obgE GTPase CgtA; Reviewed	99.91
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.91
KOG0073|consensus	185		99.91
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.91
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.91
PTZ00099	176	rab6; Provisional	99.91
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.9
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.9
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.9
COG1100	219	GTPase SAR1 and related small G proteins [General	99.9
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.89
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.89
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.89
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.89
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.88
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.88
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.88
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.88
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.88
PRK03003	472	GTP-binding protein Der; Reviewed	99.88
PRK15494	339	era GTPase Era; Provisional	99.88
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.87
KOG0070|consensus	181		99.87
KOG3883|consensus	198		99.87
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.87
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.87
PRK04213	201	GTP-binding protein; Provisional	99.87
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.87
PRK12298	390	obgE GTPase CgtA; Reviewed	99.86
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.86
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.86
PRK12297	424	obgE GTPase CgtA; Reviewed	99.86
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.86
PRK03003	472	GTP-binding protein Der; Reviewed	99.86
cd00881	189	GTP_translation_factor GTP translation factor fami	99.86
PRK12296	500	obgE GTPase CgtA; Reviewed	99.86
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.85
PRK11058	426	GTPase HflX; Provisional	99.85
COG1159	298	Era GTPase [General function prediction only]	99.85
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.85
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.85
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.84
PRK00089	292	era GTPase Era; Reviewed	99.84
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.84
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.84
COG0486	454	ThdF Predicted GTPase [General function prediction	99.83
PRK00093	435	GTP-binding protein Der; Reviewed	99.83
KOG0075|consensus	186		99.83
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.83
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.82
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.82
PRK00093	435	GTP-binding protein Der; Reviewed	99.82
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.82
KOG0096|consensus	216		99.82
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.81
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.81
CHL00189	742	infB translation initiation factor 2; Provisional	99.81
KOG0071|consensus	180		99.81
PRK05306	787	infB translation initiation factor IF-2; Validated	99.81
KOG4423|consensus	229		99.81
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.81
COG1160	444	Predicted GTPases [General function prediction onl	99.81
KOG0076|consensus	197		99.81
KOG1673|consensus	205		99.81
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.8
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.8
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.8
COG1160	444	Predicted GTPases [General function prediction onl	99.8
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.8
COG2229	187	Predicted GTPase [General function prediction only	99.79
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.79
PRK05433	600	GTP-binding protein LepA; Provisional	99.79
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.78
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.78
PRK10218	607	GTP-binding protein; Provisional	99.76
PRK04004	586	translation initiation factor IF-2; Validated	99.75
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.74
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.74
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.74
PRK12317	425	elongation factor 1-alpha; Reviewed	99.74
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.74
KOG1423|consensus	379		99.73
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.73
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.73
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.73
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.73
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.72
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.72
KOG0074|consensus	185		99.72
KOG1707|consensus	625		99.72
COG1084	346	Predicted GTPase [General function prediction only	99.71
KOG1489|consensus	366		99.71
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.71
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.71
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.71
KOG0072|consensus	182		99.69
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.68
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.68
COG1163	365	DRG Predicted GTPase [General function prediction	99.68
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.67
COG0218	200	Predicted GTPase [General function prediction only	99.67
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.66
PRK12736	394	elongation factor Tu; Reviewed	99.66
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.66
KOG1145|consensus	683		99.65
COG2262	411	HflX GTPases [General function prediction only]	99.65
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.64
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.63
COG0536	369	Obg Predicted GTPase [General function prediction	99.62
CHL00071	409	tufA elongation factor Tu	99.61
KOG0462|consensus	650		99.61
PRK12735	396	elongation factor Tu; Reviewed	99.61
PRK09602	396	translation-associated GTPase; Reviewed	99.61
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.61
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.61
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.61
KOG1191|consensus	531		99.6
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.59
PRK13351	687	elongation factor G; Reviewed	99.59
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.59
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.59
PLN03126	478	Elongation factor Tu; Provisional	99.58
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.58
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.57
PRK00049	396	elongation factor Tu; Reviewed	99.57
PTZ00141	446	elongation factor 1- alpha; Provisional	99.57
PLN00043	447	elongation factor 1-alpha; Provisional	99.57
PLN03127	447	Elongation factor Tu; Provisional	99.56
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.56
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.55
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.54
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.52
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.52
COG3596	296	Predicted GTPase [General function prediction only	99.51
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.51
KOG0077|consensus	193		99.5
KOG1490|consensus	620		99.47
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.47
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.47
PRK12739	691	elongation factor G; Reviewed	99.47
KOG0090|consensus	238		99.45
PTZ00258	390	GTP-binding protein; Provisional	99.45
PRK09866	741	hypothetical protein; Provisional	99.43
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.41
PRK13768	253	GTPase; Provisional	99.41
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.39
PRK12740	668	elongation factor G; Reviewed	99.38
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.38
PRK14845	1049	translation initiation factor IF-2; Provisional	99.37
PRK00007	693	elongation factor G; Reviewed	99.37
KOG1532|consensus	366		99.36
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.36
KOG0705|consensus	749		99.34
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.34
KOG1486|consensus	364		99.33
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.31
PRK09601	364	GTP-binding protein YchF; Reviewed	99.3
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.3
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.3
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.29
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.27
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.26
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.25
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.25
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.25
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.25
KOG3905|consensus	473		99.23
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.22
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.21
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.21
KOG0461|consensus	522		99.21
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.21
PRK07560	731	elongation factor EF-2; Reviewed	99.2
KOG3886|consensus	295		99.2
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.19
COG0012	372	Predicted GTPase, probable translation factor [Tra	99.17
PTZ00416	836	elongation factor 2; Provisional	99.16
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.16
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.15
KOG1707|consensus	625		99.15
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.15
KOG1144|consensus	1064		99.14
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.13
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.13
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.08
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.06
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.06
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.06
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.01
KOG0468|consensus	971		98.96
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.94
KOG1487|consensus	358		98.93
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	98.88
KOG0410|consensus	410		98.87
KOG0458|consensus	603		98.87
COG0050	394	TufB GTPases - translation elongation factors [Tra	98.86
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.86
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.84
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.83
PRK12289	352	GTPase RsgA; Reviewed	98.81
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.77
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.76
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.75
KOG0082|consensus	354		98.74
PRK00098	298	GTPase RsgA; Reviewed	98.71
KOG1491|consensus	391		98.7
PRK12288	347	GTPase RsgA; Reviewed	98.68
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.64
KOG3887|consensus	347		98.63
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.62
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.61
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.58
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.57
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.57
KOG2486|consensus	320		98.56
KOG1954|consensus	532		98.56
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.55
KOG2655|consensus	366		98.52
KOG1143|consensus	591		98.5
KOG0463|consensus	641		98.48
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.47
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.45
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.43
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.42
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.41
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.41
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.37
KOG1547|consensus	336		98.37
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.36
KOG0460|consensus	449		98.36
KOG0464|consensus	753		98.36
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	98.33
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.28
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.28
KOG0448|consensus	749		98.27
PRK01889	356	GTPase RsgA; Reviewed	98.27
KOG0466|consensus	466		98.25
COG1161	322	Predicted GTPases [General function prediction onl	98.24
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.18
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.18
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.17
KOG0467|consensus	887		98.17
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.16
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.16
PRK12288	347	GTPase RsgA; Reviewed	98.13
cd03112	158	CobW_like The function of this protein family is u	98.09
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.07
PRK14974	336	cell division protein FtsY; Provisional	98.02
COG0523	323	Putative GTPases (G3E family) [General function pr	98.01
PRK12289	352	GTPase RsgA; Reviewed	98.0
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	97.99
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.99
PRK10416	318	signal recognition particle-docking protein FtsY;	97.98
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.98
PRK13796	365	GTPase YqeH; Provisional	97.96
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.93
PRK13796	365	GTPase YqeH; Provisional	97.92
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.9
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.89
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.86
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.84
KOG0469|consensus	842		97.83
cd03114	148	ArgK-like The function of this protein family is u	97.82
KOG1424|consensus	562		97.79
COG1162	301	Predicted GTPases [General function prediction onl	97.78
PRK13695	174	putative NTPase; Provisional	97.77
PRK00098	298	GTPase RsgA; Reviewed	97.77
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.65
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	97.59
COG1162	301	Predicted GTPases [General function prediction onl	97.58
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.56
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.55
KOG0465|consensus	721		97.54
KOG0085|consensus	359		97.54
KOG3859|consensus	406		97.51
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.51
KOG0459|consensus	501		97.51
KOG1534|consensus	273		97.49
KOG0099|consensus	379		97.47
KOG2484|consensus	435		97.42
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.39
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.37
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.36
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.33
COG3523	1188	IcmF Type VI protein secretion system component Va	97.32
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.31
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.29
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.26
KOG0447|consensus	980		97.26
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.26
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.25
TIGR00959	428	ffh signal recognition particle protein. This mode	97.19
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.18
PRK08118	167	topology modulation protein; Reviewed	97.17
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.17
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.13
PRK07261	171	topology modulation protein; Provisional	97.11
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.11
PRK10867	433	signal recognition particle protein; Provisional	97.08
KOG4273|consensus	418		97.08
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.03
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.03
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.02
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.02
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.02
KOG1533|consensus	290		97.01
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.97
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.96
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.94
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.92
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.91
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.91
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.89
KOG2485|consensus	335		96.89
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	96.87
PRK14738	206	gmk guanylate kinase; Provisional	96.87
KOG2423|consensus	572		96.84
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.81
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.78
PRK05480	209	uridine/cytidine kinase; Provisional	96.78
PF00004	132	AAA: ATPase family associated with various cellula	96.77
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.77
cd03111	106	CpaE_like This protein family consists of proteins	96.76
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.74
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.74
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.72
PRK06217	183	hypothetical protein; Validated	96.72
smart00382	148	AAA ATPases associated with a variety of cellular	96.72
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.71
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.7
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.7
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.7
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.67
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.67
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.67
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.67
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.66
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.64
PRK14530	215	adenylate kinase; Provisional	96.64
KOG1970|consensus	634		96.63
PRK10646	153	ADP-binding protein; Provisional	96.63
PRK05541	176	adenylylsulfate kinase; Provisional	96.61
PRK14737	186	gmk guanylate kinase; Provisional	96.61
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.61
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.61
PRK03839	180	putative kinase; Provisional	96.58
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	96.57
PRK08233	182	hypothetical protein; Provisional	96.57
cd02036	179	MinD Bacterial cell division requires the formatio	96.57
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.54
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.54
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.53
PRK01889	356	GTPase RsgA; Reviewed	96.53
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.52
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.51
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.5
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.5
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.5
COG3638	258	ABC-type phosphate/phosphonate transport system, A	96.5
PRK00300	205	gmk guanylate kinase; Provisional	96.5
PRK04195	482	replication factor C large subunit; Provisional	96.49
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.48
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.48
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.47
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.47
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	96.46
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.45
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.44
PRK13949	169	shikimate kinase; Provisional	96.43
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.43
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.43
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.42
PRK13851	344	type IV secretion system protein VirB11; Provision	96.42
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.42

>KOG0084|consensus

Probab=100.00  E-value=6.3e-39  Score=239.28  Aligned_cols=172  Identities=28%  Similarity=0.420  Sum_probs=160.8

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      .....+||+++|++|||||+|+.||.++.|+..+..|++ ++....+.+ +|+.+++++|||+|+++|+.....+|++|+
T Consensus         5 ~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~-~gk~iKlQIWDTAGQERFrtit~syYR~ah   83 (205)
T KOG0084|consen    5 EYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVEL-DGKTIKLQIWDTAGQERFRTITSSYYRGAH   83 (205)
T ss_pred             ccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeee-cceEEEEEeeeccccHHHhhhhHhhccCCC
Confidence            356789999999999999999999999999999999998 888888999 999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCc-EEEeccCCCCCHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCG-FVECSAKENYNIVQ  201 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~i~~  201 (253)
                      ++|+|||+++.+||.++..|+.++..+...++|.++||||+|+.+. .+..+.++.++. ..+++ ++++||+++.|+++
T Consensus        84 Gii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~-~~~~~~f~ETSAK~~~NVe~  162 (205)
T KOG0084|consen   84 GIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFAD-ELGIPIFLETSAKDSTNVED  162 (205)
T ss_pred             eEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHH-hcCCcceeecccCCccCHHH
Confidence            9999999999999999999999999999899999999999999887 888999999999 66777 99999999999999


Q ss_pred             HHHHHHHHHHHhcccCh
Q psy549          202 VFKELLAQAKVQYNLSP  218 (253)
Q Consensus       202 l~~~l~~~~~~~~~~~~  218 (253)
                      .|..|+..+..++....
T Consensus       163 ~F~~la~~lk~~~~~~~  179 (205)
T KOG0084|consen  163 AFLTLAKELKQRKGLHV  179 (205)
T ss_pred             HHHHHHHHHHHhcccCC
Confidence            99999999988765543

>KOG0092|consensus

Probab=100.00  E-value=2.5e-36  Score=224.58  Aligned_cols=167  Identities=24%  Similarity=0.390  Sum_probs=155.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...+||+++|+.+||||||+-||..+.|.....+|++ .+....+.+ +...++|.||||+|+++|.++-+.+|++|+++
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~-~~~~ikfeIWDTAGQERy~slapMYyRgA~AA   81 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTV-DDNTIKFEIWDTAGQERYHSLAPMYYRGANAA   81 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEe-CCcEEEEEEEEcCCcccccccccceecCCcEE
Confidence            4578999999999999999999999999887777877 888888888 77799999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |+|||+++.+||..+..|...+.....+++-+.+||||+|+.+. ++..++++.+++ ..+..++++||++|.|++++|.
T Consensus        82 ivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe-~~gll~~ETSAKTg~Nv~~if~  160 (200)
T KOG0092|consen   82 IVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAE-SQGLLFFETSAKTGENVNEIFQ  160 (200)
T ss_pred             EEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHH-hcCCEEEEEecccccCHHHHHH
Confidence            99999999999999999999999998888999999999999984 899999999999 7889999999999999999999


Q ss_pred             HHHHHHHHhcc
Q psy549          205 ELLAQAKVQYN  215 (253)
Q Consensus       205 ~l~~~~~~~~~  215 (253)
                      .|++.+.....
T Consensus       161 ~Ia~~lp~~~~  171 (200)
T KOG0092|consen  161 AIAEKLPCSDP  171 (200)
T ss_pred             HHHHhccCccc
Confidence            99999965533

>KOG0094|consensus

Probab=100.00  E-value=5.6e-36  Score=222.70  Aligned_cols=168  Identities=29%  Similarity=0.454  Sum_probs=154.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....+|++|+|+.+|||||||++|+.+.|...|..|++ ++..+++.+ .+..+++++|||+|+++|+++.+.+++++++
T Consensus        19 ~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l-~d~~vrLQlWDTAGQERFrslipsY~Rds~v   97 (221)
T KOG0094|consen   19 PLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYL-EDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   97 (221)
T ss_pred             cceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEE-cCcEEEEEEEecccHHHHhhhhhhhccCCeE
Confidence            34559999999999999999999999999999999998 999999988 8889999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCC-CCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|+|||+++..||+...+|++.+...++. ++-+++||||.||.+. ++..+.++..++ ..+..|+++||+.|.||.++
T Consensus        98 aviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAk-el~a~f~etsak~g~NVk~l  176 (221)
T KOG0094|consen   98 AVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAK-ELNAEFIETSAKAGENVKQL  176 (221)
T ss_pred             EEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHH-HhCcEEEEecccCCCCHHHH
Confidence            99999999999999999999999997766 4888999999999887 888888888888 67779999999999999999


Q ss_pred             HHHHHHHHHHhcc
Q psy549          203 FKELLAQAKVQYN  215 (253)
Q Consensus       203 ~~~l~~~~~~~~~  215 (253)
                      |..|+..+.....
T Consensus       177 FrrIaa~l~~~~~  189 (221)
T KOG0094|consen  177 FRRIAAALPGMEV  189 (221)
T ss_pred             HHHHHHhccCccc
Confidence            9998888866644

>KOG0078|consensus

Probab=100.00  E-value=5.2e-35  Score=221.45  Aligned_cols=171  Identities=27%  Similarity=0.437  Sum_probs=160.8

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      .....+||+++|+++||||+|+.+|..+.|...+..|.+ ++....+.+ ++..+.+++|||+|+++|+.+...+|++|+
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l-~g~~i~lQiWDtaGQerf~ti~~sYyrgA~   86 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIEL-DGKKIKLQIWDTAGQERFRTITTAYYRGAM   86 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEe-CCeEEEEEEEEcccchhHHHHHHHHHhhcC
Confidence            567789999999999999999999999999999999988 888888888 889999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      ++++|||+++..||+++..|+..+..+....+|.++||||+|+... ++..+.++.++. ..++.++||||++|.||.+.
T Consensus        87 gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~-e~G~~F~EtSAk~~~NI~ea  165 (207)
T KOG0078|consen   87 GILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAR-EYGIKFFETSAKTNFNIEEA  165 (207)
T ss_pred             eeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHH-HhCCeEEEccccCCCCHHHH
Confidence            9999999999999999999999999999889999999999999886 899999999999 67999999999999999999


Q ss_pred             HHHHHHHHHHhcccC
Q psy549          203 FKELLAQAKVQYNLS  217 (253)
Q Consensus       203 ~~~l~~~~~~~~~~~  217 (253)
                      |..|++.++.+....
T Consensus       166 F~~La~~i~~k~~~~  180 (207)
T KOG0078|consen  166 FLSLARDILQKLEDA  180 (207)
T ss_pred             HHHHHHHHHhhcchh
Confidence            999999998754443

>KOG0394|consensus

Probab=100.00  E-value=1.5e-35  Score=218.34  Aligned_cols=169  Identities=27%  Similarity=0.474  Sum_probs=157.0

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....+||+|+|++|+|||||+|++.+.+|...+-.|+. ++..+.+.+ |+..+.++||||+|+++|+++...+|+++|+
T Consensus         6 K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~V-d~~~vtlQiWDTAGQERFqsLg~aFYRgaDc   84 (210)
T KOG0394|consen    6 KRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQV-DDRSVTLQIWDTAGQERFQSLGVAFYRGADC   84 (210)
T ss_pred             cccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEE-cCeEEEEEEEecccHHHhhhcccceecCCce
Confidence            45679999999999999999999999999888888887 999999999 8899999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCC----CCCEEEEEecCCCCC---ccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGL----MVPIVVVGNKCELEF---KDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      +++|||++++.||+.+..|..++.....+    .-|+||+|||+|+.+   .++....++.++....++||||+|||...
T Consensus        85 Cvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~  164 (210)
T KOG0394|consen   85 CVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEAT  164 (210)
T ss_pred             EEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccc
Confidence            99999999999999999999999986653    379999999999977   48999999999998999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhcc
Q psy549          198 NIVQVFKELLAQAKVQYN  215 (253)
Q Consensus       198 ~i~~l~~~l~~~~~~~~~  215 (253)
                      ||.+.|..+++.++....
T Consensus       165 NV~~AFe~ia~~aL~~E~  182 (210)
T KOG0394|consen  165 NVDEAFEEIARRALANED  182 (210)
T ss_pred             cHHHHHHHHHHHHHhccc
Confidence            999999999999987754

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=4.8e-34  Score=223.91  Aligned_cols=165  Identities=27%  Similarity=0.422  Sum_probs=145.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +.|+++|+.|||||||+++|..+.|...+..|.. ++....+.+ ++..+.+++||++|+++|..++..+++++|++|+|
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~-~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlV   79 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVEL-RGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILV   79 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEE-CCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEE
Confidence            3689999999999999999999999887777766 666677788 77889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||++++.+|+.+..|+..+......++|+++|+||+|+... ++..+.++.+++...++.+++|||++|.||+++|.+|+
T Consensus        80 fDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~  159 (202)
T cd04120          80 YDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLV  159 (202)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHH
Confidence            99999999999999999877666667999999999999654 67777788888744578899999999999999999999


Q ss_pred             HHHHHhcc
Q psy549          208 AQAKVQYN  215 (253)
Q Consensus       208 ~~~~~~~~  215 (253)
                      +.+.....
T Consensus       160 ~~~~~~~~  167 (202)
T cd04120         160 DDILKKMP  167 (202)
T ss_pred             HHHHHhCc
Confidence            98876533

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

>KOG0095|consensus

Probab=100.00  E-value=2.3e-35  Score=210.04  Aligned_cols=205  Identities=23%  Similarity=0.317  Sum_probs=180.7

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      ..+.-+||+++|+.|+|||+|+++|..+-|++....|++ ++..+++.+ ++..+++++|||+|+++|++.+..+|+.++
T Consensus         3 dykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev-~gekiklqiwdtagqerfrsitqsyyrsah   81 (213)
T KOG0095|consen    3 DYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEV-NGEKIKLQIWDTAGQERFRSITQSYYRSAH   81 (213)
T ss_pred             ccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEE-CCeEEEEEEeeccchHHHHHHHHHHhhhcc
Confidence            345678999999999999999999999999888888887 889999999 999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      ++|+|||++...+|+.+..|+.++..+...++--++|+||+|+.+. ++.+++++.+.+ ....-++++||++..|++.+
T Consensus        82 alilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~-~qdmyfletsakea~nve~l  160 (213)
T KOG0095|consen   82 ALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSE-AQDMYFLETSAKEADNVEKL  160 (213)
T ss_pred             eEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHH-hhhhhhhhhcccchhhHHHH
Confidence            9999999999999999999999999988777888999999999887 899999999998 56777899999999999999


Q ss_pred             HHHHHHHHHHhcccChhhccccccCCCCcCCCCCCCCCCcccccCCCcc
Q psy549          203 FKELLAQAKVQYNLSPAVRRRRQSLPNYIGTTGSASSKGRYMLKRNSCT  251 (253)
Q Consensus       203 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~  251 (253)
                      |..++-.+.......-....-+...+++.+.+++.......+.+...||
T Consensus       161 f~~~a~rli~~ar~~d~v~~~~a~a~~~~seg~si~l~s~aqt~~~~cc  209 (213)
T KOG0095|consen  161 FLDLACRLISEARQNDLVNNVSAPAPNSSSEGKSIKLISYAQTQLLTCC  209 (213)
T ss_pred             HHHHHHHHHHHHHhccchhhccccCccccCCCCcccchhHHHHHHhccc
Confidence            9999888776666555566667777777766777766666666666666

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=2.3e-33  Score=223.65  Aligned_cols=164  Identities=23%  Similarity=0.344  Sum_probs=145.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...+||+++|++|||||+|+++|..+.|...+.+|....+...+.+ ++..+.++||||+|+++|..++..+++++|++|
T Consensus        11 ~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~~~i~~-~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vI   89 (232)
T cd04174          11 VMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTAGLET-EEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVL   89 (232)
T ss_pred             eeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeEEEEEE-CCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEE
Confidence            4568999999999999999999999999888888887666667777 888999999999999999999999999999999


Q ss_pred             EEEECCChhhHHH-HHHHHHHHHHhcCCCCCEEEEEecCCCCC-------------ccccHHHHHHHHHhcCCC-cEEEe
Q psy549          127 LVYAVDDASTWDV-VKDLREQIVNKRGLMVPIVVVGNKCELEF-------------KDVRREIAETIALYDWQC-GFVEC  191 (253)
Q Consensus       127 ~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~-------------~~~~~~~~~~~~~~~~~~-~~~~~  191 (253)
                      +|||++++.+|+. +..|+..+.... +..|+++|+||+|+..             ..+..+.++.+++ ..++ +|++|
T Consensus        90 lVyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~-~~~~~~~~Et  167 (232)
T cd04174          90 LCFDISRPETVDSALKKWKAEIMDYC-PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAK-QLGAEVYLEC  167 (232)
T ss_pred             EEEECCChHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHH-HcCCCEEEEc
Confidence            9999999999998 478998887654 5789999999999864             3577888999998 5666 69999


Q ss_pred             ccCCCC-CHHHHHHHHHHHHHHh
Q psy549          192 SAKENY-NIVQVFKELLAQAKVQ  213 (253)
Q Consensus       192 Sa~~~~-~i~~l~~~l~~~~~~~  213 (253)
                      ||++|. ||+++|..++..+.+.
T Consensus       168 SAktg~~~V~e~F~~~~~~~~~~  190 (232)
T cd04174         168 SAFTSEKSIHSIFRSASLLCLNK  190 (232)
T ss_pred             cCCcCCcCHHHHHHHHHHHHHHh
Confidence            999997 8999999999988764

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.

>KOG0098|consensus

Probab=100.00  E-value=6.7e-34  Score=209.96  Aligned_cols=170  Identities=24%  Similarity=0.333  Sum_probs=158.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....+|++++|+.|||||+|+.+|+...|.+.+..|.+ ++....+++ |++++++++|||+|++.|++.+..+|+.+.+
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~i-d~k~IKlqiwDtaGqe~frsv~~syYr~a~G   81 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTI-DGKQIKLQIWDTAGQESFRSVTRSYYRGAAG   81 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEE-cCceEEEEEEecCCcHHHHHHHHHHhccCcc
Confidence            34679999999999999999999999999888888887 777778888 9999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|+|||++.+++|..+..|+..+.+...++.-+++++||+|+... .+..++.+.+++ ..++.++++||+++.|++|.|
T Consensus        82 alLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~-ehgLifmETSakt~~~VEEaF  160 (216)
T KOG0098|consen   82 ALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAR-EHGLIFMETSAKTAENVEEAF  160 (216)
T ss_pred             eEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHH-HcCceeehhhhhhhhhHHHHH
Confidence            999999999999999999999999988899999999999999887 899999999999 689999999999999999999


Q ss_pred             HHHHHHHHHhcccC
Q psy549          204 KELLAQAKVQYNLS  217 (253)
Q Consensus       204 ~~l~~~~~~~~~~~  217 (253)
                      ...+..+....+..
T Consensus       161 ~nta~~Iy~~~q~g  174 (216)
T KOG0098|consen  161 INTAKEIYRKIQDG  174 (216)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999888765543

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=3.1e-33  Score=221.82  Aligned_cols=168  Identities=23%  Similarity=0.366  Sum_probs=143.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+|+|++|||||||+++|..+.++..+.+|....+...+.+ ++..+.+.||||+|+++|..++..+++++|++|+|
T Consensus         1 ~~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~~~~~~-~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illv   79 (222)
T cd04173           1 RCKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYTASFEI-DKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLIC   79 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceEEEEEE-CCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEE
Confidence            37999999999999999999999999888888888777677777 88899999999999999999999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEeccC
Q psy549          129 YAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       129 ~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      ||++++++|+.+. .|...+ ....+++|+++|+||+|+..+             .+..+.+..+++....++|+||||+
T Consensus        80 fdis~~~Sf~~i~~~w~~~~-~~~~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk  158 (222)
T cd04173          80 FDISRPETLDSVLKKWQGET-QEFCPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSR  158 (222)
T ss_pred             EECCCHHHHHHHHHHHHHHH-HhhCCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCC
Confidence            9999999999985 455544 434477999999999998652             2566788888885544699999999


Q ss_pred             CCCC-HHHHHHHHHHHHHHhcccCh
Q psy549          195 ENYN-IVQVFKELLAQAKVQYNLSP  218 (253)
Q Consensus       195 ~~~~-i~~l~~~l~~~~~~~~~~~~  218 (253)
                      ++.+ |+++|..++..+..+.+...
T Consensus       159 ~~~~~V~~~F~~~~~~~~~~~~~~~  183 (222)
T cd04173         159 SSERSVRDVFHVATVASLGRGHRQL  183 (222)
T ss_pred             cCCcCHHHHHHHHHHHHHhccCCcc
Confidence            9885 99999999998776555443

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

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=3.9e-33  Score=216.81  Aligned_cols=166  Identities=26%  Similarity=0.353  Sum_probs=145.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...+||+|+|+.|||||||+++|.++.+...+.++.. +.....+.+ ++..+.+++||++|+++|..++..+++++|++
T Consensus         4 ~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~-~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~i   82 (189)
T cd04121           4 DYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILL-DGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGI   82 (189)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEE-CCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEE
Confidence            3568999999999999999999999888766655544 555566777 78889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |+|||++++.+|+.+..|+..+.... +++|+++|+||.|+.+. .+..+.++.+++ ..++++++|||++|.||+++|+
T Consensus        83 llVfD~t~~~Sf~~~~~w~~~i~~~~-~~~piilVGNK~DL~~~~~v~~~~~~~~a~-~~~~~~~e~SAk~g~~V~~~F~  160 (189)
T cd04121          83 ILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQAQAYAE-RNGMTFFEVSPLCNFNITESFT  160 (189)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccchhccCCCHHHHHHHHH-HcCCEEEEecCCCCCCHHHHHH
Confidence            99999999999999999999997654 68999999999999764 677888889988 5678999999999999999999


Q ss_pred             HHHHHHHHhcc
Q psy549          205 ELLAQAKVQYN  215 (253)
Q Consensus       205 ~l~~~~~~~~~  215 (253)
                      +|++.+..+..
T Consensus       161 ~l~~~i~~~~~  171 (189)
T cd04121         161 ELARIVLMRHG  171 (189)
T ss_pred             HHHHHHHHhcC
Confidence            99998865544

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

>KOG0079|consensus

Probab=100.00  E-value=6.9e-34  Score=202.05  Aligned_cols=164  Identities=29%  Similarity=0.409  Sum_probs=152.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      .-++.+|+|++|+|||+|+.+|..+.|...|+.|++ ++...++.+ +|..++++|||++|+++|+.+...++++.++++
T Consensus         7 hLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i-~G~~VkLqIwDtAGqErFrtitstyyrgthgv~   85 (198)
T KOG0079|consen    7 HLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDI-NGDRVKLQIWDTAGQERFRTITSTYYRGTHGVI   85 (198)
T ss_pred             HHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeec-CCcEEEEEEeecccHHHHHHHHHHHccCCceEE
Confidence            346889999999999999999999999999998888 888889999 899999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||+++.+||.++.+|++.+.... +.+|-++|+||.|.++. .+..+.++.++. ..++.+|++|+++..|++..|.-
T Consensus        86 vVYDVTn~ESF~Nv~rWLeei~~nc-dsv~~vLVGNK~d~~~RrvV~t~dAr~~A~-~mgie~FETSaKe~~NvE~mF~c  163 (198)
T KOG0079|consen   86 VVYDVTNGESFNNVKRWLEEIRNNC-DSVPKVLVGNKNDDPERRVVDTEDARAFAL-QMGIELFETSAKENENVEAMFHC  163 (198)
T ss_pred             EEEECcchhhhHhHHHHHHHHHhcC-ccccceecccCCCCccceeeehHHHHHHHH-hcCchheehhhhhcccchHHHHH
Confidence            9999999999999999999988866 57899999999999887 788889999999 88999999999999999999999


Q ss_pred             HHHHHHHhc
Q psy549          206 LLAQAKVQY  214 (253)
Q Consensus       206 l~~~~~~~~  214 (253)
                      |.++++...
T Consensus       164 it~qvl~~k  172 (198)
T KOG0079|consen  164 ITKQVLQAK  172 (198)
T ss_pred             HHHHHHHHH
Confidence            999988765

>KOG0087|consensus

Probab=100.00  E-value=2.4e-33  Score=211.50  Aligned_cols=171  Identities=24%  Similarity=0.331  Sum_probs=158.2

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      .....+||+++|++++|||-|+.+|..++|..+.-+|++ .+....+.+ +++.++.+||||+|+++|+..+..+|+++-
T Consensus        10 ~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~v-d~k~vkaqIWDTAGQERyrAitSaYYrgAv   88 (222)
T KOG0087|consen   10 EYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNV-DGKTVKAQIWDTAGQERYRAITSAYYRGAV   88 (222)
T ss_pred             ccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceee-cCcEEEEeeecccchhhhccccchhhcccc
Confidence            356789999999999999999999999999777777777 888888888 999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      ++++|||++...+|+.+.+|+.++..+.++++++++|+||+||.+. .+..+.++.+++ ..++.++++||.++.|+++.
T Consensus        89 GAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae-~~~l~f~EtSAl~~tNVe~a  167 (222)
T KOG0087|consen   89 GALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAE-KEGLFFLETSALDATNVEKA  167 (222)
T ss_pred             eeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHH-hcCceEEEecccccccHHHH
Confidence            9999999999999999999999999999999999999999999876 788999999999 78899999999999999999


Q ss_pred             HHHHHHHHHHhcccC
Q psy549          203 FKELLAQAKVQYNLS  217 (253)
Q Consensus       203 ~~~l~~~~~~~~~~~  217 (253)
                      |..++..+.......
T Consensus       168 F~~~l~~I~~~vs~k  182 (222)
T KOG0087|consen  168 FERVLTEIYKIVSKK  182 (222)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999887765544

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=3.2e-32  Score=216.57  Aligned_cols=167  Identities=25%  Similarity=0.372  Sum_probs=146.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...+||+|+|++|||||||+++|.+..+...+.+|.. ++....+.+ ++..+.++|||++|++++..++..+++.++++
T Consensus        10 ~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~-~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~   88 (216)
T PLN03110         10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV-EGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (216)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEE-CCEEEEEEEEECCCcHHHHHHHHHHhCCCCEE
Confidence            3568999999999999999999999888666656655 666677777 77889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |+|||++++.+|+.+..|+..+......++|+++|+||+|+... .+..+.+..++. ..+++++++||++|.|++++|+
T Consensus        89 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~-~~~~~~~e~SA~~g~~v~~lf~  167 (216)
T PLN03110         89 LLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAE-KEGLSFLETSALEATNVEKAFQ  167 (216)
T ss_pred             EEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999888776678999999999998655 566777888887 5688999999999999999999


Q ss_pred             HHHHHHHHhcc
Q psy549          205 ELLAQAKVQYN  215 (253)
Q Consensus       205 ~l~~~~~~~~~  215 (253)
                      +|+..+.....
T Consensus       168 ~l~~~i~~~~~  178 (216)
T PLN03110        168 TILLEIYHIIS  178 (216)
T ss_pred             HHHHHHHHHhh
Confidence            99999877543

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=1.1e-32  Score=212.06  Aligned_cols=159  Identities=26%  Similarity=0.431  Sum_probs=141.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+++|++|+|||+|+.+|..+.|...+.+|..+.+...+.+ ++..+.+++|||+|+++|..++..+++++|++|+||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~-~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvy   80 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVSV-DGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   80 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeeeEEEEEE-CCEEEEEEEEECCCCccccccchhhcCCCcEEEEEE
Confidence            6899999999999999999999999888888888777777777 888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHH-HHHHHHHHHhcCCCCCEEEEEecCCCCCc-----------cccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          130 AVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEFK-----------DVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       130 d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~-----------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      |++++.||+.+ ..|+..+.... .++|+++|+||+|+.+.           .+..+.++.+++..+..++++|||++|.
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~  159 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQ  159 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCccc
Confidence            99999999998 68998887654 57999999999999653           3678888899884333369999999999


Q ss_pred             CHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQA  210 (253)
Q Consensus       198 ~i~~l~~~l~~~~  210 (253)
                      ||+++|+.+++.+
T Consensus       160 nV~~~F~~~~~~~  172 (176)
T cd04133         160 NVKAVFDAAIKVV  172 (176)
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999999876

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=1.3e-32  Score=212.74  Aligned_cols=163  Identities=26%  Similarity=0.395  Sum_probs=144.0

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...+||+++|++|||||||+++|..+.+...+.+|....+...+.+ ++..+.+++|||+|+++|..++..+++++|++|
T Consensus         3 ~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~~~~~~-~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~i   81 (182)
T cd04172           3 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI-DTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVL   81 (182)
T ss_pred             cceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeEEEEEE-CCEEEEEEEEECCCchhhHhhhhhhcCCCCEEE
Confidence            4568999999999999999999999999888888888777777777 888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHH-HHHHHHHHHhcCCCCCEEEEEecCCCCC-------------ccccHHHHHHHHHhcCCCcEEEec
Q psy549          127 LVYAVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEF-------------KDVRREIAETIALYDWQCGFVECS  192 (253)
Q Consensus       127 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~-------------~~~~~~~~~~~~~~~~~~~~~~~S  192 (253)
                      +|||++++.+|+.+ ..|+..+.... +++|+++|+||+|+..             ..+..+.++.+++....++|++||
T Consensus        82 lvyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~S  160 (182)
T cd04172          82 ICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS  160 (182)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECC
Confidence            99999999999997 78998887754 6799999999999864             147788899999844335899999


Q ss_pred             cCCCCC-HHHHHHHHHHHHH
Q psy549          193 AKENYN-IVQVFKELLAQAK  211 (253)
Q Consensus       193 a~~~~~-i~~l~~~l~~~~~  211 (253)
                      |++|.| |+++|..+++.+.
T Consensus       161 Ak~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         161 ALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             cCCCCCCHHHHHHHHHHHHh
Confidence            999998 9999999998653

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

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=2.2e-32  Score=213.60  Aligned_cols=161  Identities=34%  Similarity=0.623  Sum_probs=139.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      ||+|+|++|||||||+++|..+.+...+.+|..+.+...+.+ ++..+.+++|||+|+++|..++..+++.+|++|+|||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVVV-DGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS   79 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhEEEEEEE-CCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEE
Confidence            689999999999999999999998877888877666666666 7778899999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc---CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          131 VDDASTWDVVKDLREQIVNKR---GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      +++..+|+.+..|+..+....   ..++|+++|+||+|+... .+....+..++. ..+++++++||++|.|++++|.++
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~SAk~~~~v~~l~~~l  158 (190)
T cd04144          80 ITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALAR-RLGCEFIEASAKTNVNVERAFYTL  158 (190)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHH-HhCCEEEEecCCCCCCHHHHHHHH
Confidence            999999999999988876643   256899999999998654 555556666666 456789999999999999999999


Q ss_pred             HHHHHHh
Q psy549          207 LAQAKVQ  213 (253)
Q Consensus       207 ~~~~~~~  213 (253)
                      ++.+...
T Consensus       159 ~~~l~~~  165 (190)
T cd04144         159 VRALRQQ  165 (190)
T ss_pred             HHHHHHh
Confidence            9887544

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.

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=5.6e-32  Score=213.14  Aligned_cols=166  Identities=25%  Similarity=0.383  Sum_probs=141.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+|+|++|||||||+++|+++.+...+.+|.. ++....+.+.++..+.+.+||++|+++|..++..+++++|++|+|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv   80 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIV   80 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEE
Confidence            5899999999999999999999988777777766 555566777337889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc----CCCCCEEEEEecCCCCC-ccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKR----GLMVPIVVVGNKCELEF-KDVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~----~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      ||++++.+|+.+..|+..+....    ...+|+++|+||+|+.. ..+..+.+..++......+++++||++|.|++++|
T Consensus        81 ~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f  160 (201)
T cd04107          81 FDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAM  160 (201)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHH
Confidence            99999999999999988876532    35689999999999974 35667777788774444789999999999999999


Q ss_pred             HHHHHHHHHhcc
Q psy549          204 KELLAQAKVQYN  215 (253)
Q Consensus       204 ~~l~~~~~~~~~  215 (253)
                      ++|++.+....+
T Consensus       161 ~~l~~~l~~~~~  172 (201)
T cd04107         161 RFLVKNILANDK  172 (201)
T ss_pred             HHHHHHHHHhch
Confidence            999998876533

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.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=4.5e-32  Score=208.48  Aligned_cols=163  Identities=29%  Similarity=0.509  Sum_probs=143.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+|+|++|||||||+++|.++.+...+.+|.+..+...+.+ ++..+.+++||++|+++|..++..+++.+|++++|
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv   80 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKQQARI-DNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIIC   80 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceEEEEEEE-CCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEE
Confidence            47999999999999999999999999877888887666667777 78889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      ||++++.+|..+..|+..+... ...++|+++|+||+|+.+. .+..+.+..+++ ..++++++|||++|.||+++|++|
T Consensus        81 ~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~-~~~~~~~e~Sa~~~~~v~~~f~~l  159 (172)
T cd04141          81 YSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAR-EFNCPFFETSAALRHYIDDAFHGL  159 (172)
T ss_pred             EECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHH-HhCCEEEEEecCCCCCHHHHHHHH
Confidence            9999999999999888877764 3357999999999998654 567777888887 567899999999999999999999


Q ss_pred             HHHHHHh
Q psy549          207 LAQAKVQ  213 (253)
Q Consensus       207 ~~~~~~~  213 (253)
                      ++.+...
T Consensus       160 ~~~~~~~  166 (172)
T cd04141         160 VREIRRK  166 (172)
T ss_pred             HHHHHHh
Confidence            9988654

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

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=7.5e-32  Score=210.63  Aligned_cols=161  Identities=23%  Similarity=0.433  Sum_probs=140.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+++|+.|||||||+++|..+.|...+.+|..+.+...+.+ ++..+.+++|||+|+++|..++..+++++|++|+|
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilv   81 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTAV-DGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIIC   81 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeEEEEEE-CCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEE
Confidence            48999999999999999999999999888888887766666777 78889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEeccC
Q psy549          129 YAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       129 ~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      ||++++.+|+.+. .|+..+.... +++|+++|+||.|+.+.             .+..+.++.+++....+++++|||+
T Consensus        82 ydit~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk  160 (191)
T cd01875          82 FSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSAL  160 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCC
Confidence            9999999999986 5777666543 67999999999999653             2455677888874444789999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q psy549          195 ENYNIVQVFKELLAQAK  211 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~~  211 (253)
                      +|.||+++|.++++.+.
T Consensus       161 ~g~~v~e~f~~l~~~~~  177 (191)
T cd01875         161 NQDGVKEVFAEAVRAVL  177 (191)
T ss_pred             CCCCHHHHHHHHHHHHh
Confidence            99999999999998773

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

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=5.1e-32  Score=209.02  Aligned_cols=160  Identities=26%  Similarity=0.387  Sum_probs=140.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+++|++|||||||+++|.++.+...+.+|....+...+.+ ++..+.+++|||+|+++|..++..+++++|++|+|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYTASFEI-DEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEEEEEEE-CCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            37999999999999999999999999888888887666677777 78889999999999999999999999999999999


Q ss_pred             EECCChhhHHHH-HHHHHHHHHhcCCCCCEEEEEecCCCCC-------------ccccHHHHHHHHHhcCC-CcEEEecc
Q psy549          129 YAVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEF-------------KDVRREIAETIALYDWQ-CGFVECSA  193 (253)
Q Consensus       129 ~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~-------------~~~~~~~~~~~~~~~~~-~~~~~~Sa  193 (253)
                      ||++++.||+.+ ..|+..+.... +.+|+++|+||+|+..             ..+..+.++.+++ ..+ .++++|||
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~-~~~~~~~~E~SA  157 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAK-QLGAEIYLECSA  157 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHH-HhCCCEEEECcc
Confidence            999999999995 78998887754 6799999999999864             1477888999998 455 48999999


Q ss_pred             CCCCC-HHHHHHHHHHHHH
Q psy549          194 KENYN-IVQVFKELLAQAK  211 (253)
Q Consensus       194 ~~~~~-i~~l~~~l~~~~~  211 (253)
                      ++|.+ |+++|..+++.+.
T Consensus       158 ~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         158 FTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             CcCCcCHHHHHHHHHHHHh
Confidence            99995 9999999998653

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

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=1.7e-31  Score=212.40  Aligned_cols=163  Identities=26%  Similarity=0.340  Sum_probs=142.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+|+|++|||||||+++|.++.+...+.+|.. +++...+.++++..+.+.|||++|++.+..++..+++++|++|+|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV   80 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLV   80 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEE
Confidence            5899999999999999999999999887777776 666777777555689999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC---CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRG---LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ||++++++|+.+..|+..+.....   .++|+++|+||+|+.+. .+..+....++. ..+++++++||++|.|++++|+
T Consensus        81 ~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~-~~~~~~~~iSAktg~gv~~lf~  159 (215)
T cd04109          81 YDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQ-ANGMESCLVSAKTGDRVNLLFQ  159 (215)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHH-HcCCEEEEEECCCCCCHHHHHH
Confidence            999999999999999998887542   35789999999999743 666777788887 4668899999999999999999


Q ss_pred             HHHHHHHHh
Q psy549          205 ELLAQAKVQ  213 (253)
Q Consensus       205 ~l~~~~~~~  213 (253)
                      ++++.+...
T Consensus       160 ~l~~~l~~~  168 (215)
T cd04109         160 QLAAELLGV  168 (215)
T ss_pred             HHHHHHHhc
Confidence            999988764

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

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=1.8e-31  Score=204.00  Aligned_cols=161  Identities=28%  Similarity=0.400  Sum_probs=140.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+||+++|++|||||||+++|.++.+...+++|.. +.....+.+ ++..+.+.+||++|++++...+..+++++|++|+
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~il   80 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-NGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM   80 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEE-CCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEE
Confidence            37999999999999999999999998877777765 444455666 7778999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      |||++++.+|+.+..|+..+.....++.|+++|+||+|+... .+..+.+..++. ..+.+++++||++|.|+.++|.++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~~~~i~e~f~~l  159 (166)
T cd04122          81 VYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFAD-ENGLLFLECSAKTGENVEDAFLET  159 (166)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHH-HcCCEEEEEECCCCCCHHHHHHHH
Confidence            999999999999999999887766677999999999999765 456677777777 567899999999999999999999


Q ss_pred             HHHHH
Q psy549          207 LAQAK  211 (253)
Q Consensus       207 ~~~~~  211 (253)
                      +..+.
T Consensus       160 ~~~~~  164 (166)
T cd04122         160 AKKIY  164 (166)
T ss_pred             HHHHh
Confidence            98774

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

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=2.5e-31  Score=210.78  Aligned_cols=158  Identities=25%  Similarity=0.314  Sum_probs=132.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+|+|.+|||||||+++|+.+.+.. +.+|.. +.....     ...+.+.+||++|++.|..++..+++.+|++|+|
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~-----~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV   74 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQ-----WGPYNISIWDTAGREQFHGLGSMYCRGAAAVILT   74 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEE-----eeEEEEEEEeCCCcccchhhHHHHhccCCEEEEE
Confidence            589999999999999999999999864 344443 322221     2357899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC--------------------ccccHHHHHHHHHhcC----
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF--------------------KDVRREIAETIALYDW----  184 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~--------------------~~~~~~~~~~~~~~~~----  184 (253)
                      ||++++.+|..+..|+..+......++|+++|+||+|+.+                    ..+..+.+..+++...    
T Consensus        75 ~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~  154 (220)
T cd04126          75 YDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKM  154 (220)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCcccc
Confidence            9999999999999988887776556799999999999865                    2666778888887433    


Q ss_pred             ---------CCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          185 ---------QCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       185 ---------~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                               .++|++|||++|.||+++|..+++.+...
T Consensus       155 ~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~  192 (220)
T cd04126         155 LDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPL  192 (220)
T ss_pred             ccccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence                     16899999999999999999999988654

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

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=1.8e-31  Score=203.53  Aligned_cols=161  Identities=41%  Similarity=0.714  Sum_probs=140.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      ++||+++|++|||||||++++..+.+...+.+|+.+.+...+.+ ++..+.+++||++|++++..++..+++++|++++|
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEV-DGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLV   79 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEEEEEEE-CCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEE
Confidence            47999999999999999999999988888888888777777777 77788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      ||+++..+|+.+..|+..+... ...++|+++|+||+|+.+. ....+..+.+++ ..+++++++||++|.|+.++|.++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~~~~~l  158 (164)
T cd04175          80 YSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLAR-QWGCAFLETSAKAKINVNEIFYDL  158 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHH-HhCCEEEEeeCCCCCCHHHHHHHH
Confidence            9999999999999999888764 3467999999999999765 445555666765 566899999999999999999999


Q ss_pred             HHHHH
Q psy549          207 LAQAK  211 (253)
Q Consensus       207 ~~~~~  211 (253)
                      ++.+.
T Consensus       159 ~~~l~  163 (164)
T cd04175         159 VRQIN  163 (164)
T ss_pred             HHHhh
Confidence            98764

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=100.00  E-value=2.1e-31  Score=202.74  Aligned_cols=160  Identities=44%  Similarity=0.729  Sum_probs=139.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+|+|++|||||||++++..+.+...+.+|+.+.+...+.+ ++..+.+++||++|+++|..++..+++++|++++|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   79 (163)
T cd04136           1 EYKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQIEV-DGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhhhEEEEEEE-CCEEEEEEEEECCCccccchHHHHHhhcCCEEEEE
Confidence            37999999999999999999999998887888877777777777 77788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      ||++++.+|+.+..|+..+.... ..++|+++|+||+|+.+. .+..+....++. .++.+++++||++|.|+.++|+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~l~~~l  158 (163)
T cd04136          80 YSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALAR-QWGCPFYETSAKSKINVDEVFADL  158 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHH-HcCCeEEEecCCCCCCHHHHHHHH
Confidence            99999999999999998887743 357999999999998654 455556666766 456899999999999999999999


Q ss_pred             HHHH
Q psy549          207 LAQA  210 (253)
Q Consensus       207 ~~~~  210 (253)
                      ++.+
T Consensus       159 ~~~~  162 (163)
T cd04136         159 VRQI  162 (163)
T ss_pred             HHhc
Confidence            8765

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.

>KOG0091|consensus

Probab=100.00  E-value=1e-31  Score=194.16  Aligned_cols=168  Identities=26%  Similarity=0.377  Sum_probs=151.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..++.++||++-+|||+|+++|..+++..-..+|.+ +++...+.+.+|..+++++|||+|+++|++.+..+|++.-+++
T Consensus         7 yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgvl   86 (213)
T KOG0091|consen    7 YQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGVL   86 (213)
T ss_pred             EEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccceE
Confidence            457999999999999999999999999776667766 8888888888899999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CC-CCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRG-LM-VPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~-~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|||+++.+||+.++.|..+...... |. +-+.+|++|+||... ++..+.++.++. .+++.++|||+++|.|+++.|
T Consensus        87 lvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa-~hgM~FVETSak~g~NVeEAF  165 (213)
T KOG0091|consen   87 LVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAA-SHGMAFVETSAKNGCNVEEAF  165 (213)
T ss_pred             EEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHH-hcCceEEEecccCCCcHHHHH
Confidence            99999999999999999988777544 44 455789999999877 899999999999 899999999999999999999


Q ss_pred             HHHHHHHHHhccc
Q psy549          204 KELLAQAKVQYNL  216 (253)
Q Consensus       204 ~~l~~~~~~~~~~  216 (253)
                      +.+.+.+......
T Consensus       166 ~mlaqeIf~~i~q  178 (213)
T KOG0091|consen  166 DMLAQEIFQAIQQ  178 (213)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999988776443

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=3.7e-31  Score=206.47  Aligned_cols=165  Identities=33%  Similarity=0.589  Sum_probs=143.0

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...+||+|+|++|||||||+++|.++.+...+.+|....+...+.+ ++..+.+++|||+|+++|..++..+++.+|+++
T Consensus         3 ~~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~ii   81 (189)
T PTZ00369          3 STEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYRKQCVI-DEETCLLDILDTAGQEEYSAMRDQYMRTGQGFL   81 (189)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEEEEEEEE-CCEEEEEEEEeCCCCccchhhHHHHhhcCCEEE
Confidence            3469999999999999999999999998877878877777777777 777889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      +|||++++.+|+.+..|+..+.... ..++|+++|+||+|+... .+..+.+..++. ..+.+++++||++|.|+.++|.
T Consensus        82 lv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~-~~~~~~~e~Sak~~~gi~~~~~  160 (189)
T PTZ00369         82 CVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAK-SFGIPFLETSAKQRVNVDEAFY  160 (189)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHH-HhCCEEEEeeCCCCCCHHHHHH
Confidence            9999999999999999998887643 357899999999998654 455556666665 4567899999999999999999


Q ss_pred             HHHHHHHHh
Q psy549          205 ELLAQAKVQ  213 (253)
Q Consensus       205 ~l~~~~~~~  213 (253)
                      +|++.+...
T Consensus       161 ~l~~~l~~~  169 (189)
T PTZ00369        161 ELVREIRKY  169 (189)
T ss_pred             HHHHHHHHH
Confidence            999988654

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=2.7e-31  Score=204.64  Aligned_cols=159  Identities=27%  Similarity=0.427  Sum_probs=137.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+++|++|||||||+++|.++.+...+.+|....+...+.+ ++..+.+.+||++|+++|..++..+++++|++|+||
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~   80 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCF   80 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeEEEEEE-CCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEE
Confidence            6999999999999999999999999888888888777667777 778899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          130 AVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       130 d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      |++++.+|+.+. .|+..+.... +++|+++|+||+|+...             .+..+.++.+++....+.+++|||++
T Consensus        81 d~~~~~s~~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~t  159 (175)
T cd01874          81 SVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALT  159 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCC
Confidence            999999999986 4877766543 57999999999998653             35566677777744457899999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQA  210 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~  210 (253)
                      |.|++++|+.+++.+
T Consensus       160 g~~v~~~f~~~~~~~  174 (175)
T cd01874         160 QKGLKNVFDEAILAA  174 (175)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998854

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

>KOG0080|consensus

Probab=100.00  E-value=1.9e-31  Score=192.23  Aligned_cols=166  Identities=27%  Similarity=0.378  Sum_probs=151.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....+||++||++|+|||+|+-+|..+.|....+.|++ ++..+.+.+ +|..+++.||||+|+++|+.+++.+|+++.+
T Consensus         8 ~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~v-dg~~~KlaiWDTAGqErFRtLTpSyyRgaqG   86 (209)
T KOG0080|consen    8 YDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQV-DGKRLKLAIWDTAGQERFRTLTPSYYRGAQG   86 (209)
T ss_pred             cceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEE-cCceEEEEEEeccchHhhhccCHhHhccCce
Confidence            45669999999999999999999999999887777776 888888898 9999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|+|||++.+++|..+..|+.++..+.. +++-.++|+||+|..+. .+..+....+++ ...+-++++||++..++...
T Consensus        87 iIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr-~h~~LFiE~SAkt~~~V~~~  165 (209)
T KOG0080|consen   87 IILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFAR-KHRCLFIECSAKTRENVQCC  165 (209)
T ss_pred             eEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHH-hhCcEEEEcchhhhccHHHH
Confidence            9999999999999999999999988643 56788999999998754 888899999999 78888999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy549          203 FKELLAQAKVQ  213 (253)
Q Consensus       203 ~~~l~~~~~~~  213 (253)
                      |+.++..+.+.
T Consensus       166 FeelveKIi~t  176 (209)
T KOG0080|consen  166 FEELVEKIIET  176 (209)
T ss_pred             HHHHHHHHhcC
Confidence            99999999765

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=1.2e-30  Score=205.27  Aligned_cols=164  Identities=26%  Similarity=0.340  Sum_probs=140.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..++|+|+|++|||||||+++|.+..+...+.+|.. +.....+.+ ++..+.+.|||+||++.+..++..+++++++++
T Consensus         5 ~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~ii   83 (199)
T cd04110           5 HLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI-NGERVKLQIWDTAGQERFRTITSTYYRGTHGVI   83 (199)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEE-CCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEE
Confidence            468999999999999999999999988766666665 445556666 677789999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||++++.+|..+..|+..+.... ..+|+++|+||+|+... .+..+.+..++. ..+.+++++|+++|.||+++|++
T Consensus        84 lv~D~~~~~s~~~~~~~~~~i~~~~-~~~piivVgNK~Dl~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~~~gi~~lf~~  161 (199)
T cd04110          84 VVYDVTNGESFVNVKRWLQEIEQNC-DDVCKVLVGNKNDDPERKVVETEDAYKFAG-QMGISLFETSAKENINVEEMFNC  161 (199)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccccCHHHHHHHHH-HcCCEEEEEECCCCcCHHHHHHH
Confidence            9999999999999999998876643 57899999999999765 455666677776 45688999999999999999999


Q ss_pred             HHHHHHHhc
Q psy549          206 LLAQAKVQY  214 (253)
Q Consensus       206 l~~~~~~~~  214 (253)
                      |.+.+....
T Consensus       162 l~~~~~~~~  170 (199)
T cd04110         162 ITELVLRAK  170 (199)
T ss_pred             HHHHHHHhh
Confidence            999987653

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

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=1e-30  Score=203.90  Aligned_cols=162  Identities=27%  Similarity=0.365  Sum_probs=140.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+|+|++|||||||+++|.++.+...+.+|.. +.....+.+ ++..+.+++||++|.+++...+..+++++|++++|
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv   79 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYI-ENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLV   79 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEE
Confidence            5899999999999999999999998765666655 455566666 77789999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||++++.+|..+..|+..+.......+|+++|+||+|+.+. .+..+.+..++. ..+++++++||++|.|++++|.+++
T Consensus        80 ~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~evSa~~~~~i~~~f~~l~  158 (188)
T cd04125          80 YDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCD-SLNIPFFETSAKQSINVEEAFILLV  158 (188)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999888766667899999999998754 556677777776 4567999999999999999999999


Q ss_pred             HHHHHh
Q psy549          208 AQAKVQ  213 (253)
Q Consensus       208 ~~~~~~  213 (253)
                      +.+...
T Consensus       159 ~~~~~~  164 (188)
T cd04125         159 KLIIKR  164 (188)
T ss_pred             HHHHHH
Confidence            998654

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.

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=5.4e-31  Score=200.40  Aligned_cols=158  Identities=24%  Similarity=0.396  Sum_probs=139.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      ++|+++|++|+|||||+++|+++.+...+.+|.. +.....+.+ ++..+.+++||++|++++..++..+++.+|++++|
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEV-DGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLV   79 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEE
Confidence            5899999999999999999999998777766665 455567777 67788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||++++.+|+.+..|+..+......++|+++|+||.|+... .+..+.+..+++ .++.++++|||++|.|++++|.+|+
T Consensus        80 ~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~Sa~~~~~v~~~f~~l~  158 (161)
T cd04117          80 YDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAK-EYGMDFFETSACTNSNIKESFTRLT  158 (161)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999887765557999999999999765 566778888887 5678999999999999999999998


Q ss_pred             HH
Q psy549          208 AQ  209 (253)
Q Consensus       208 ~~  209 (253)
                      +.
T Consensus       159 ~~  160 (161)
T cd04117         159 EL  160 (161)
T ss_pred             hh
Confidence            64

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

>KOG0093|consensus

Probab=100.00  E-value=2.2e-31  Score=189.15  Aligned_cols=171  Identities=25%  Similarity=0.376  Sum_probs=153.1

Q ss_pred             CCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhccc
Q psy549           43 VGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST  121 (253)
Q Consensus        43 ~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~  121 (253)
                      .+.....+|+.|+|++.+|||+|+.++.++.|...+..|.+ ++..+++.- ..+.+++++|||+|+++|+.++..+|++
T Consensus        15 dqnFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr-~~kRiklQiwDTagqEryrtiTTayyRg   93 (193)
T KOG0093|consen   15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYR-SDKRIKLQIWDTAGQERYRTITTAYYRG   93 (193)
T ss_pred             cccccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeee-cccEEEEEEEecccchhhhHHHHHHhhc
Confidence            34456678999999999999999999999999888888877 655555554 6678999999999999999999999999


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       122 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      ++++|++||+++.+||..+..|...+....-.+.|+++|+||||+.+. .+..+....+++ ..+..+||+||+.+.|++
T Consensus        94 amgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~-~LGfefFEtSaK~NinVk  172 (193)
T KOG0093|consen   94 AMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLAD-QLGFEFFETSAKENINVK  172 (193)
T ss_pred             cceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHH-HhChHHhhhcccccccHH
Confidence            999999999999999999999999999888889999999999999887 777888899998 788899999999999999


Q ss_pred             HHHHHHHHHHHHhcc
Q psy549          201 QVFKELLAQAKVQYN  215 (253)
Q Consensus       201 ~l~~~l~~~~~~~~~  215 (253)
                      ++|+.+...+-+.+.
T Consensus       173 ~~Fe~lv~~Ic~kms  187 (193)
T KOG0093|consen  173 QVFERLVDIICDKMS  187 (193)
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999998876644

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

Probab=100.00  E-value=8.4e-31  Score=199.01  Aligned_cols=160  Identities=31%  Similarity=0.570  Sum_probs=139.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+|+|++|||||||+++|.++.+...+.+|..+.+...+.+ ++..+.+++||++|++++..++..+++.+|++++|
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v   79 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   79 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheEEEEEEE-CCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEE
Confidence            37999999999999999999999998878888877777777777 77778899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||+++..+|..+..|+..+.... ..++|+++|+||+|+............+.. ..+.+++++||++|.|++++|++++
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~l~  158 (162)
T cd04138          80 FAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAARTVSSRQGQDLAK-SYGIPYIETSAKTRQGVEEAFYTLV  158 (162)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccceecHHHHHHHHH-HhCCeEEEecCCCCCCHHHHHHHHH
Confidence            99999999999999988887753 357899999999999876666666667766 5677999999999999999999998


Q ss_pred             HHH
Q psy549          208 AQA  210 (253)
Q Consensus       208 ~~~  210 (253)
                      +.+
T Consensus       159 ~~~  161 (162)
T cd04138         159 REI  161 (162)
T ss_pred             HHh
Confidence            754

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.

>KOG0086|consensus

Probab=99.98  E-value=2.9e-31  Score=189.76  Aligned_cols=171  Identities=20%  Similarity=0.286  Sum_probs=156.0

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ...-+|++++|+.|+|||+|+++|...+|..+...|.+ ++-...+.+ +++.++++||||+|+++|++....+|+++.+
T Consensus         6 YDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinV-GgK~vKLQIWDTAGQErFRSVtRsYYRGAAG   84 (214)
T KOG0086|consen    6 YDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNV-GGKTVKLQIWDTAGQERFRSVTRSYYRGAAG   84 (214)
T ss_pred             hhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeee-cCcEEEEEEeecccHHHHHHHHHHHhccccc
Confidence            45678999999999999999999999999888878877 666667777 9999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +++|||++++++|+.+..|+..+.....+++.+++++||.|+.+. ++....+..++. ...+.++++|+++|.|++|.|
T Consensus        85 AlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~Faq-Enel~flETSa~TGeNVEEaF  163 (214)
T KOG0086|consen   85 ALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQ-ENELMFLETSALTGENVEEAF  163 (214)
T ss_pred             eEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhc-ccceeeeeecccccccHHHHH
Confidence            999999999999999999999999999999999999999999887 888889999998 566789999999999999999


Q ss_pred             HHHHHHHHHhcccCh
Q psy549          204 KELLAQAKVQYNLSP  218 (253)
Q Consensus       204 ~~l~~~~~~~~~~~~  218 (253)
                      -...+.+..+....+
T Consensus       164 l~c~~tIl~kIE~GE  178 (214)
T KOG0086|consen  164 LKCARTILNKIESGE  178 (214)
T ss_pred             HHHHHHHHHHHhhcC
Confidence            999998888766554

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.98  E-value=7.4e-31  Score=202.02  Aligned_cols=159  Identities=23%  Similarity=0.391  Sum_probs=137.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+|+|++|||||||+.+++++.+...+.+|..+.+...+.+ ++..+.+++|||+|++.|..++..+++++|++|+|
T Consensus         1 ~~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (174)
T cd01871           1 AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLIC   79 (174)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeeeEEEEEE-CCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEE
Confidence            37999999999999999999999999888888887777767777 88889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEeccC
Q psy549          129 YAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       129 ~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      ||++++++|..+. .|+..+.... +++|+++|+||+|+.+.             .+..+.+..+++..+.+++++|||+
T Consensus        80 ~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~  158 (174)
T cd01871          80 FSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL  158 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeccc
Confidence            9999999999985 5777666543 57999999999998642             3667778888885554699999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy549          195 ENYNIVQVFKELLAQ  209 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~  209 (253)
                      +|.|++++|+.+++.
T Consensus       159 ~~~~i~~~f~~l~~~  173 (174)
T cd01871         159 TQKGLKTVFDEAIRA  173 (174)
T ss_pred             ccCCHHHHHHHHHHh
Confidence            999999999998864

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.98  E-value=8.3e-31  Score=199.65  Aligned_cols=160  Identities=38%  Similarity=0.668  Sum_probs=138.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      ++||+++|++|+|||||++++.++.+...+.+|..+.+...+.+ ++..+.++|||++|+++|..++..+++++|++++|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   79 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIEDFYRKEIEV-DSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchhheEEEEEEE-CCEEEEEEEEECCCcccccchHHHHHhhCCEEEEE
Confidence            47999999999999999999999999877777777777777887 77888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      ||++++.+|..+..|+..+.... ..++|+++|+||+|+... .+.......++. ..+++++++||+++.|+.++|.++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~l~~~l  158 (163)
T cd04176          80 YSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAE-EWGCPFMETSAKSKTMVNELFAEI  158 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHH-HhCCEEEEecCCCCCCHHHHHHHH
Confidence            99999999999999988887743 357999999999998654 444555666665 456799999999999999999999


Q ss_pred             HHHH
Q psy549          207 LAQA  210 (253)
Q Consensus       207 ~~~~  210 (253)
                      ++.+
T Consensus       159 ~~~l  162 (163)
T cd04176         159 VRQM  162 (163)
T ss_pred             HHhc
Confidence            8754

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.98  E-value=1.3e-30  Score=199.42  Aligned_cols=163  Identities=29%  Similarity=0.464  Sum_probs=141.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+||+++|++|+|||||+++|.++.+...+.++.. +.....+.+ ++..+.+++||++|++.+...+..+++++|+++
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i   80 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIEL-DGKKIKLQIWDTAGQERFRTITTAYYRGAMGII   80 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEE-CCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEE
Confidence            358999999999999999999999998777776666 444556666 667789999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||++++.+|..+..|+..+......++|+++|+||+|+.+. .+..+.+..++. ..+.+++++||++|.|++++|.+
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~~~~~  159 (167)
T cd01867          81 LVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALAD-EYGIKFLETSAKANINVEEAFFT  159 (167)
T ss_pred             EEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999999888766567999999999999854 456666777776 56789999999999999999999


Q ss_pred             HHHHHHH
Q psy549          206 LLAQAKV  212 (253)
Q Consensus       206 l~~~~~~  212 (253)
                      +++.+..
T Consensus       160 i~~~~~~  166 (167)
T cd01867         160 LAKDIKK  166 (167)
T ss_pred             HHHHHHh
Confidence            9998853

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.98  E-value=1.7e-30  Score=203.08  Aligned_cols=162  Identities=25%  Similarity=0.443  Sum_probs=138.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCC-CCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      +||+++|++|||||||+++|.++.+. ..+.+|+. +.....+.+ ++..+.+.|||+||++++...+..+++.+|++|+
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~   79 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTV-DGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLL   79 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEE-CCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEE
Confidence            58999999999999999999998874 35556665 444445666 7778999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      |||+++..+|+.+..|+..+.......+|+++|+||+|+... .+..+..+.+.. ..+.+++++||++|.|++++|.+|
T Consensus        80 v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~-~~~~~~~e~Sa~~~~~v~~l~~~l  158 (191)
T cd04112          80 LYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAK-EYGVPFMETSAKTGLNVELAFTAV  158 (191)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHHHHHH
Confidence            999999999999999998888766567999999999999643 555566777776 567899999999999999999999


Q ss_pred             HHHHHHh
Q psy549          207 LAQAKVQ  213 (253)
Q Consensus       207 ~~~~~~~  213 (253)
                      ++.+...
T Consensus       159 ~~~~~~~  165 (191)
T cd04112         159 AKELKHR  165 (191)
T ss_pred             HHHHHHh
Confidence            9998665

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.98  E-value=1.5e-30  Score=198.41  Aligned_cols=160  Identities=40%  Similarity=0.694  Sum_probs=139.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+|+|++|||||||+++|.++.+...+.++..+.+...+.+ ++..+.+.+||+||++++..++..+++.+|++++||
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIEDSYRKQIEI-DGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhhhEEEEEEE-CCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEE
Confidence            5899999999999999999999998877778877777777777 777899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      |++++++|+.+..|+..+... ...++|+++|+||+|+... ....+....++. ..+.+++++||++|.|++++|++|+
T Consensus        80 d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~i~~l~~~l~  158 (164)
T smart00173       80 SITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELAR-QWGCPFLETSAKERVNVDEAFYDLV  158 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHH-HcCCEEEEeecCCCCCHHHHHHHHH
Confidence            999999999999998887764 3346899999999999764 455566666766 4568999999999999999999999


Q ss_pred             HHHH
Q psy549          208 AQAK  211 (253)
Q Consensus       208 ~~~~  211 (253)
                      +.+.
T Consensus       159 ~~~~  162 (164)
T smart00173      159 REIR  162 (164)
T ss_pred             HHHh
Confidence            8764

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.98  E-value=1.3e-30  Score=207.53  Aligned_cols=165  Identities=21%  Similarity=0.344  Sum_probs=141.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....+||+++|++|||||||+++++.+.+...+.+|.+ +.....+.. ++..+.+.+||++|+++|..++..+++++|+
T Consensus        10 ~~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~   88 (219)
T PLN03071         10 DYPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFT-NCGKIRFYCWDTAGQEKFGGLRDGYYIHGQC   88 (219)
T ss_pred             CCCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEE-CCeEEEEEEEECCCchhhhhhhHHHcccccE
Confidence            46779999999999999999999999998877777775 555556666 6667899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      +|+|||++++.+|..+..|+..+.... .++|+++|+||+|+....+..+.. .+.. ..++++++|||++|.|+.++|.
T Consensus        89 ~ilvfD~~~~~s~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~~~v~~~~~-~~~~-~~~~~~~e~SAk~~~~i~~~f~  165 (219)
T PLN03071         89 AIIMFDVTARLTYKNVPTWHRDLCRVC-ENIPIVLCGNKVDVKNRQVKAKQV-TFHR-KKNLQYYEISAKSNYNFEKPFL  165 (219)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhhhhccCCHHHH-HHHH-hcCCEEEEcCCCCCCCHHHHHH
Confidence            999999999999999999999887654 679999999999997655555444 4555 5678899999999999999999


Q ss_pred             HHHHHHHHhc
Q psy549          205 ELLAQAKVQY  214 (253)
Q Consensus       205 ~l~~~~~~~~  214 (253)
                      +|++.+....
T Consensus       166 ~l~~~~~~~~  175 (219)
T PLN03071        166 YLARKLAGDP  175 (219)
T ss_pred             HHHHHHHcCc
Confidence            9999986553

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.98  E-value=1.8e-30  Score=202.33  Aligned_cols=163  Identities=28%  Similarity=0.433  Sum_probs=138.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+|+|++|||||||+++|.++.+...+.++....+...+...++..+.+.+|||+|++++..++..+++.+|++++||
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~   80 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVTNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICY   80 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEEEEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEE
Confidence            58999999999999999999999998888777776666666664477889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-----cccHHHHHHHHHhcCCC-cEEEeccCCCCCHHHH
Q psy549          130 AVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-----DVRREIAETIALYDWQC-GFVECSAKENYNIVQV  202 (253)
Q Consensus       130 d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-----~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~l  202 (253)
                      |++++.+|+.+. .|+..+... .+++|+++|+||+|+...     .+..+.++.++. ..+. +++++||++|.|+.++
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~-~~~~~~~~e~Sa~~~~~v~~~  158 (187)
T cd04132          81 AVDNPTSLDNVEDKWFPEVNHF-CPGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAK-KQGAFAYLECSAKTMENVEEV  158 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEeChhhhhCccccCCcCHHHHHHHHH-HcCCcEEEEccCCCCCCHHHH
Confidence            999999999986 477666543 367999999999998653     355667777777 4445 8999999999999999


Q ss_pred             HHHHHHHHHHhc
Q psy549          203 FKELLAQAKVQY  214 (253)
Q Consensus       203 ~~~l~~~~~~~~  214 (253)
                      |..+++.+....
T Consensus       159 f~~l~~~~~~~~  170 (187)
T cd04132         159 FDTAIEEALKKE  170 (187)
T ss_pred             HHHHHHHHHhhh
Confidence            999999986553

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.

>cd04111 Rab39 Rab39 subfamily

Probab=99.98  E-value=4.3e-30  Score=203.57  Aligned_cols=166  Identities=27%  Similarity=0.436  Sum_probs=142.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+||+|+|++|||||||+++|.++.+...+.+|.. ++....+.+.++..+.+++||++|++++..++..+++++|++++
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iil   81 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLL   81 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEE
Confidence            48999999999999999999999988766655554 66666676656778999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |||++++.+|+.+..|+..+..... ..+|+++|+||+|+... .+..+....+++ ..+++++++||++|.|++++|++
T Consensus        82 v~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~Sak~g~~v~e~f~~  160 (211)
T cd04111          82 VFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAK-DLGMKYIETSARTGDNVEEAFEL  160 (211)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHH-HhCCEEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999998876543 35788999999998764 566777788887 56689999999999999999999


Q ss_pred             HHHHHHHhcc
Q psy549          206 LLAQAKVQYN  215 (253)
Q Consensus       206 l~~~~~~~~~  215 (253)
                      |++.+.+..+
T Consensus       161 l~~~~~~~~~  170 (211)
T cd04111         161 LTQEIYERIK  170 (211)
T ss_pred             HHHHHHHHhh
Confidence            9998877644

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.98  E-value=1.9e-30  Score=198.33  Aligned_cols=161  Identities=29%  Similarity=0.439  Sum_probs=140.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+||+|+|++|||||||+++|.++.+...+.++.. +.....+.+ ++..+.+++||+||++++..++..+++++|++++
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~   80 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQERFRTITSSYYRGAHGIII   80 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEE
Confidence            37999999999999999999999888666655554 555566777 7778899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      |||++++++|..+..|+..+......++|+++|+||+|+... .+..+.+..++. ..+++++++||++|.|++++|.+|
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~~~~~i  159 (166)
T cd01869          81 VYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFAD-ELGIPFLETSAKNATNVEQAFMTM  159 (166)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHH-HcCCeEEEEECCCCcCHHHHHHHH
Confidence            999999999999999999887765567999999999998655 566677777777 567899999999999999999999


Q ss_pred             HHHHH
Q psy549          207 LAQAK  211 (253)
Q Consensus       207 ~~~~~  211 (253)
                      ++.+.
T Consensus       160 ~~~~~  164 (166)
T cd01869         160 AREIK  164 (166)
T ss_pred             HHHHH
Confidence            98874

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

>cd04128 Spg1 Spg1p

Probab=99.98  E-value=1.4e-30  Score=201.71  Aligned_cols=160  Identities=23%  Similarity=0.391  Sum_probs=136.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+++|+.|||||||+++|.++.+...+.+|.. +.....+.+ ++..+.+++||++|+++|..++..+++++|++++|
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~-~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv   79 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISI-RGTEITFSIWDLGGQREFINMLPLVCNDAVAILFM   79 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEE-CCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEE
Confidence            5899999999999999999999999887888876 555567777 77889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc------cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK------DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      ||++++.+|+.+..|+..+.......+| ++|+||+|+...      ....+.++.+++ ..+.++++|||++|.|++++
T Consensus        80 ~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~-~~~~~~~e~SAk~g~~v~~l  157 (182)
T cd04128          80 FDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAK-AMKAPLIFCSTSHSINVQKI  157 (182)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHH-HcCCEEEEEeCCCCCCHHHH
Confidence            9999999999999999988776545566 678999998532      122345566766 45689999999999999999


Q ss_pred             HHHHHHHHHH
Q psy549          203 FKELLAQAKV  212 (253)
Q Consensus       203 ~~~l~~~~~~  212 (253)
                      |+++++.+..
T Consensus       158 f~~l~~~l~~  167 (182)
T cd04128         158 FKIVLAKAFD  167 (182)
T ss_pred             HHHHHHHHHh
Confidence            9999998865

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.98  E-value=2.1e-30  Score=197.97  Aligned_cols=160  Identities=28%  Similarity=0.435  Sum_probs=137.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+|+|++|||||||+++|.++.+...+.+|.. +.....+.. ++..+.+++||++|++++..++..+++++|++++|
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v   80 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFR-NDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM   80 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEE
Confidence            7999999999999999999999998777666665 333444555 67778999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||+++..+|+.+..|+..+.......+|+++|+||+|+... ....+.+..++. ..+.+++++||++|.|+.++|++|+
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gv~~l~~~l~  159 (165)
T cd01865          81 YDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLAD-QLGFEFFEASAKENINVKQVFERLV  159 (165)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHH-HcCCEEEEEECCCCCCHHHHHHHHH
Confidence            99999999999999999887766567999999999999765 445566666766 5667899999999999999999999


Q ss_pred             HHHH
Q psy549          208 AQAK  211 (253)
Q Consensus       208 ~~~~  211 (253)
                      +.+.
T Consensus       160 ~~~~  163 (165)
T cd01865         160 DIIC  163 (165)
T ss_pred             HHHH
Confidence            8764

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

>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=2.6e-30  Score=196.69  Aligned_cols=159  Identities=31%  Similarity=0.542  Sum_probs=146.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccc-eeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETV-EELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      ||+++|+++||||||+++|.++.+...+.+|. .+.....+.+ ++..+.+++||++|+++|..+...+++++|++|+||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~f   79 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSI-DGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVF   79 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEE-TTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhccccccccccccccccccccc-cccccccccccccccccccccccccccccccccccc
Confidence            79999999999999999999999988888887 5788888888 788999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC-ccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLA  208 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  208 (253)
                      |++++.||+.+..|+..+......++|+++|+||.|+.. ..+..+.++.++. ..+.+++++|++++.||.++|..+++
T Consensus        80 d~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~-~~~~~~~e~Sa~~~~~v~~~f~~~i~  158 (162)
T PF00071_consen   80 DVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAK-ELGVPYFEVSAKNGENVKEIFQELIR  158 (162)
T ss_dssp             ETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHH-HTTSEEEEEBTTTTTTHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccceeeeccccccccccchhhHHHHHHH-HhCCEEEEEECCCCCCHHHHHHHHHH
Confidence            999999999999999999988766799999999999986 4788888899998 55599999999999999999999999


Q ss_pred             HHH
Q psy549          209 QAK  211 (253)
Q Consensus       209 ~~~  211 (253)
                      .+.
T Consensus       159 ~i~  161 (162)
T PF00071_consen  159 KIL  161 (162)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            874

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 ....

>cd04140 ARHI_like ARHI subfamily

Probab=99.97  E-value=3.9e-30  Score=196.43  Aligned_cols=158  Identities=40%  Similarity=0.631  Sum_probs=135.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+++|++|||||||+++++++.+...+.++....+...+.. +...+.+.+||++|++++..++..+++.+|++++||
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYRQVISC-SKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVY   80 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheEEEEEEE-CCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEE
Confidence            7999999999999999999999998777777777666666666 667789999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc---CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNKR---GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |++++.+|+.+..|+..+....   ..++|+++|+||+|+... .+..+.+..++. .+.++++++||++|.|++++|++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~SA~~g~~v~~~f~~  159 (165)
T cd04140          81 SVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACAT-EWNCAFMETSAKTNHNVQELFQE  159 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHH-HhCCcEEEeecCCCCCHHHHHHH
Confidence            9999999999999988776643   256999999999999763 555666666766 56788999999999999999999


Q ss_pred             HHHH
Q psy549          206 LLAQ  209 (253)
Q Consensus       206 l~~~  209 (253)
                      |+..
T Consensus       160 l~~~  163 (165)
T cd04140         160 LLNL  163 (165)
T ss_pred             HHhc
Confidence            8754

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

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

Probab=99.97  E-value=5.7e-30  Score=195.07  Aligned_cols=160  Identities=35%  Similarity=0.602  Sum_probs=138.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+++|++|+|||||+++++++.+...+.++..+.+...+.+ ++..+.+++|||||++++..++..+++.+|++++|
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   80 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCEI-DGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLV   80 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceEEEEEEE-CCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEE
Confidence            47999999999999999999999988777777777666666777 77788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      ||+++..+|+.+..|+..+... ...++|+++|+||+|+... .+..+....++. ..+.+++++||++|.|+.++|+++
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~i~~l~~~l  159 (164)
T cd04145          81 FSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELAR-KLKIPYIETSAKDRLNVDKAFHDL  159 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHH-HcCCcEEEeeCCCCCCHHHHHHHH
Confidence            9999999999999999888764 3457899999999999765 345556666666 456799999999999999999999


Q ss_pred             HHHH
Q psy549          207 LAQA  210 (253)
Q Consensus       207 ~~~~  210 (253)
                      ++.+
T Consensus       160 ~~~~  163 (164)
T cd04145         160 VRVI  163 (164)
T ss_pred             HHhh
Confidence            8765

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.97  E-value=2.9e-30  Score=201.38  Aligned_cols=160  Identities=29%  Similarity=0.411  Sum_probs=135.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      .||+|+|++|||||||+++|.++.+...+.+|....+...+.+ ++..+.+.|||++|+++|..++..+++.+|++|+||
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~i~~-~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~   79 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYVHDIFV-DGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCF   79 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeEEEEEE-CCEEEEEEEEECCCChhccccccccccCCCEEEEEE
Confidence            3899999999999999999999999877777777666666666 777889999999999999999989999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCcc-------------ccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          130 AVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFKD-------------VRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       130 d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~~-------------~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      |++++.+|+.+. .|+..+.... .+.|+++|+||+|+....             +..+.+..++.....+++++|||++
T Consensus        80 dv~~~~sf~~~~~~~~~~i~~~~-~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~  158 (189)
T cd04134          80 SVDSPDSLENVESKWLGEIREHC-PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKL  158 (189)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCc
Confidence            999999999886 5877776543 579999999999987642             3344556666644557899999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQAK  211 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~  211 (253)
                      |.|++++|.++++.+.
T Consensus       159 ~~~v~e~f~~l~~~~~  174 (189)
T cd04134         159 NRGVNEAFTEAARVAL  174 (189)
T ss_pred             CCCHHHHHHHHHHHHh
Confidence            9999999999999885

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.

>cd04127 Rab27A Rab27a subfamily

Probab=99.97  E-value=4.6e-30  Score=198.71  Aligned_cols=165  Identities=22%  Similarity=0.366  Sum_probs=139.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCC---------CcEEEEEEEeCCCCCCChhhHHH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPD---------GAQLTLDILDTSGAYQFPAMREL  117 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~---------~~~~~~~l~D~~g~~~~~~~~~~  117 (253)
                      ..+||+++|++|||||||++++.++.+...+.+|.. +.....+.+..         +..+.+.+||++|++++..++..
T Consensus         3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   82 (180)
T cd04127           3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTA   82 (180)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHH
Confidence            458999999999999999999999988777766665 44444454421         45689999999999999999999


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      +++++|++++|||++++.+|..+..|+..+.... ..++|+++|+||+|+.+. .+..+.+..++. ..+++++++||++
T Consensus        83 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~Sak~  161 (180)
T cd04127          83 FFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALAD-KYGIPYFETSAAT  161 (180)
T ss_pred             HhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHH-HcCCeEEEEeCCC
Confidence            9999999999999999999999999998887643 356899999999999764 566677788887 5678999999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy549          196 NYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~~~  213 (253)
                      |.|++++|++|++.+.++
T Consensus       162 ~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         162 GTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             CCCHHHHHHHHHHHHHhh
Confidence            999999999999887543

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

>PLN03108 Rab family protein; Provisional

Probab=99.97  E-value=1.5e-29  Score=200.37  Aligned_cols=165  Identities=25%  Similarity=0.365  Sum_probs=142.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+||+|+|++|||||||+++|.+..+...+.++.. ++....+.+ ++..+.+.+||++|++.+..++..+++.+|++|
T Consensus         5 ~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~-~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~v   83 (210)
T PLN03108          5 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITI-DNKPIKLQIWDTAGQESFRSITRSYYRGAAGAL   83 (210)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEE-CCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEE
Confidence            458999999999999999999999888665555554 555566777 777889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||+++..+|..+..|+..+.......+|+++|+||+|+.+. .+..+.++.++. ..+++++++|++++.|++++|.+
T Consensus        84 lv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~~~~v~e~f~~  162 (210)
T PLN03108         84 LVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAK-EHGLIFMEASAKTAQNVEEAFIK  162 (210)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999998887766667999999999999765 566677777777 56789999999999999999999


Q ss_pred             HHHHHHHhc
Q psy549          206 LLAQAKVQY  214 (253)
Q Consensus       206 l~~~~~~~~  214 (253)
                      +++.+.+..
T Consensus       163 l~~~~~~~~  171 (210)
T PLN03108        163 TAAKIYKKI  171 (210)
T ss_pred             HHHHHHHHh
Confidence            999887653

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.97  E-value=4.6e-30  Score=196.11  Aligned_cols=160  Identities=23%  Similarity=0.375  Sum_probs=137.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+++|++|||||||+++|+++.+...+.++.. +.....+.+ ++..+.+++||++|++++..++..+++.+|++|+|
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSV-RNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLV   79 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEE-CCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEE
Confidence            5899999999999999999999998777777665 444556666 67889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-----CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRG-----LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~-----~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      ||++++.+|..+..|+..+.....     .++|+++|+||+|+... ....+....++. ..+.+++++||+++.|+.++
T Consensus        80 ~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l  158 (168)
T cd04119          80 YDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAE-SKGFKYFETSACTGEGVNEM  158 (168)
T ss_pred             EECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHH-HcCCeEEEEECCCCCCHHHH
Confidence            999999999999999998887543     46899999999999743 556666666766 45688999999999999999


Q ss_pred             HHHHHHHHH
Q psy549          203 FKELLAQAK  211 (253)
Q Consensus       203 ~~~l~~~~~  211 (253)
                      |++|++.+.
T Consensus       159 ~~~l~~~l~  167 (168)
T cd04119         159 FQTLFSSIV  167 (168)
T ss_pred             HHHHHHHHh
Confidence            999998764

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.

>KOG0088|consensus

Probab=99.97  E-value=6.2e-31  Score=189.11  Aligned_cols=167  Identities=26%  Similarity=0.411  Sum_probs=153.1

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      .....+||+++|..-+|||+|+=+++.++|.....+|.. .+..+.+.+ ++....+.||||+|+++|..+.+.+|++.+
T Consensus         9 g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~-ed~ra~L~IWDTAGQErfHALGPIYYRgSn   87 (218)
T KOG0088|consen    9 GKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNV-EDCRADLHIWDTAGQERFHALGPIYYRGSN   87 (218)
T ss_pred             CCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhccccc-ccceeeeeeeeccchHhhhccCceEEeCCC
Confidence            456789999999999999999999999999776666665 788888888 668899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      ++++|||++|+.||+.+..|..++.......+.+++|+||+|+... ++..+.++.++. ..+..++++||+++.||.++
T Consensus        88 GalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAe-svGA~y~eTSAk~N~Gi~el  166 (218)
T KOG0088|consen   88 GALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAE-SVGALYMETSAKDNVGISEL  166 (218)
T ss_pred             ceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHH-hhchhheecccccccCHHHH
Confidence            9999999999999999999999999988888999999999999876 888899999998 78889999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy549          203 FKELLAQAKVQ  213 (253)
Q Consensus       203 ~~~l~~~~~~~  213 (253)
                      |..+...+.+.
T Consensus       167 Fe~Lt~~MiE~  177 (218)
T KOG0088|consen  167 FESLTAKMIEH  177 (218)
T ss_pred             HHHHHHHHHHH
Confidence            99999988765

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.97  E-value=8.1e-30  Score=195.57  Aligned_cols=160  Identities=24%  Similarity=0.387  Sum_probs=136.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      ||+++|++|||||||+++|.++.+...+.+|.. ++....+.+ ++..+.+++||++|+++|..++..+++++|++++||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   80 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEI-LGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVF   80 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEE
Confidence            799999999999999999999999888877776 545566777 778899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-c--ccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-D--VRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~--~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |++++.+|..+..|+..+.... ....|+++|+||+|+... .  ...+.+..++. ..+.+++++||++|.|++++|+.
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~g~~v~~lf~~  159 (170)
T cd04108          81 DLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAA-EMQAEYWSVSALSGENVREFFFR  159 (170)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHH-HcCCeEEEEECCCCCCHHHHHHH
Confidence            9999999999999999886643 335789999999998654 2  23455566665 45678999999999999999999


Q ss_pred             HHHHHHH
Q psy549          206 LLAQAKV  212 (253)
Q Consensus       206 l~~~~~~  212 (253)
                      |++.+.+
T Consensus       160 l~~~~~~  166 (170)
T cd04108         160 VAALTFE  166 (170)
T ss_pred             HHHHHHH
Confidence            9988743

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.97  E-value=7.6e-30  Score=194.79  Aligned_cols=161  Identities=25%  Similarity=0.415  Sum_probs=137.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+||+|+|++|+|||||++++.++.+...+..+.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|+++
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~l   80 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEI-EGKRVKLQIWDTAGQERFRTITQSYYRSANGAI   80 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEE-CCEEEEEEEEECCChHHHHHHHHHHhccCCEEE
Confidence            358999999999999999999999888766655554 445566666 677789999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||++++.+|..+..|+..+......++|+++|+||+|+... ....+.+..++.......++++|+++|.|++++|.+
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~  160 (165)
T cd01864          81 IAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLL  160 (165)
T ss_pred             EEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHH
Confidence            9999999999999999999988766678999999999998765 555666777777445567899999999999999999


Q ss_pred             HHHH
Q psy549          206 LLAQ  209 (253)
Q Consensus       206 l~~~  209 (253)
                      |++.
T Consensus       161 l~~~  164 (165)
T cd01864         161 MATE  164 (165)
T ss_pred             HHHh
Confidence            9865

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.97  E-value=7.6e-30  Score=206.08  Aligned_cols=163  Identities=42%  Similarity=0.748  Sum_probs=139.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+++|++|||||||+++|+++.+...+.+|+.+.+...+.+ ++..+.++||||+|++.|..++..++..+|++|+||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~d~~~k~~~i-~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVf   79 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIEDFHRKLYSI-RGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVF   79 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChhHhEEEEEEE-CCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEE
Confidence            5899999999999999999999999888888888777788888 788899999999999999998888899999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh---------cCCCCCEEEEEecCCCCC-ccccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          130 AVDDASTWDVVKDLREQIVNK---------RGLMVPIVVVGNKCELEF-KDVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~---------~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      |+++.++|+.+..|+..+...         ...++|+++|+||+|+.. ..+..+.+..+......+.++++||+++.|+
T Consensus        80 dv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI  159 (247)
T cd04143          80 SLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNL  159 (247)
T ss_pred             eCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCH
Confidence            999999999999998888753         234689999999999975 3455555555544345678999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy549          200 VQVFKELLAQAKVQ  213 (253)
Q Consensus       200 ~~l~~~l~~~~~~~  213 (253)
                      +++|++|+..+...
T Consensus       160 ~elf~~L~~~~~~p  173 (247)
T cd04143         160 DEMFRALFSLAKLP  173 (247)
T ss_pred             HHHHHHHHHHhccc
Confidence            99999999876433

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.97  E-value=9.1e-30  Score=195.27  Aligned_cols=161  Identities=27%  Similarity=0.460  Sum_probs=137.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+||+++|++|||||||+++|.++.+...+.++.. +.....+.+ ++..+.+++||+||++++..++..+++.+|+++
T Consensus         4 ~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i   82 (170)
T cd04116           4 SLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCL   82 (170)
T ss_pred             eEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEE-CCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEE
Confidence            458999999999999999999999988766655554 444566667 788899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc----CCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR----GLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~----~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|||++++.+|+.+..|+..+....    ..++|+++|+||+|+....+..+.++.++......+++++||++|.|+.++
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~  162 (170)
T cd04116          83 LTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPERQVSTEEAQAWCRENGDYPYFETSAKDATNVAAA  162 (170)
T ss_pred             EEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccccccCHHHHHHHHHHCCCCeEEEEECCCCCCHHHH
Confidence            9999999999999999998777643    246899999999999866677777777877444568999999999999999


Q ss_pred             HHHHHHH
Q psy549          203 FKELLAQ  209 (253)
Q Consensus       203 ~~~l~~~  209 (253)
                      |+++++.
T Consensus       163 ~~~~~~~  169 (170)
T cd04116         163 FEEAVRR  169 (170)
T ss_pred             HHHHHhh
Confidence            9999865

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.97  E-value=1.6e-29  Score=193.63  Aligned_cols=163  Identities=27%  Similarity=0.383  Sum_probs=139.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+||+|+|++|||||||++++.+..+...+..+.. +.....+.+ ++..+.+.+||++|++++..+...+++.+|+++
T Consensus         3 ~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il   81 (168)
T cd01866           3 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITI-DGKQIKLQIWDTAGQESFRSITRSYYRGAAGAL   81 (168)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEECCCcHHHHHHHHHHhccCCEEE
Confidence            458999999999999999999999887665555544 555566666 677789999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||++++.+|..+..|+..+.....+++|+++|+||.|+... .+..+..+.++. ..+++++++|++++.|++++|.+
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~~~~i~~~~~~  160 (168)
T cd01866          82 LVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAK-EHGLIFMETSAKTASNVEEAFIN  160 (168)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999999888766678999999999998744 556666777766 46789999999999999999999


Q ss_pred             HHHHHHH
Q psy549          206 LLAQAKV  212 (253)
Q Consensus       206 l~~~~~~  212 (253)
                      +++.+.+
T Consensus       161 ~~~~~~~  167 (168)
T cd01866         161 TAKEIYE  167 (168)
T ss_pred             HHHHHHh
Confidence            9988743

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

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.97  E-value=1.4e-29  Score=193.58  Aligned_cols=159  Identities=23%  Similarity=0.405  Sum_probs=135.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+++|++|||||||+++++.+.+...+.+|.. +.....+.. ++..+.+.+|||+|++++..++..++..+|++|+|
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v   79 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHT-NRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIM   79 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCCChhhccccHHHhcCCCEEEEE
Confidence            5899999999999999999998888766666665 444445555 67789999999999999999989999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLA  208 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  208 (253)
                      ||++++.+|..+..|+..+..... ++|+++|+||+|+.......+. ..+.. ....+++++||++|.|++++|++|++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~~~~~~~~~-~~~~~-~~~~~~~e~Sa~~~~~v~~~f~~l~~  156 (166)
T cd00877          80 FDVTSRVTYKNVPNWHRDLVRVCG-NIPIVLCGNKVDIKDRKVKAKQ-ITFHR-KKNLQYYEISAKSNYNFEKPFLWLAR  156 (166)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhcccccCCHHH-HHHHH-HcCCEEEEEeCCCCCChHHHHHHHHH
Confidence            999999999999999998887653 7999999999999865554433 34554 46788999999999999999999999


Q ss_pred             HHHH
Q psy549          209 QAKV  212 (253)
Q Consensus       209 ~~~~  212 (253)
                      .+..
T Consensus       157 ~~~~  160 (166)
T cd00877         157 KLLG  160 (166)
T ss_pred             HHHh
Confidence            8864

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.97  E-value=8.9e-30  Score=199.66  Aligned_cols=163  Identities=37%  Similarity=0.609  Sum_probs=133.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChh--------hHHHhcc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPA--------MRELSIS  120 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~--------~~~~~~~  120 (253)
                      +||+|+|++|||||||+++|.++.+...+.+++. +.+...+.+ ++..+.+++|||||...+..        .....++
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~-~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~   79 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVL-SGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLR   79 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEE-CCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhc
Confidence            5899999999999999999999998777777765 445556666 77888999999999765421        1233578


Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHHhc---CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          121 TADAFVLVYAVDDASTWDVVKDLREQIVNKR---GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       121 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      .+|++|+|||++++.+|+.+..|+..+....   ..++|+++|+||+|+... .+..+..+.++...+++++++|||++|
T Consensus        80 ~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g  159 (198)
T cd04142          80 NSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYN  159 (198)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCC
Confidence            9999999999999999999999998887754   467999999999999664 445555666655467889999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy549          197 YNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       197 ~~i~~l~~~l~~~~~~~  213 (253)
                      .|++++|+.+++.+..+
T Consensus       160 ~~v~~lf~~i~~~~~~~  176 (198)
T cd04142         160 WHILLLFKELLISATTR  176 (198)
T ss_pred             CCHHHHHHHHHHHhhcc
Confidence            99999999999887644

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.

>cd01868 Rab11_like Rab11-like

Probab=99.97  E-value=1.3e-29  Score=193.44  Aligned_cols=160  Identities=28%  Similarity=0.424  Sum_probs=138.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+||+++|++|||||||++++.++.+...+.++.. +.....+.+ ++..+.+.+||+||++++..++..+++.++++|+
T Consensus         3 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~   81 (165)
T cd01868           3 LFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQI-DGKTIKAQIWDTAGQERYRAITSAYYRGAVGALL   81 (165)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEE-CCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEE
Confidence            47999999999999999999999887655555554 556667777 7777899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      |||++++.+|..+..|+..+......++|+++|+||+|+... ....+....++. ..+++++++||++|.|++++|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~l~~~l  160 (165)
T cd01868          82 VYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAE-KNGLSFIETSALDGTNVEEAFKQL  160 (165)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHH-HcCCEEEEEECCCCCCHHHHHHHH
Confidence            999999999999999999888776556999999999998764 556666777776 467899999999999999999999


Q ss_pred             HHHH
Q psy549          207 LAQA  210 (253)
Q Consensus       207 ~~~~  210 (253)
                      +..+
T Consensus       161 ~~~i  164 (165)
T cd01868         161 LTEI  164 (165)
T ss_pred             HHHh
Confidence            8765

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.97  E-value=1.2e-29  Score=192.77  Aligned_cols=158  Identities=21%  Similarity=0.333  Sum_probs=136.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+|+|++|||||||++++.++.+...+..+.. +.....+.+ ++..+.+++||+||++++...+..+++++|++++|
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v   79 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRV-GGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLV   79 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEE-CCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEE
Confidence            5899999999999999999999988666655554 445556666 67778999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||++++.+|..+..|+..+.....+++|+++|+||+|+... .+..+.+..++. ..+++++++|++++.|+.++|++++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~i~~~~~~~~  158 (161)
T cd04113          80 YDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQ-ENGLLFLETSALTGENVEEAFLKCA  158 (161)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHH-HcCCEEEEEECCCCCCHHHHHHHHH
Confidence            99999999999999999887766678999999999998754 555666777777 4558999999999999999999998


Q ss_pred             HH
Q psy549          208 AQ  209 (253)
Q Consensus       208 ~~  209 (253)
                      +.
T Consensus       159 ~~  160 (161)
T cd04113         159 RS  160 (161)
T ss_pred             Hh
Confidence            75

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.97  E-value=1.7e-29  Score=191.30  Aligned_cols=153  Identities=21%  Similarity=0.360  Sum_probs=128.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+++|++|||||||+.+++.+.+...+.++ ...+...+.+ ++..+.+.+||++|++.     ..+++++|++++||
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~~~~i~~-~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~   73 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRFKKEVLV-DGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVF   73 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccceEEEEEE-CCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEE
Confidence            58999999999999999999998887665544 3334567777 77888999999999975     24567899999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCC---ccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEF---KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |++++.+|+.+..|+..+..... .++|+++|+||.|+..   ..+..+.++.+++....+++++|||++|.||+++|..
T Consensus        74 d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~  153 (158)
T cd04103          74 SLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQE  153 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHH
Confidence            99999999999999998877643 5689999999999853   3677777788887455689999999999999999999


Q ss_pred             HHHH
Q psy549          206 LLAQ  209 (253)
Q Consensus       206 l~~~  209 (253)
                      +++.
T Consensus       154 ~~~~  157 (158)
T cd04103         154 AAQK  157 (158)
T ss_pred             HHhh
Confidence            8864

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.

>cd04118 Rab24 Rab24 subfamily

Probab=99.97  E-value=8.2e-29  Score=193.89  Aligned_cols=161  Identities=23%  Similarity=0.366  Sum_probs=135.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCC-Ccccccee-eeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFIS-RYKETVEE-LHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~-~~~~t~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      +||+|+|++|||||||+++|+++.+.. .+.+|... +....+.+ ++..+.+.+||++|++++..++..+++++|++++
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iil   79 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVV-GERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIV   79 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEE-CCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEE
Confidence            589999999999999999999998853 56666654 44556777 7788999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-----cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-----DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      |||+++..+|+.+..|+..+.... .++|+++|+||+|+...     .+..+.+..++. ..+.+++++||+++.|++++
T Consensus        80 v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~gv~~l  157 (193)
T cd04118          80 CYDLTDSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFAD-EIKAQHFETSSKTGQNVDEL  157 (193)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhcC-CCCCEEEEEEcccccccccccCccCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHH
Confidence            999999999999988998876643 57899999999998643     334455666665 45678999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy549          203 FKELLAQAKVQ  213 (253)
Q Consensus       203 ~~~l~~~~~~~  213 (253)
                      |+++++.+...
T Consensus       158 ~~~i~~~~~~~  168 (193)
T cd04118         158 FQKVAEDFVSR  168 (193)
T ss_pred             HHHHHHHHHHh
Confidence            99999988654

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.97  E-value=2.6e-29  Score=191.05  Aligned_cols=157  Identities=27%  Similarity=0.451  Sum_probs=133.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCC--CcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPD--GAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~--~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      +||+++|++|+|||||+++|.++.+...+.+|.. +.....+.+ +  +..+.+++||+||++++..++..+++++|+++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v   79 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFL-RQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACI   79 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEE-cCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEE
Confidence            5899999999999999999999988776666665 444455555 4  66789999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||++++++|..+..|+..+.... .++|+++|+||+|+... .+..+.+..++. ..+++++++|++++.|++++|++
T Consensus        80 ~v~d~~~~~s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~l~~~  157 (162)
T cd04106          80 LVFSTTDRESFEAIESWKEKVEAEC-GDIPMVLVQTKIDLLDQAVITNEEAEALAK-RLQLPLFRTSVKDDFNVTELFEY  157 (162)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhcccccCCCHHHHHHHHH-HcCCeEEEEECCCCCCHHHHHHH
Confidence            9999999999999999998876543 57999999999998654 555666777777 56789999999999999999999


Q ss_pred             HHHH
Q psy549          206 LLAQ  209 (253)
Q Consensus       206 l~~~  209 (253)
                      |...
T Consensus       158 l~~~  161 (162)
T cd04106         158 LAEK  161 (162)
T ss_pred             HHHh
Confidence            8764

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

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

Probab=99.97  E-value=2.2e-29  Score=193.79  Aligned_cols=158  Identities=28%  Similarity=0.456  Sum_probs=135.9

Q ss_pred             EEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEEC
Q psy549           52 VVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAV  131 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~  131 (253)
                      |+|+|++|||||||+++|.++.+...+.++....+...+.+ ++..+.+.+|||+|+++|..++..+++.+|++|+|||+
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~   79 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENYSADVEV-DGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSV   79 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeeeeEEEEE-CCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEEC
Confidence            68999999999999999999999877777777777677777 77888999999999999999999999999999999999


Q ss_pred             CChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          132 DDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       132 ~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      +++.+|+.+. .|+..+.... +++|+++|+||+|+...             .+..+.+..++......++++|||++|.
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~  158 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFC-PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQE  158 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhC-CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCC
Confidence            9999999985 5887776643 67999999999998653             2556667778874444589999999999


Q ss_pred             CHHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQAK  211 (253)
Q Consensus       198 ~i~~l~~~l~~~~~  211 (253)
                      |++++|+.+++.+.
T Consensus       159 ~v~~lf~~l~~~~~  172 (174)
T smart00174      159 GVREVFEEAIRAAL  172 (174)
T ss_pred             CHHHHHHHHHHHhc
Confidence            99999999998763

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.97  E-value=3.8e-29  Score=196.52  Aligned_cols=195  Identities=56%  Similarity=0.904  Sum_probs=154.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      ||+++|++|||||||+++|+++.+...+..+........+.+ ++..+.+++||++|+..|..++..++..+|++|+|||
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d   79 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVEEMHRKEYEV-GGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYA   79 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchhhheeEEEEE-CCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEE
Confidence            689999999999999999999998777777776666667777 6777899999999999999998899999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc--cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          131 VDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK--DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ++++.+|+.+..|+..+..... .++|+++|+||+|+...  .+..+.........++.+++++||++|.|++++|++|+
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~  159 (198)
T cd04147          80 VDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELL  159 (198)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHH
Confidence            9999999999999888777543 56999999999998653  33333333333334567899999999999999999999


Q ss_pred             HHHHHhcccChhhccccccCCCCcCCCCCCCCCCcccccCCCcccC
Q psy549          208 AQAKVQYNLSPAVRRRRQSLPNYIGTTGSASSKGRYMLKRNSCTVA  253 (253)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~  253 (253)
                      +.+.......+...++..+.+       ..+.++..+-+...|.++
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~  198 (198)
T cd04147         160 RQANLPYNLSPALRRRRESLP-------SEIQRRPPMNKTNSCSVS  198 (198)
T ss_pred             HHhhcccccchhhHHHHhhcc-------HhhhcCCCCCCCCccccC
Confidence            988765555554444433332       224556666777778764

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.97  E-value=4.8e-29  Score=189.68  Aligned_cols=158  Identities=25%  Similarity=0.399  Sum_probs=131.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+++|++|||||||++++.++.+...+.++.. ..+...+.+ ++..+.+.+|||+|+++|..++..+++++|++|+|
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v   79 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKF-EGKTILVDFWDTAGQERFQTMHASYYHKAHACILV   79 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEE-CCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEE
Confidence            5899999999999999999999988766655544 444455566 77889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLA  208 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  208 (253)
                      ||++++.++..+..|+..+.... +++|+++|+||+|+... . .+....++. ..+++++++||++|.|++++|+.+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~-~~~p~ivv~nK~Dl~~~-~-~~~~~~~~~-~~~~~~~~~Sa~~~~gv~~l~~~l~~  155 (161)
T cd04124          80 FDVTRKITYKNLSKWYEELREYR-PEIPCIVVANKIDLDPS-V-TQKKFNFAE-KHNLPLYYVSAADGTNVVKLFQDAIK  155 (161)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEECccCchh-H-HHHHHHHHH-HcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999998886643 56899999999998542 2 223344554 45688999999999999999999998


Q ss_pred             HHHH
Q psy549          209 QAKV  212 (253)
Q Consensus       209 ~~~~  212 (253)
                      .+..
T Consensus       156 ~~~~  159 (161)
T cd04124         156 LAVS  159 (161)
T ss_pred             HHHh
Confidence            8754

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.97  E-value=6.1e-29  Score=190.40  Aligned_cols=161  Identities=40%  Similarity=0.641  Sum_probs=138.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      ++||+++|++|||||||+++|.++.+...+.++....+...+.+ ++..+.+++||+||+++|..++..+++.++++++|
T Consensus         1 ~~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv   79 (168)
T cd04177           1 DYKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYRKQVEI-DGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLV   79 (168)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEEEEEEE-CCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEE
Confidence            47999999999999999999999998777777877666677777 77778999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCC-CcEEEeccCCCCCHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQ-CGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      ||++++++++.+..|...+... ...++|+++|+||.|+... ....+....++. .++ ++++++||+++.|++++|++
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~~SA~~~~~i~~~f~~  158 (168)
T cd04177          80 YSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQ-QWGNVPFYETSARKRTNVDEVFID  158 (168)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHH-HcCCceEEEeeCCCCCCHHHHHHH
Confidence            9999999999999998888763 3357999999999998654 445555666666 444 88999999999999999999


Q ss_pred             HHHHHH
Q psy549          206 LLAQAK  211 (253)
Q Consensus       206 l~~~~~  211 (253)
                      +++.+.
T Consensus       159 i~~~~~  164 (168)
T cd04177         159 LVRQII  164 (168)
T ss_pred             HHHHHh
Confidence            998663

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

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

Probab=99.97  E-value=3.4e-29  Score=196.16  Aligned_cols=155  Identities=22%  Similarity=0.370  Sum_probs=134.4

Q ss_pred             ECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCC
Q psy549           55 MGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDD  133 (253)
Q Consensus        55 iG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~  133 (253)
                      +|++|||||||+++|+.+.+...+.+|.+ +.....+.+ ++..+.+.|||++|+++|..++..+++++|++|+|||+++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~-~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~   79 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHT-NRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTA   79 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEE-CCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCC
Confidence            69999999999999999888777777775 566666777 7788999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          134 ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       134 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      +.+|..+..|+..+.... .++|+++|+||+|+....+..+.. .++. ..++++++|||++|.||.++|.+|++.+...
T Consensus        80 ~~S~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~~~v~~~~~-~~~~-~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176       80 RVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKDRKVKAKSI-TFHR-KKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             hHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCHHHH-HHHH-HcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            999999999999888754 579999999999987655544443 4555 5678999999999999999999999988664

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.97  E-value=3.8e-29  Score=190.94  Aligned_cols=159  Identities=38%  Similarity=0.632  Sum_probs=134.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC-ChhhHHHhcccCCEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ-FPAMRELSISTADAFVLVY  129 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~-~~~~~~~~~~~~d~~i~v~  129 (253)
                      ||+++|++|||||||+++++++.+...+.++....+...+.+ ++..+.+++||+||+++ +......+++.+|++|+||
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~   79 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLYSRQVTI-DGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVY   79 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhceEEEEE-CCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEE
Confidence            689999999999999999999888777777776666666667 78888999999999985 3455667889999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc--CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCC-CHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNKR--GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENY-NIVQVFKE  205 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~i~~l~~~  205 (253)
                      |++++.+|+.+..|+..+....  ..++|+++|+||+|+... .+..+.+..++. ..+.+++++|++++. |++++|..
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~Sa~~~~~~v~~~f~~  158 (165)
T cd04146          80 SITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLAS-ELGCLFFEVSAAEDYDGVHSVFHE  158 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHH-HcCCEEEEeCCCCCchhHHHHHHH
Confidence            9999999999999988877754  357999999999998654 556667777776 456899999999995 99999999


Q ss_pred             HHHHHH
Q psy549          206 LLAQAK  211 (253)
Q Consensus       206 l~~~~~  211 (253)
                      +++.+.
T Consensus       159 l~~~~~  164 (165)
T cd04146         159 LCREVR  164 (165)
T ss_pred             HHHHHh
Confidence            998764

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

>KOG0081|consensus

Probab=99.97  E-value=1e-30  Score=188.13  Aligned_cols=171  Identities=22%  Similarity=0.321  Sum_probs=150.4

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcC--------CCcEEEEEEEeCCCCCCChhh
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELP--------DGAQLTLDILDTSGAYQFPAM  114 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~--------~~~~~~~~l~D~~g~~~~~~~  114 (253)
                      +....-++.+.+|++|+||||++.++..++|....+.|.+ ++..+.+.+.        .+..+.+++|||+|+++|+++
T Consensus         4 GdydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSL   83 (219)
T KOG0081|consen    4 GDYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSL   83 (219)
T ss_pred             ccHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHH
Confidence            3455668899999999999999999999999888887776 6666666552        134688999999999999999


Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEec
Q psy549          115 RELSISTADAFVLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECS  192 (253)
Q Consensus       115 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~S  192 (253)
                      +..++++|-+++++||+++..||-++..|+..+..+ ...++-|++++||+|+.+. ++.+..+..++. ..++|||++|
T Consensus        84 TTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~-kyglPYfETS  162 (219)
T KOG0081|consen   84 TTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALAD-KYGLPYFETS  162 (219)
T ss_pred             HHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHH-HhCCCeeeec
Confidence            999999999999999999999999999999988773 4567889999999999887 788888999999 7899999999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhcc
Q psy549          193 AKENYNIVQVFKELLAQAKVQYN  215 (253)
Q Consensus       193 a~~~~~i~~l~~~l~~~~~~~~~  215 (253)
                      |-+|.||++..+.+..++.++..
T Consensus       163 A~tg~Nv~kave~LldlvM~Rie  185 (219)
T KOG0081|consen  163 ACTGTNVEKAVELLLDLVMKRIE  185 (219)
T ss_pred             cccCcCHHHHHHHHHHHHHHHHH
Confidence            99999999999999999888754

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.97  E-value=7.6e-29  Score=190.22  Aligned_cols=160  Identities=26%  Similarity=0.453  Sum_probs=136.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCCh-hhHHHhcccCCEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFP-AMRELSISTADAFV  126 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-~~~~~~~~~~d~~i  126 (253)
                      .++|+++|++|||||||+++|+++.+...+..+.. +.....+.+ ++..+.+.+||++|++++. .++..+++++|+++
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i   80 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEI-DGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEE-CCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEE
Confidence            47999999999999999999999888766655554 555566777 7778899999999999886 56788899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCC---CCCHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKE---NYNIVQ  201 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~~i~~  201 (253)
                      +|||++++.+|..+..|+..+.... ..++|+++|+||+|+... .+..+.++.++. ...+++++|||++   +.++++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~~~~~~~i~~  159 (170)
T cd04115          81 FVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFAD-AHSMPLFETSAKDPSENDHVEA  159 (170)
T ss_pred             EEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHH-HcCCcEEEEeccCCcCCCCHHH
Confidence            9999999999999999998887743 356999999999998765 566777888887 5678999999999   889999


Q ss_pred             HHHHHHHHH
Q psy549          202 VFKELLAQA  210 (253)
Q Consensus       202 l~~~l~~~~  210 (253)
                      +|..+++.+
T Consensus       160 ~f~~l~~~~  168 (170)
T cd04115         160 IFMTLAHKL  168 (170)
T ss_pred             HHHHHHHHh
Confidence            999998876

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.97  E-value=9.3e-29  Score=188.27  Aligned_cols=161  Identities=31%  Similarity=0.484  Sum_probs=138.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+++|++|||||||+++|.+..+...+..+.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|++++|
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv   79 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEV-DGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLV   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEE
Confidence            5899999999999999999999887655555544 444555666 77778999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||++++.+++.+..|+..+.....+++|+++|+||+|+... ....+.++.+.. ..+++++++|++++.|++++|++|+
T Consensus        80 ~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~~~~i~~l~~~i~  158 (164)
T smart00175       80 YDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAE-EHGLPFFETSAKTNTNVEEAFEELA  158 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999888876678999999999998764 556667777776 5678899999999999999999999


Q ss_pred             HHHHH
Q psy549          208 AQAKV  212 (253)
Q Consensus       208 ~~~~~  212 (253)
                      +.+.+
T Consensus       159 ~~~~~  163 (164)
T smart00175      159 REILK  163 (164)
T ss_pred             HHHhh
Confidence            98754

Rab GTPases are implicated in vesicle trafficking.

>cd01861 Rab6 Rab6 subfamily

Probab=99.97  E-value=7.5e-29  Score=188.36  Aligned_cols=158  Identities=30%  Similarity=0.509  Sum_probs=135.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+++|++|||||||+++|++..+...+.++.. +.....+.+ ++..+.+.+||+||++++..++..+++.+|++++|
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v   79 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYL-EDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   79 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEE-CCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEE
Confidence            4899999999999999999999887554444443 677777777 66778899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||++++.+|..+..|+..+......+.|+++|+||+|+... ....+....+.. ..+++++++|++++.|++++|++++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~l~~~i~  158 (161)
T cd01861          80 YDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAK-ELNAMFIETSAKAGHNVKELFRKIA  158 (161)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHH-HhCCEEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999887765557999999999999544 556666677766 4568899999999999999999998


Q ss_pred             HH
Q psy549          208 AQ  209 (253)
Q Consensus       208 ~~  209 (253)
                      +.
T Consensus       159 ~~  160 (161)
T cd01861         159 SA  160 (161)
T ss_pred             Hh
Confidence            75

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

>cd04135 Tc10 TC10 subfamily

Probab=99.97  E-value=7.6e-29  Score=190.82  Aligned_cols=159  Identities=26%  Similarity=0.398  Sum_probs=135.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+++|++|+|||||+++|.++.+...+.++..+.+...+.+ ++..+.+.+||++|++.|...+..+++.+|++++||
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   79 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTV-GGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICF   79 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeEEEEEE-CCEEEEEEEEeCCCcccccccccccCCCCCEEEEEE
Confidence            5899999999999999999999998877777777666667777 777888999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          130 AVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       130 d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      |++++.+|+.+. .|...+... .+++|+++|+||+|+.+.             .+..+.++.+++.....++++|||++
T Consensus        80 ~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~  158 (174)
T cd04135          80 SVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALT  158 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCc
Confidence            999999999885 576666554 577999999999998653             34456677777744445799999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQA  210 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~  210 (253)
                      |.|++++|+.+++.+
T Consensus       159 ~~gi~~~f~~~~~~~  173 (174)
T cd04135         159 QKGLKTVFDEAILAI  173 (174)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998875

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.97  E-value=1.1e-28  Score=188.09  Aligned_cols=159  Identities=24%  Similarity=0.332  Sum_probs=134.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC--CCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD--RFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~--~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      +||+++|++|||||||+++|..+  .+...+..+.. +.....+.+.++..+.+.+||++|++.+..++..+++.+|+++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            58999999999999999999864  57777777765 5555666664567899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||++++.+|..+..|+..+.... .++|+++|+||+|+.+. .+....++.+.. ..+.+++++|++++.|++++|+.
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~  158 (164)
T cd04101          81 LVYDVSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTDAQAQAFAQ-ANQLKFFKTSALRGVGYEEPFES  158 (164)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCHHHHHHHHH-HcCCeEEEEeCCCCCChHHHHHH
Confidence            9999999999999999998877654 56899999999998655 455555566665 55688999999999999999999


Q ss_pred             HHHHH
Q psy549          206 LLAQA  210 (253)
Q Consensus       206 l~~~~  210 (253)
                      |++.+
T Consensus       159 l~~~~  163 (164)
T cd04101         159 LARAF  163 (164)
T ss_pred             HHHHh
Confidence            98865

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.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.97  E-value=9.1e-29  Score=190.34  Aligned_cols=157  Identities=25%  Similarity=0.448  Sum_probs=135.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+++|++|+|||||++++.++.+...+.+|..+.+...+.+ ++..+.+++||++|++++..++..+++++|++|+||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~   79 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVVVLV-DGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCF   79 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeeEEEEE-CCEEEEEEEEECCCChhhccccccccCCCcEEEEEE
Confidence            5899999999999999999999999888888887777777777 777889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          130 AVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       130 d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      |++++.+|+.+. .|+..+... ..++|+++|+||+|+...             .+..+.+..++...+..+++++||++
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~  158 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKH-NPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALT  158 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCC
Confidence            999999999875 587776653 356899999999998642             45667788888744445899999999


Q ss_pred             CCCHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLA  208 (253)
Q Consensus       196 ~~~i~~l~~~l~~  208 (253)
                      |.|++++|+.++-
T Consensus       159 ~~~v~~lf~~~~~  171 (173)
T cd04130         159 QKNLKEVFDTAIL  171 (173)
T ss_pred             CCCHHHHHHHHHh
Confidence            9999999998764

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,

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.97  E-value=1.8e-28  Score=186.59  Aligned_cols=160  Identities=26%  Similarity=0.412  Sum_probs=137.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+||+++|++|||||||+++++++.+...+..+.. .+....+.+ ++..+.+.+||+||++++...+..+++++|++++
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~   79 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNL-DDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEE
Confidence            47999999999999999999999998765555555 455667777 7778899999999999999999889999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      |||++++.+|.....|+..+.....+.+|+++|+||+|+... ....+....+.. ..+++++++|+++|.|+.++|+++
T Consensus        80 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~l~~~l  158 (163)
T cd01860          80 VYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYAD-ENGLLFFETSAKTGENVNELFTEI  158 (163)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHH-HcCCEEEEEECCCCCCHHHHHHHH
Confidence            999999999999999999888876677999999999998743 455556666666 455889999999999999999999


Q ss_pred             HHHH
Q psy549          207 LAQA  210 (253)
Q Consensus       207 ~~~~  210 (253)
                      ++.+
T Consensus       159 ~~~l  162 (163)
T cd01860         159 AKKL  162 (163)
T ss_pred             HHHh
Confidence            9875

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.97  E-value=9.3e-29  Score=193.27  Aligned_cols=156  Identities=22%  Similarity=0.324  Sum_probs=125.3

Q ss_pred             cceEEEECCCCCCHHHHHH-HHHhCC-----CCCCccccce--eeeeee--------EEcCCCcEEEEEEEeCCCCCCCh
Q psy549           49 KRRVVVMGGARVGKSSIIS-QFLYDR-----FISRYKETVE--ELHRGE--------YELPDGAQLTLDILDTSGAYQFP  112 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~-~l~~~~-----~~~~~~~t~~--~~~~~~--------~~~~~~~~~~~~l~D~~g~~~~~  112 (253)
                      .+||+++|++|||||||+. ++.++.     +...+.+|..  +.+...        +.+ ++..+.+++|||+|++++ 
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~-~~~~v~l~iwDTaG~~~~-   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVV-DGVSVSLRLWDTFGDHDK-   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceee-CCEEEEEEEEeCCCChhh-
Confidence            4799999999999999995 665543     3455666653  222222        134 788999999999999763 


Q ss_pred             hhHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCC--------------------ccc
Q psy549          113 AMRELSISTADAFVLVYAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEF--------------------KDV  171 (253)
Q Consensus       113 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~--------------------~~~  171 (253)
                       +...+++++|++|+|||++++.||+.+. .|+..+.... +++|+++|+||+|+..                    ..+
T Consensus        80 -~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V  157 (195)
T cd01873          80 -DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADIL  157 (195)
T ss_pred             -hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccccchhhhcccccccccccCCcc
Confidence             4556889999999999999999999986 5888776644 5789999999999863                    366


Q ss_pred             cHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHH
Q psy549          172 RREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  209 (253)
                      ..+.++.+++ ..+++|++|||++|.||+++|+.+++.
T Consensus       158 ~~~e~~~~a~-~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         158 PPETGRAVAK-ELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             CHHHHHHHHH-HhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            7888999998 567899999999999999999998864

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.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.97  E-value=2.4e-28  Score=185.90  Aligned_cols=160  Identities=35%  Similarity=0.648  Sum_probs=139.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+++|++|||||||++++++..+...+.+++.+.+.....+ ++..+.+.+||+||++++...+..+++.+|++++||
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVF   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhEEEEEEE-CCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEE
Confidence            5899999999999999999999998888887777777777777 778899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCC-ccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEF-KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      |++++.+|..+..|+..+.... ..++|+++|+||+|+.. ..........+.. .++.+++++|++++.|++++|++++
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~l~  158 (164)
T cd04139          80 SITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLAR-QWGVPYVETSAKTRQNVEKAFYDLV  158 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHH-HhCCeEEEeeCCCCCCHHHHHHHHH
Confidence            9999999999999988888753 35799999999999976 3455555566666 5678999999999999999999999


Q ss_pred             HHHH
Q psy549          208 AQAK  211 (253)
Q Consensus       208 ~~~~  211 (253)
                      +.+.
T Consensus       159 ~~~~  162 (164)
T cd04139         159 REIR  162 (164)
T ss_pred             HHHH
Confidence            8774

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

>PLN03118 Rab family protein; Provisional

Probab=99.97  E-value=1.1e-27  Score=190.17  Aligned_cols=166  Identities=27%  Similarity=0.401  Sum_probs=134.6

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      .....+||+|+|++|||||||+++|++..+.. +.++.. +.....+.+ ++..+.+.|||+||++++..++..+++.+|
T Consensus        10 ~~~~~~kv~ivG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d   87 (211)
T PLN03118         10 GYDLSFKILLIGDSGVGKSSLLVSFISSSVED-LAPTIGVDFKIKQLTV-GGKRLKLTIWDTAGQERFRTLTSSYYRNAQ   87 (211)
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHhCCCCC-cCCCceeEEEEEEEEE-CCEEEEEEEEECCCchhhHHHHHHHHhcCC
Confidence            34567999999999999999999999987743 344443 455556666 677789999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHH-HHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          124 AFVLVYAVDDASTWDVVKD-LREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~-~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      ++|+|||++++++|..+.. |...+.... ..+.|+++|+||+|+... .+..+....++. ..+++++++||+++.|++
T Consensus        88 ~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~-~~~~~~~e~SAk~~~~v~  166 (211)
T PLN03118         88 GIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAK-EHGCLFLECSAKTRENVE  166 (211)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHH-HcCCEEEEEeCCCCCCHH
Confidence            9999999999999999876 544444332 245899999999998754 445566666666 456889999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy549          201 QVFKELLAQAKVQ  213 (253)
Q Consensus       201 ~l~~~l~~~~~~~  213 (253)
                      ++|++|++.+...
T Consensus       167 ~l~~~l~~~~~~~  179 (211)
T PLN03118        167 QCFEELALKIMEV  179 (211)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999998664

>KOG0097|consensus

Probab=99.96  E-value=1.9e-28  Score=173.27  Aligned_cols=170  Identities=26%  Similarity=0.335  Sum_probs=154.7

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      ..+..+|.+|+|+-|+|||+|++.|...+|..+.+.|+. .+-...+.+ .|+.+++++|||+|+++|+..+..+|+++.
T Consensus         7 nysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriiev-sgqkiklqiwdtagqerfravtrsyyrgaa   85 (215)
T KOG0097|consen    7 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-SGQKIKLQIWDTAGQERFRAVTRSYYRGAA   85 (215)
T ss_pred             chhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEe-cCcEEEEEEeecccHHHHHHHHHHHhcccc
Confidence            356778999999999999999999999999999999988 555566666 899999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      ++++|||++.+..+..+..|+........++..+++++||.|+... ++..+.++.++. ..++-++++|+++|.++++.
T Consensus        86 galmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~fae-engl~fle~saktg~nveda  164 (215)
T KOG0097|consen   86 GALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAE-ENGLMFLEASAKTGQNVEDA  164 (215)
T ss_pred             ceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHh-hcCeEEEEecccccCcHHHH
Confidence            9999999999999999999999988888899999999999999876 889999999999 78899999999999999999


Q ss_pred             HHHHHHHHHHhccc
Q psy549          203 FKELLAQAKVQYNL  216 (253)
Q Consensus       203 ~~~l~~~~~~~~~~  216 (253)
                      |-..++.+......
T Consensus       165 fle~akkiyqniqd  178 (215)
T KOG0097|consen  165 FLETAKKIYQNIQD  178 (215)
T ss_pred             HHHHHHHHHHhhhc
Confidence            98888888766443

>cd04123 Rab21 Rab21 subfamily

Probab=99.96  E-value=5.6e-28  Score=183.45  Aligned_cols=159  Identities=29%  Similarity=0.467  Sum_probs=134.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+|+|++|+|||||+++|+++.+...+..++. ......+.+ ++..+.+.+||++|++.+..++..+++.+|++++|
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNI-GGKRIDLAIWDTAGQERYHALGPIYYRDADGAILV   79 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEE-CCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEE
Confidence            5899999999999999999999888655555554 445556666 56778899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||++++.++..+..|+..+......++|+++|+||+|+... ....+..+.+.. ..+.+++++|++++.|++++|++|+
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~s~~~~~gi~~~~~~l~  158 (162)
T cd04123          80 YDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAK-SVGAKHFETSAKTGKGIEELFLSLA  158 (162)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999998888766567999999999998754 455555666665 5678899999999999999999998


Q ss_pred             HHH
Q psy549          208 AQA  210 (253)
Q Consensus       208 ~~~  210 (253)
                      +.+
T Consensus       159 ~~~  161 (162)
T cd04123         159 KRM  161 (162)
T ss_pred             HHh
Confidence            765

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

>KOG0395|consensus

Probab=99.96  E-value=2.3e-28  Score=190.07  Aligned_cols=167  Identities=44%  Similarity=0.730  Sum_probs=154.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..+||+++|.+|+|||+|+.+|+.+.|...|.+|+++.+.+.+.+ ++..+.+.|+||+|+++|..+...+++.+|++++
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptied~y~k~~~v-~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~l   80 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIEDSYRKELTV-DGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLL   80 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCccccceEEEEE-CCEEEEEEEEcCCCcccChHHHHHhhccCcEEEE
Confidence            468999999999999999999999999999999999999999999 7899999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCC-ccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEF-KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      ||++++..||+.+..++..+.+ .....+|+++||||+|+.. ..+..+.++.++. .|.++++|+||+...+++++|..
T Consensus        81 Vysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~-~~~~~f~E~Sak~~~~v~~~F~~  159 (196)
T KOG0395|consen   81 VYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALAR-SWGCAFIETSAKLNYNVDEVFYE  159 (196)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHH-hcCCcEEEeeccCCcCHHHHHHH
Confidence            9999999999999999999955 3335689999999999988 4899999999988 89999999999999999999999


Q ss_pred             HHHHHHHhccc
Q psy549          206 LLAQAKVQYNL  216 (253)
Q Consensus       206 l~~~~~~~~~~  216 (253)
                      |.+.+...+..
T Consensus       160 L~r~~~~~~~~  170 (196)
T KOG0395|consen  160 LVREIRLPREG  170 (196)
T ss_pred             HHHHHHhhhcc
Confidence            99998764343

>cd01862 Rab7 Rab7 subfamily

Probab=99.96  E-value=9.2e-28  Score=184.25  Aligned_cols=163  Identities=29%  Similarity=0.481  Sum_probs=134.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+++|++|||||||++++.+..+...+..+.. +.....+.+ ++..+.+.+||+||++.+..++..+++++|++|+|
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v   79 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTV-DDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLV   79 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEE-CCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEE
Confidence            5899999999999999999999887665555544 555566667 66778899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC----CCCCEEEEEecCCCCC-ccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRG----LMVPIVVVGNKCELEF-KDVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~----~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      ||++++.++..+..|...+.....    .++|+++|+||+|+.. .....+..+.+.......+++++|+++|.|++++|
T Consensus        80 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~  159 (172)
T cd01862          80 YDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAF  159 (172)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHH
Confidence            999999999988888877655432    3689999999999974 34445555666663445899999999999999999


Q ss_pred             HHHHHHHHHh
Q psy549          204 KELLAQAKVQ  213 (253)
Q Consensus       204 ~~l~~~~~~~  213 (253)
                      +++++.+.+.
T Consensus       160 ~~i~~~~~~~  169 (172)
T cd01862         160 ETIARKALEQ  169 (172)
T ss_pred             HHHHHHHHhc
Confidence            9999988665

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-

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.96  E-value=6.4e-28  Score=185.82  Aligned_cols=159  Identities=28%  Similarity=0.453  Sum_probs=132.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      .||+|+|++|||||||+++|.++.+...+.+|....+...+.+ ++..+.+.+|||+|+++|...+...+.++|++++||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCF   80 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceEEEEEE-CCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEE
Confidence            6899999999999999999999998877777777666667777 777889999999999999888888899999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          130 AVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       130 d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      |+++..+|+.+. .|...+... ..++|+++|+||+|+...             .+.....+.++......++++|||++
T Consensus        81 ~~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  159 (175)
T cd01870          81 SIDSPDSLENIPEKWTPEVKHF-CPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKT  159 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEecccc
Confidence            999999998875 476666543 357899999999998643             12345566666644456899999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQA  210 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~  210 (253)
                      |.|++++|+++++.+
T Consensus       160 ~~~v~~lf~~l~~~~  174 (175)
T cd01870         160 KEGVREVFEMATRAA  174 (175)
T ss_pred             CcCHHHHHHHHHHHh
Confidence            999999999998764

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.96  E-value=1e-27  Score=182.20  Aligned_cols=158  Identities=27%  Similarity=0.405  Sum_probs=134.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+++|++|||||||+++|.+..+...+.++.. +.....+.+ ++..+.+.+||+||++.+......+++.+|++++|
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v   79 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTV-DGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILV   79 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEE-CCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEE
Confidence            5899999999999999999999887655555554 444445556 66778999999999999998888899999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||++++.+|..+..|+..+.... ..++|+++|+||+|+.......+....+.. ..+++++++|+++|.|+++++++++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~~~~~~~  158 (161)
T cd01863          80 YDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENREVTREEGLKFAR-KHNMLFIETSAKTRDGVQQAFEELV  158 (161)
T ss_pred             EECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccccccCHHHHHHHHH-HcCCEEEEEecCCCCCHHHHHHHHH
Confidence            99999999999999988887753 467999999999999866666667777777 5688999999999999999999988


Q ss_pred             HH
Q psy549          208 AQ  209 (253)
Q Consensus       208 ~~  209 (253)
                      +.
T Consensus       159 ~~  160 (161)
T cd01863         159 EK  160 (161)
T ss_pred             Hh
Confidence            75

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.96  E-value=1.6e-27  Score=182.46  Aligned_cols=162  Identities=24%  Similarity=0.382  Sum_probs=137.3

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...++|+++|++|||||||++++.++.+...+..+.. +.....+.+ ++..+.+.+||++|++.+...+..++..+|++
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~   83 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI-KGEKIKLQIWDTAGQERFRSITQSYYRSANAL   83 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCCcHHHHHHHHHHhcCCCEE
Confidence            4568999999999999999999998877655544444 566666777 77778899999999999999888999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ++|||++++.+|..+..|+..+......++|+++|+||+|+.+. ++..+..+.+.. ....+++++|+++|.|+.++|+
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~-~~~~~~~~~Sa~~~~gv~~l~~  162 (169)
T cd04114          84 ILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSD-AQDMYYLETSAKESDNVEKLFL  162 (169)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHH-HcCCeEEEeeCCCCCCHHHHHH
Confidence            99999999999999999998887766567999999999998754 556666777776 4458899999999999999999


Q ss_pred             HHHHHH
Q psy549          205 ELLAQA  210 (253)
Q Consensus       205 ~l~~~~  210 (253)
                      ++++.+
T Consensus       163 ~i~~~~  168 (169)
T cd04114         163 DLACRL  168 (169)
T ss_pred             HHHHHh
Confidence            998764

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.

>cd01892 Miro2 Miro2 subfamily

Probab=99.96  E-value=3.6e-28  Score=186.28  Aligned_cols=162  Identities=17%  Similarity=0.195  Sum_probs=131.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCC-CCccccceee-eeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVEEL-HRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~~~-~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      .+.+||+++|++|||||||+++|+++.+. ..+.+|.... ....+.+ ++..+.+.+||++|.+.+..++..+++++|+
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~-~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~   80 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEV-YGQEKYLILREVGEDEVAILLNDAELAACDV   80 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEE-CCeEEEEEEEecCCcccccccchhhhhcCCE
Confidence            46789999999999999999999999987 7787777643 3455666 7777889999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +++|||++++.+|+.+..|+..+..  ..++|+++|+||+|+.+. .......+.+++......++++||+++.|++++|
T Consensus        81 ~llv~d~~~~~s~~~~~~~~~~~~~--~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf  158 (169)
T cd01892          81 ACLVYDSSDPKSFSYCAEVYKKYFM--LGEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELF  158 (169)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHhcc--CCCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHH
Confidence            9999999999999988888875532  246899999999998654 2222334555553322346999999999999999


Q ss_pred             HHHHHHHH
Q psy549          204 KELLAQAK  211 (253)
Q Consensus       204 ~~l~~~~~  211 (253)
                      +.+++.+.
T Consensus       159 ~~l~~~~~  166 (169)
T cd01892         159 TKLATAAQ  166 (169)
T ss_pred             HHHHHHhh
Confidence            99998874

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.

>cd04148 RGK RGK subfamily

Probab=99.96  E-value=1.4e-27  Score=190.50  Aligned_cols=161  Identities=29%  Similarity=0.448  Sum_probs=132.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCC-CCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcc-cCCEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS-TADAFV  126 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~-~~d~~i  126 (253)
                      +||+++|++|||||||+++|+++.+. ..+.++.. +.+...+.+ ++..+.+.+||++|++  ......++. ++|+++
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~-~~~~~~l~i~Dt~G~~--~~~~~~~~~~~ad~ii   77 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSV-DGEESTLVVIDHWEQE--MWTEDSCMQYQGDAFV   77 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEE-CCEEEEEEEEeCCCcc--hHHHhHHhhcCCCEEE
Confidence            58999999999999999999988875 55555554 666677777 7778899999999998  233445566 899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      +|||++++.+|..+..|+..+.... ..++|+++|+||+|+... .+..+.+..++. ..+++++++||+++.||+++|+
T Consensus        78 lV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~-~~~~~~~e~SA~~~~gv~~l~~  156 (221)
T cd04148          78 VVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAV-VFDCKFIETSAGLQHNVDELLE  156 (221)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHH-HcCCeEEEecCCCCCCHHHHHH
Confidence            9999999999999999988877643 356999999999998654 555666677776 4567899999999999999999


Q ss_pred             HHHHHHHHhc
Q psy549          205 ELLAQAKVQY  214 (253)
Q Consensus       205 ~l~~~~~~~~  214 (253)
                      ++++.+....
T Consensus       157 ~l~~~~~~~~  166 (221)
T cd04148         157 GIVRQIRLRR  166 (221)
T ss_pred             HHHHHHHhhh
Confidence            9999886543

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

>KOG0083|consensus

Probab=99.96  E-value=4.8e-30  Score=179.54  Aligned_cols=158  Identities=25%  Similarity=0.455  Sum_probs=143.5

Q ss_pred             EECCCCCCHHHHHHHHHhCCC-CCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEEC
Q psy549           54 VMGGARVGKSSIISQFLYDRF-ISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAV  131 (253)
Q Consensus        54 iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~  131 (253)
                      ++|++++|||+|+-+|..+.| ..+.++|.+ ++..+.+.. ++..+++++|||+|+++|++.+..+|+++|+.+++||+
T Consensus         2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~-~~~kvklqiwdtagqerfrsvt~ayyrda~allllydi   80 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDM-DDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDI   80 (192)
T ss_pred             ccccCccCceEEEEEeccCceecCceeeeeeeccccceecc-CCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeec
Confidence            689999999999999988776 556666766 666667777 88999999999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          132 DDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       132 ~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      .+..||+++..|+.++..+....+.+.+++||+|+.+. .+..+..+.+++ ..++|++++||++|.|++..|..|++.+
T Consensus        81 ankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~-~y~ipfmetsaktg~nvd~af~~ia~~l  159 (192)
T KOG0083|consen   81 ANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAE-AYGIPFMETSAKTGFNVDLAFLAIAEEL  159 (192)
T ss_pred             ccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHH-HHCCCceeccccccccHhHHHHHHHHHH
Confidence            99999999999999999988788999999999999764 788889999999 7899999999999999999999999988


Q ss_pred             HHh
Q psy549          211 KVQ  213 (253)
Q Consensus       211 ~~~  213 (253)
                      ...
T Consensus       160 ~k~  162 (192)
T KOG0083|consen  160 KKL  162 (192)
T ss_pred             HHh
Confidence            665

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.96  E-value=9.8e-28  Score=186.20  Aligned_cols=168  Identities=15%  Similarity=0.198  Sum_probs=129.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+||+++|++|||||||++++..+.+.... +|.. +.....+...++..+.+.+|||+|++++..++..+++++|++++
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~   81 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNTV-PTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVF   81 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCcC-CccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEE
Confidence            489999999999999999999998876543 3332 34444454435567899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHH---h--cCCCcEEEeccCCCCCHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIAL---Y--DWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~--~~~~~~~~~Sa~~~~~i~~  201 (253)
                      |+|+++..++.....|+..+... ...++|+++|+||+|+... ...+....+..   .  ....+++++||+++.|+++
T Consensus        82 v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~  160 (183)
T cd04152          82 VVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNA-LSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQE  160 (183)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcccc-CCHHHHHHHhCccccCCCCceEEEEeecccCCCHHH
Confidence            99999999888888887776653 2356899999999998653 22232333321   0  1135688999999999999


Q ss_pred             HHHHHHHHHHHhcccCh
Q psy549          202 VFKELLAQAKVQYNLSP  218 (253)
Q Consensus       202 l~~~l~~~~~~~~~~~~  218 (253)
                      +|++|++.+....+..+
T Consensus       161 l~~~l~~~l~~~~~~~~  177 (183)
T cd04152         161 GLEKLYEMILKRRKMLR  177 (183)
T ss_pred             HHHHHHHHHHHHHhhhh
Confidence            99999999976655443

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.

>cd00876 Ras Ras family

Probab=99.96  E-value=1.6e-27  Score=180.59  Aligned_cols=157  Identities=45%  Similarity=0.767  Sum_probs=137.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      ||+|+|++|||||||++++++..+...+.+++.+.+...+.+ ++..+.+++||+||++.+...+..+++.+|++++|||
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d   79 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIEDSYRKTIVV-DGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYS   79 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChhHeEEEEEEE-CCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEE
Confidence            699999999999999999999888888888877777777777 6667899999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHH
Q psy549          131 VDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLA  208 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  208 (253)
                      +++++++..+..|+..+..... ..+|+++|+||+|+... ....+.+..+.. ..+.+++++|++++.|+.++|++|++
T Consensus        80 ~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~S~~~~~~i~~l~~~l~~  158 (160)
T cd00876          80 ITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAK-EWGCPFIETSAKDNINIDEVFKLLVR  158 (160)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHH-HcCCcEEEeccCCCCCHHHHHHHHHh
Confidence            9999999999999888887544 57999999999998873 556666777766 45589999999999999999999987


Q ss_pred             H
Q psy549          209 Q  209 (253)
Q Consensus       209 ~  209 (253)
                      .
T Consensus       159 ~  159 (160)
T cd00876         159 E  159 (160)
T ss_pred             h
Confidence            5

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.96  E-value=2.6e-27  Score=184.43  Aligned_cols=167  Identities=27%  Similarity=0.388  Sum_probs=136.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      .||+|+|++|+|||||+++|..+.+...+..+....+...+.+ ++..+.+.+||++|++.+.......+..+|++++||
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~   80 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENYVTDCRV-DGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGF   80 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEE-CCEEEEEEEEECCCChhccccchhhcCCCCEEEEEE
Confidence            5899999999999999999998888766666666666666777 667788999999999988877777889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-----------cccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          130 AVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-----------DVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       130 d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-----------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      ++++.++|+.+. .|+..+.... +++|+++|+||+|+...           .+..+.+..+++.....++++|||++|.
T Consensus        81 ~i~~~~s~~~~~~~~~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~  159 (187)
T cd04129          81 AVDTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGE  159 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCC
Confidence            999999999986 5888776644 56999999999998542           2334566777774444589999999999


Q ss_pred             CHHHHHHHHHHHHHHhcccCh
Q psy549          198 NIVQVFKELLAQAKVQYNLSP  218 (253)
Q Consensus       198 ~i~~l~~~l~~~~~~~~~~~~  218 (253)
                      |++++|+++.+.+...++.+|
T Consensus       160 ~v~~~f~~l~~~~~~~~~~~~  180 (187)
T cd04129         160 GVDDVFEAATRAALLVRKSEP  180 (187)
T ss_pred             CHHHHHHHHHHHHhcccCccc
Confidence            999999999998866655443

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).

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.96  E-value=5.3e-27  Score=181.60  Aligned_cols=162  Identities=31%  Similarity=0.538  Sum_probs=137.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      .||+|+|++|+|||||+++|.+..+...+.+++...+...+.+ ++..+.+.+||+||++++...+..++..++++++||
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFSKIIRY-KGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVY   80 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhEEEEEEE-CCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEE
Confidence            6899999999999999999999888777777776666667777 666788999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      |+++..+++.+..|+..+.... ..+.|+++|+||+|+... ....+....+.. .++.+++++|++++.|+.++|.+++
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gv~~l~~~l~  159 (180)
T cd04137          81 SVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAE-SWGAAFLESSARENENVEEAFELLI  159 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            9999999999999888877743 356899999999998754 344445566665 5668899999999999999999999


Q ss_pred             HHHHHh
Q psy549          208 AQAKVQ  213 (253)
Q Consensus       208 ~~~~~~  213 (253)
                      +.+...
T Consensus       160 ~~~~~~  165 (180)
T cd04137         160 EEIEKV  165 (180)
T ss_pred             HHHHHh
Confidence            988655

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

>cd00154 Rab Rab family

Probab=99.96  E-value=5.9e-27  Score=176.78  Aligned_cols=156  Identities=28%  Similarity=0.479  Sum_probs=134.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+++|++|||||||++++.+..+...+..|.. +.....+.. ++..+.+.+||+||+..+...+..+++++|++++|
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v   79 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEI-DGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILV   79 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEE-CCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEE
Confidence            5899999999999999999999998766555544 555566666 56678899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCC-CccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE-FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      +|++++.++..+..|+..+.......+|+++|+||+|+. ......+..+.+.. .+..+++++|++++.|+.++|++|+
T Consensus        80 ~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154          80 YDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAK-ENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHH-HcCCeEEEEecCCCCCHHHHHHHHh
Confidence            999999999999999998888765779999999999996 33556667777776 4688999999999999999999986

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

>cd00157 Rho Rho (Ras homology) family

Probab=99.96  E-value=5.3e-27  Score=179.85  Aligned_cols=157  Identities=29%  Similarity=0.481  Sum_probs=129.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+++|++|||||||+++|+++.+...+.++..+.....+.. ++..+.+++||+||++++.......++.+|++++||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDNYSATVTV-DGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICF   79 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeEEEEEE-CCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEE
Confidence            5899999999999999999999998777777777666667777 677889999999999998888888889999999999


Q ss_pred             ECCChhhHHHHHH-HHHHHHHhcCCCCCEEEEEecCCCCCccc------------cHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          130 AVDDASTWDVVKD-LREQIVNKRGLMVPIVVVGNKCELEFKDV------------RREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       130 d~~~~~s~~~~~~-~~~~~~~~~~~~~piilv~nK~Dl~~~~~------------~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      |++++.+|..... |+..+.... .++|+++|+||+|+.....            ..+.+..+.......+++++|+++|
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~  158 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYC-PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQ  158 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCC
Confidence            9999999887554 666555543 5799999999999876532            3455566666344448999999999


Q ss_pred             CCHHHHHHHHHH
Q psy549          197 YNIVQVFKELLA  208 (253)
Q Consensus       197 ~~i~~l~~~l~~  208 (253)
                      .|+.++|+++++
T Consensus       159 ~gi~~l~~~i~~  170 (171)
T cd00157         159 EGVKEVFEEAIR  170 (171)
T ss_pred             CCHHHHHHHHhh
Confidence            999999999875

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>cd01893 Miro1 Miro1 subfamily

Probab=99.95  E-value=8.4e-27  Score=178.19  Aligned_cols=159  Identities=28%  Similarity=0.309  Sum_probs=123.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+|+|++|||||||+++|.++.+...++.+.. .......+ ++..+.+.+||++|.+++...+..++..+|++++||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~~-~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLP-EITIPADV-TPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVY   78 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCccc-ceEeeeee-cCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEE
Confidence            4899999999999999999999998765544433 23344445 567789999999999988888888889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCcccc---HHHHHHHHHhcCC-CcEEEeccCCCCCHHHHHH
Q psy549          130 AVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFKDVR---REIAETIALYDWQ-CGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       130 d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~---~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |++++.+|+.+. .|...+.... .++|+++|+||+|+.+....   .+....+...... .++++|||+++.|++++|+
T Consensus        79 d~~~~~s~~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~  157 (166)
T cd01893          79 SVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFY  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHH
Confidence            999999999875 5666665543 57999999999999765332   2223333322222 4799999999999999999


Q ss_pred             HHHHHHH
Q psy549          205 ELLAQAK  211 (253)
Q Consensus       205 ~l~~~~~  211 (253)
                      .+.+.+.
T Consensus       158 ~~~~~~~  164 (166)
T cd01893         158 YAQKAVL  164 (166)
T ss_pred             HHHHHhc
Confidence            9988774

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.

>cd04149 Arf6 Arf6 subfamily

Probab=99.95  E-value=2.8e-27  Score=181.14  Aligned_cols=155  Identities=14%  Similarity=0.146  Sum_probs=119.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..++|+++|++|||||||+++|..+.+.. +.+|..... ..+..   ..+.+++||++|++++..++..+++++|++|+
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~~-~~~t~g~~~-~~~~~---~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~   82 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNV-ETVTY---KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   82 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCcc-ccCCcccce-EEEEE---CCEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            46899999999999999999999877753 334443222 22222   35789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHH----hcCCCcEEEeccCCCCCHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIAL----YDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      |||++++.+|.....|+..+... ...++|+++|+||+|+... +..+.++....    ....++++++||++|.|+.++
T Consensus        83 v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~-~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~  161 (168)
T cd04149          83 VVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDA-MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEG  161 (168)
T ss_pred             EEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccC-CCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHHH
Confidence            99999999998888877766542 2356899999999998753 33333333322    112347899999999999999


Q ss_pred             HHHHHH
Q psy549          203 FKELLA  208 (253)
Q Consensus       203 ~~~l~~  208 (253)
                      |++|++
T Consensus       162 ~~~l~~  167 (168)
T cd04149         162 LTWLSS  167 (168)
T ss_pred             HHHHhc
Confidence            999864

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

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.95  E-value=4.7e-27  Score=178.31  Aligned_cols=154  Identities=13%  Similarity=0.190  Sum_probs=119.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+++|.+|||||||++++..+.+.. +.+|..... ..+..   ..+.+.+||++|++++..++..+++++|++|+||
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~~-~~pt~g~~~-~~~~~---~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~   75 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFNV-ETVEY---KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCcc-cCCCCCcce-EEEEE---CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence            589999999999999999998887764 444544222 22333   3578999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCcEEEeccCCCCCHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |+++..+|.....|+..+... ....+|+++|+||+|+.+.....+....+..   ....+.++++||++|.|++++|++
T Consensus        76 D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~~~  155 (159)
T cd04150          76 DSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAMSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDW  155 (159)
T ss_pred             eCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHHHH
Confidence            999999999888877766542 2245899999999999764333444444432   122346789999999999999999


Q ss_pred             HHH
Q psy549          206 LLA  208 (253)
Q Consensus       206 l~~  208 (253)
                      |.+
T Consensus       156 l~~  158 (159)
T cd04150         156 LSN  158 (159)
T ss_pred             Hhc
Confidence            864

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.95  E-value=4.7e-27  Score=182.10  Aligned_cols=163  Identities=16%  Similarity=0.214  Sum_probs=124.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...+||+++|++|||||||++++..+.+.. +.+|....+ ..+..   ..+.+++||++|++++..++..+++++|++|
T Consensus        15 ~~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~-~~~~~---~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI   89 (182)
T PTZ00133         15 KKEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNV-ETVEY---KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLI   89 (182)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccce-EEEEE---CCEEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            346899999999999999999998877754 444444222 23333   3478999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|||++++.+|.....++..+... ...++|+++|+||.|+.......+....+...   ...+.++++||++|.|+.++
T Consensus        90 ~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~  169 (182)
T PTZ00133         90 FVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAMSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEG  169 (182)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCCCHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHHH
Confidence            999999999998887777666442 22468999999999987643333444444321   11235779999999999999


Q ss_pred             HHHHHHHHHHhc
Q psy549          203 FKELLAQAKVQY  214 (253)
Q Consensus       203 ~~~l~~~~~~~~  214 (253)
                      |++|++.+...+
T Consensus       170 ~~~l~~~i~~~~  181 (182)
T PTZ00133        170 LDWLSANIKKSM  181 (182)
T ss_pred             HHHHHHHHHHhc
Confidence            999999886653

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.95  E-value=7.5e-27  Score=180.77  Aligned_cols=162  Identities=14%  Similarity=0.180  Sum_probs=123.0

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...+||+++|+++||||||++++..+.+.. +.+|.... ...+..   ..+.+++||++|++++..++..+++++|++|
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~~-~~pt~g~~-~~~~~~---~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI   89 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFN-VETVEY---KNISFTVWDVGGQDKIRPLWRHYFQNTQGLI   89 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCcc-ccCCccee-EEEEEE---CCEEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            356899999999999999999999877753 44444322 222333   4578999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHhc---CCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALYD---WQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~---~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|||+++..++.....++..+... ...++|+++|+||+|+.+....++..+.+....   ..+.++++||++|.|+.++
T Consensus        90 ~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e~  169 (181)
T PLN00223         90 FVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEG  169 (181)
T ss_pred             EEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCceEEEeccCCCCCCHHHH
Confidence            999999999998877776665432 225689999999999977543333333332210   1234668999999999999


Q ss_pred             HHHHHHHHHHh
Q psy549          203 FKELLAQAKVQ  213 (253)
Q Consensus       203 ~~~l~~~~~~~  213 (253)
                      |++|++.+.++
T Consensus       170 ~~~l~~~~~~~  180 (181)
T PLN00223        170 LDWLSNNIANK  180 (181)
T ss_pred             HHHHHHHHhhc
Confidence            99999887553

>cd04158 ARD1 ARD1 subfamily

Probab=99.95  E-value=7.6e-27  Score=178.95  Aligned_cols=159  Identities=16%  Similarity=0.151  Sum_probs=124.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      ||+++|+++||||||+++|.+..+.. +.+|..... ..+.+   ..+.+.+||+||++++...+..+++.+|++++|+|
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~-~~~~~---~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   75 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNV-ETVEY---KNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVD   75 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeE-EEEEE---CCEEEEEEECCCChhcchHHHHHhccCCEEEEEEe
Confidence            68999999999999999999987654 444443222 23333   34789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHhcC-----CCcEEEeccCCCCCHHHHHH
Q psy549          131 VDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALYDW-----QCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ++++.++.....|+..+.... ..+.|+++|+||+|+... +..+....+.....     .+.+++|||++|.||.++|+
T Consensus        76 ~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~  154 (169)
T cd04158          76 SSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGA-LSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLD  154 (169)
T ss_pred             CCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccC-CCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHH
Confidence            999999999888888877532 245899999999999753 44444444433111     23688999999999999999


Q ss_pred             HHHHHHHHhcc
Q psy549          205 ELLAQAKVQYN  215 (253)
Q Consensus       205 ~l~~~~~~~~~  215 (253)
                      +|++.+.....
T Consensus       155 ~l~~~~~~~~~  165 (169)
T cd04158         155 WLSRQLVAAGV  165 (169)
T ss_pred             HHHHHHhhccc
Confidence            99988766533

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

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.95  E-value=1.6e-26  Score=178.13  Aligned_cols=158  Identities=15%  Similarity=0.183  Sum_probs=121.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..+||+++|++|||||||+++|..+.+.. +.+|..... ..+..   ..+.+.+||++|++++..++..+++++|++|+
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~~-~~~t~~~~~-~~~~~---~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~   86 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESVT-TIPTIGFNV-ETVTY---KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIF   86 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCCC-cCCccccce-EEEEE---CCEEEEEEECCCChhhHHHHHHHhCCCCEEEE
Confidence            46999999999999999999998777743 444544222 23333   34789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      |||++++.++.....|+..+... ...++|+++|+||+|+.+.....+..+.+...   ...+.++++||++|.|+.++|
T Consensus        87 v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~  166 (175)
T smart00177       87 VVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAMKAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGL  166 (175)
T ss_pred             EEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCCCHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHHHH
Confidence            99999999998888887776542 22568999999999997643333333333210   123457789999999999999


Q ss_pred             HHHHHHH
Q psy549          204 KELLAQA  210 (253)
Q Consensus       204 ~~l~~~~  210 (253)
                      +||.+.+
T Consensus       167 ~~l~~~~  173 (175)
T smart00177      167 TWLSNNL  173 (175)
T ss_pred             HHHHHHh
Confidence            9998775

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).

>cd04154 Arl2 Arl2 subfamily

Probab=99.95  E-value=1.9e-26  Score=177.42  Aligned_cols=157  Identities=20%  Similarity=0.275  Sum_probs=121.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+++|++|||||||+++|.+..+. .+.+|.+ .....+.+ +  .+.+.+||+||++.+..++..+++.+|+++
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~~-~~~~t~g-~~~~~~~~-~--~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i   86 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDID-TISPTLG-FQIKTLEY-E--GYKLNIWDVGGQKTLRPYWRNYFESTDALI   86 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCC-CcCCccc-cceEEEEE-C--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            45689999999999999999999987553 3334433 33334445 3  368899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|||++++.+|.....|+..+... ...++|+++|+||+|+.+.....+..+.+..   ....++++++||++|.|++++
T Consensus        87 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l  166 (173)
T cd04154          87 WVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGALSEEEIREALELDKISSHHWRIQPCSAVTGEGLLQG  166 (173)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCCCHHHHHHHhCccccCCCceEEEeccCCCCcCHHHH
Confidence            999999999998888887776542 3357999999999999764332333233321   124568999999999999999


Q ss_pred             HHHHHH
Q psy549          203 FKELLA  208 (253)
Q Consensus       203 ~~~l~~  208 (253)
                      |+++++
T Consensus       167 ~~~l~~  172 (173)
T cd04154         167 IDWLVD  172 (173)
T ss_pred             HHHHhc
Confidence            999864

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.

>KOG0393|consensus

Probab=99.95  E-value=1.8e-27  Score=181.27  Aligned_cols=165  Identities=26%  Similarity=0.403  Sum_probs=148.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..+||+|||+.++|||+|+-.+..+.|+..|.+|..+.+...+.+.|+..+.+.+|||+|+++|+.+++..|.++|.+++
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVFdnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl~   82 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVFDNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFLL   82 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCcCcccccCeEEccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEEE
Confidence            45899999999999999999999999999999999999999999944999999999999999999999889999999999


Q ss_pred             EEECCChhhHHHH-HHHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEecc
Q psy549          128 VYAVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSA  193 (253)
Q Consensus       128 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa  193 (253)
                      +|++.++.||+++ ..|+.++..+. ++.|+++||+|.||.++             .+..+.+..+++..+...|+||||
T Consensus        83 cfsv~~p~S~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcSa  161 (198)
T KOG0393|consen   83 CFSVVSPESFENVKSKWIPEIKHHC-PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECSA  161 (198)
T ss_pred             EEEcCChhhHHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeehh
Confidence            9999999999995 55877766655 89999999999999853             466778888998777789999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHh
Q psy549          194 KENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       194 ~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ++..|+.++|+..+..+...
T Consensus       162 ~tq~~v~~vF~~a~~~~l~~  181 (198)
T KOG0393|consen  162 LTQKGVKEVFDEAIRAALRP  181 (198)
T ss_pred             hhhCCcHHHHHHHHHHHhcc
Confidence            99999999999999988554

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.95  E-value=1.6e-25  Score=178.10  Aligned_cols=166  Identities=22%  Similarity=0.362  Sum_probs=137.2

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccC
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTA  122 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~  122 (253)
                      ......+||+++|++|||||||+++++.+.+...+.+|.. +.....+.. ++..+.+.+||++|++++..++..++..+
T Consensus         4 ~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~   82 (215)
T PTZ00132          4 MDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYT-NCGPICFNVWDTAGQEKFGGLRDGYYIKG   82 (215)
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEE-CCeEEEEEEEECCCchhhhhhhHHHhccC
Confidence            3456679999999999999999999998888777766665 444444445 66789999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +++++|||+++..+|..+..|+..+.... .++|+++|+||+|+.......+.. .+.. ..++.++++|+++|.|++++
T Consensus        83 ~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~~~~~~~~~~-~~~~-~~~~~~~e~Sa~~~~~v~~~  159 (215)
T PTZ00132         83 QCAIIMFDVTSRITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVKDRQVKARQI-TFHR-KKNLQYYDISAKSNYNFEKP  159 (215)
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCccccCCHHHH-HHHH-HcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999998887654 568999999999987654444443 3444 45678999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy549          203 FKELLAQAKVQ  213 (253)
Q Consensus       203 ~~~l~~~~~~~  213 (253)
                      |.+|++.+...
T Consensus       160 f~~ia~~l~~~  170 (215)
T PTZ00132        160 FLWLARRLTND  170 (215)
T ss_pred             HHHHHHHHhhc
Confidence            99999988654

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.95  E-value=1.2e-26  Score=176.98  Aligned_cols=151  Identities=17%  Similarity=0.257  Sum_probs=121.4

Q ss_pred             EEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEEC
Q psy549           52 VVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAV  131 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~  131 (253)
                      |+++|++|||||||+++|.+..+...+.+|....   ...+ ++..+.+.+||++|++++..++..+++++|++++|||.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~---~~~i-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~   77 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFN---SVAI-PTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDS   77 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcc---eEEE-eeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEEC
Confidence            7999999999999999999988776666665422   2334 44568899999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHH-----HHHHHHhcCCCcEEEeccCC------CCCHH
Q psy549          132 DDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREI-----AETIALYDWQCGFVECSAKE------NYNIV  200 (253)
Q Consensus       132 ~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~-----~~~~~~~~~~~~~~~~Sa~~------~~~i~  200 (253)
                      ++..+|.....|+..+.... .++|+++|+||+|+.......++     +..++. ..++++++|||++      +.||.
T Consensus        78 t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~-~~~~~~~~~Sa~~~~s~~~~~~v~  155 (164)
T cd04162          78 ADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQEIHKELELEPIAR-GRRWILQGTSLDDDGSPSRMEAVK  155 (164)
T ss_pred             CCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcC-CCceEEEEeeecCCCChhHHHHHH
Confidence            99999988888887776433 67999999999998765322221     233443 4567889999988      99999


Q ss_pred             HHHHHHHH
Q psy549          201 QVFKELLA  208 (253)
Q Consensus       201 ~l~~~l~~  208 (253)
                      ++|+.++.
T Consensus       156 ~~~~~~~~  163 (164)
T cd04162         156 DLLSQLIN  163 (164)
T ss_pred             HHHHHHhc
Confidence            99998763

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.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.94  E-value=2.6e-25  Score=174.19  Aligned_cols=147  Identities=17%  Similarity=0.257  Sum_probs=119.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcC----CCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELP----DGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~----~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      +||+++|+++||||||+++|+++.+...+.+|.. +.....+.+.    ++..+.++|||++|+++|..++..+++++|+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~   80 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNG   80 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCE
Confidence            5899999999999999999999998877777765 4444445542    3567899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhc-------------------CCCCCEEEEEecCCCCCc-cccH----HHHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKR-------------------GLMVPIVVVGNKCELEFK-DVRR----EIAETIA  180 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-------------------~~~~piilv~nK~Dl~~~-~~~~----~~~~~~~  180 (253)
                      +|+|||++++.||+.+..|+..+....                   ..++|+++|+||.|+.+. .+..    .....++
T Consensus        81 iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia  160 (202)
T cd04102          81 IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVA  160 (202)
T ss_pred             EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhHH
Confidence            999999999999999999999887632                   246899999999998654 2222    1234555


Q ss_pred             HhcCCCcEEEeccCCCC
Q psy549          181 LYDWQCGFVECSAKENY  197 (253)
Q Consensus       181 ~~~~~~~~~~~Sa~~~~  197 (253)
                      + ..+.+.++.++.++.
T Consensus       161 ~-~~~~~~i~~~c~~~~  176 (202)
T cd04102         161 E-QGNAEEINLNCTNGR  176 (202)
T ss_pred             H-hcCCceEEEecCCcc
Confidence            5 678888888887654

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.94  E-value=6.9e-26  Score=172.15  Aligned_cols=154  Identities=23%  Similarity=0.229  Sum_probs=116.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +|+++|++|||||||+++|.+..+ ...+.+|.... ...+.   ...+.+++||+||++++..++..+++++|++|+|+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~-~~~~~---~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFN-VESFE---KGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccc-eEEEE---ECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            589999999999999999998753 44455554421 12222   23578899999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc---CCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNKR---GLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      |++++.++.....|+..+....   ..++|+++|+||+|+.......+....+...   ....+++++||++|.|++++|
T Consensus        77 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~  156 (162)
T cd04157          77 DSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDALTAVKITQLLGLENIKDKPWHIFASNALTGEGLDEGV  156 (162)
T ss_pred             eCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCCCHHHHHHHhCCccccCceEEEEEeeCCCCCchHHHH
Confidence            9999999888777877665532   2569999999999987643323333332211   123468999999999999999


Q ss_pred             HHHHH
Q psy549          204 KELLA  208 (253)
Q Consensus       204 ~~l~~  208 (253)
                      ++|.+
T Consensus       157 ~~l~~  161 (162)
T cd04157         157 QWLQA  161 (162)
T ss_pred             HHHhc
Confidence            99864

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.94  E-value=1.5e-25  Score=172.61  Aligned_cols=156  Identities=19%  Similarity=0.256  Sum_probs=120.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..++|+++|++|+|||||++++..+.+... .+|.... ...+.+ +  .+.+.+||+||++.+...+..+++++|++++
T Consensus        14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~~-~~t~~~~-~~~~~~-~--~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~   88 (174)
T cd04153          14 KEYKVIIVGLDNAGKTTILYQFLLGEVVHT-SPTIGSN-VEEIVY-K--NIRFLMWDIGGQESLRSSWNTYYTNTDAVIL   88 (174)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCCc-CCccccc-eEEEEE-C--CeEEEEEECCCCHHHHHHHHHHhhcCCEEEE
Confidence            358999999999999999999998887643 3343322 233444 2  4689999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCcEEEeccCCCCCHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      |+|++++.++.....++..+.... ..++|+++|+||+|+.+....+++.+.+..   ....++++++||++|.|++++|
T Consensus        89 V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~  168 (174)
T cd04153          89 VIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAMTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGL  168 (174)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCCCCHHHHHHHhCcccccCCceEEEecccCCCCCHHHHH
Confidence            999999998887777666665432 246899999999998764333334444431   1234578999999999999999


Q ss_pred             HHHHH
Q psy549          204 KELLA  208 (253)
Q Consensus       204 ~~l~~  208 (253)
                      ++|++
T Consensus       169 ~~l~~  173 (174)
T cd04153         169 DWIAS  173 (174)
T ss_pred             HHHhc
Confidence            99875

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.

>KOG4252|consensus

Probab=99.94  E-value=6.2e-27  Score=171.95  Aligned_cols=175  Identities=23%  Similarity=0.342  Sum_probs=152.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....+|++|+|..++||+|+|++++.+-|..++..|+. ++....+.+ ++..+.+.+||++|+++|+..+..+|++|.+
T Consensus        17 ~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v-~~Edvr~mlWdtagqeEfDaItkAyyrgaqa   95 (246)
T KOG4252|consen   17 YERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKV-LIEDVRSMLWDTAGQEEFDAITKAYYRGAQA   95 (246)
T ss_pred             hhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHh-hHHHHHHHHHHhccchhHHHHHHHHhccccc
Confidence            45678999999999999999999999999998888877 666666666 6667788999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      .++||+.+|..||+.+..|++.+.... .++|.++|-||+|+.++ ++.....+.+++ .....++.+|++...|+..+|
T Consensus        96 ~vLVFSTTDr~SFea~~~w~~kv~~e~-~~IPtV~vqNKIDlveds~~~~~evE~lak-~l~~RlyRtSvked~NV~~vF  173 (246)
T KOG4252|consen   96 SVLVFSTTDRYSFEATLEWYNKVQKET-ERIPTVFVQNKIDLVEDSQMDKGEVEGLAK-KLHKRLYRTSVKEDFNVMHVF  173 (246)
T ss_pred             eEEEEecccHHHHHHHHHHHHHHHHHh-ccCCeEEeeccchhhHhhhcchHHHHHHHH-HhhhhhhhhhhhhhhhhHHHH
Confidence            999999999999999999999988744 67999999999999877 677777888887 677888999999999999999


Q ss_pred             HHHHHHHHHhcccChhhccc
Q psy549          204 KELLAQAKVQYNLSPAVRRR  223 (253)
Q Consensus       204 ~~l~~~~~~~~~~~~~~~~~  223 (253)
                      .+|++.+....+.+.....+
T Consensus       174 ~YLaeK~~q~~kq~~~~~~~  193 (246)
T KOG4252|consen  174 AYLAEKLTQQKKQSLNANER  193 (246)
T ss_pred             HHHHHHHHHHHHHHhhhchh
Confidence            99999998876665443433

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.93  E-value=5.1e-25  Score=167.12  Aligned_cols=154  Identities=21%  Similarity=0.326  Sum_probs=117.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      +|+|+|++|||||||+++|.++.+... .+|.+ .....+.. + ..+.+.+||++|++.+...+..++..+|++++|+|
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~~-~~t~~-~~~~~~~~-~-~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D   76 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVTT-IPTVG-FNVEMLQL-E-KHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVD   76 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcccc-cCccC-cceEEEEe-C-CceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEE
Confidence            689999999999999999999887543 33333 22233333 2 34789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHh----cCCCcEEEeccCCCCCHHHHHHH
Q psy549          131 VDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALY----DWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      .+++.++.....|+..+.... ..++|+++|+||+|+.......+....+...    ..++++++|||++|.|++++|++
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~  156 (160)
T cd04156          77 SSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGALTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAFRK  156 (160)
T ss_pred             CCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCcCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHHHH
Confidence            999998888888877766532 2569999999999986532223333222110    12357899999999999999999


Q ss_pred             HHH
Q psy549          206 LLA  208 (253)
Q Consensus       206 l~~  208 (253)
                      |.+
T Consensus       157 i~~  159 (160)
T cd04156         157 LAS  159 (160)
T ss_pred             Hhc
Confidence            864

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.93  E-value=3.8e-25  Score=167.62  Aligned_cols=153  Identities=17%  Similarity=0.201  Sum_probs=113.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      ||+++|++++|||||++++..+.+... .+|..... ..+.   ...+.+++||+||++.+..++..++..+|++|+|+|
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~~-~~t~~~~~-~~~~---~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d   75 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVTT-IPTIGFNV-ETVT---YKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVD   75 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcCc-CCccCcCe-EEEE---ECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEE
Confidence            689999999999999999988776532 33332211 2222   345789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHHHHHH
Q psy549          131 VDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      ++++.++.....++..+.. ....++|+++|+||+|+.+.....+....+...   ....+++++||++|.|++++|++|
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  155 (158)
T cd04151          76 STDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGALSEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMDWL  155 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCCCHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHHHH
Confidence            9998887766665554433 223568999999999987543233333333211   123469999999999999999998


Q ss_pred             HH
Q psy549          207 LA  208 (253)
Q Consensus       207 ~~  208 (253)
                      ++
T Consensus       156 ~~  157 (158)
T cd04151         156 VN  157 (158)
T ss_pred             hc
Confidence            75

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.93  E-value=4e-25  Score=168.90  Aligned_cols=155  Identities=19%  Similarity=0.213  Sum_probs=115.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCC-----CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFI-----SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~-----~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      +|+|+|++|+|||||+++|.+....     .....++.......+.+ +  .+.+.+||+||++.+..++..+++.+|++
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~-~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   77 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEV-G--NARLKFWDLGGQESLRSLWDKYYAECHAI   77 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEEEEE-C--CEEEEEEECCCChhhHHHHHHHhCCCCEE
Confidence            6899999999999999999864321     11111222222334445 3  36889999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh-----cCCCcEEEeccCCCCCH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY-----DWQCGFVECSAKENYNI  199 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i  199 (253)
                      ++|+|+++..++.....|+..+... ...++|+++|+||+|+.......+..+.+...     ...++++++||++|.|+
T Consensus        78 v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv  157 (167)
T cd04160          78 IYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDALSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGV  157 (167)
T ss_pred             EEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccCCCHHHHHHHhccccccccCCceEEEEeeCCCCcCH
Confidence            9999999998888887787776653 23569999999999987653333333333221     13458999999999999


Q ss_pred             HHHHHHHHH
Q psy549          200 VQVFKELLA  208 (253)
Q Consensus       200 ~~l~~~l~~  208 (253)
                      ++++++|++
T Consensus       158 ~e~~~~l~~  166 (167)
T cd04160         158 REGIEWLVE  166 (167)
T ss_pred             HHHHHHHhc
Confidence            999999875

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.93  E-value=2.7e-25  Score=169.97  Aligned_cols=153  Identities=22%  Similarity=0.273  Sum_probs=118.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      +|+++|++|||||||+++|.+. +...+.+|.... ...+.+   ..+.+++||++|++++..++..+++++|++++|||
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~-~~~~~~---~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D   75 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFT-PTKLRL---DKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVD   75 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccce-EEEEEE---CCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEE
Confidence            4899999999999999999976 555555554432 334444   34789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHH-----HHh-cCCCcEEEeccCCC------C
Q psy549          131 VDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETI-----ALY-DWQCGFVECSAKEN------Y  197 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~-----~~~-~~~~~~~~~Sa~~~------~  197 (253)
                      +++..++..+..|+..+.... ..++|+++|+||+|+.+.....++.+.+     +.. ...+++++|||++|      .
T Consensus        76 ~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~  155 (167)
T cd04161          76 SSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDP  155 (167)
T ss_pred             CCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCcccc
Confidence            999999999888888776542 2568999999999997754333333322     211 23457888999998      8


Q ss_pred             CHHHHHHHHHH
Q psy549          198 NIVQVFKELLA  208 (253)
Q Consensus       198 ~i~~l~~~l~~  208 (253)
                      |+.+.|+||.+
T Consensus       156 g~~~~~~wl~~  166 (167)
T cd04161         156 SIVEGLRWLLA  166 (167)
T ss_pred             CHHHHHHHHhc
Confidence            99999999974

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>cd00879 Sar1 Sar1 subfamily

Probab=99.93  E-value=1e-24  Score=170.29  Aligned_cols=157  Identities=17%  Similarity=0.238  Sum_probs=121.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|||||||++++.++.+. .+.+|.. .....+.+ ++  +.+.+||+||+..+...+..+++.+|+++
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~-~~~~~i~~-~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~ii   91 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLH-PTSEELTI-GN--IKFKTFDLGGHEQARRLWKDYFPEVDGIV   91 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccC-cceEEEEE-CC--EEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            45799999999999999999999988764 2333332 23345555 43  67899999999999888889999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHh---------------cCCCcEEE
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALY---------------DWQCGFVE  190 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---------------~~~~~~~~  190 (253)
                      +|+|+++..++.....|+..+.... ..+.|+++|+||+|+... +..+..+.....               ...+++++
T Consensus        92 lV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (190)
T cd00879          92 FLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPGA-VSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFM  170 (190)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCCC-cCHHHHHHHhCcccccccccccccccCceeEEEEE
Confidence            9999999988888777777776532 256999999999998753 333333333321               12356899


Q ss_pred             eccCCCCCHHHHHHHHHHH
Q psy549          191 CSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~  209 (253)
                      |||++|.|+.++|++|++.
T Consensus       171 ~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         171 CSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             eEecCCCChHHHHHHHHhh
Confidence            9999999999999999875

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.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.93  E-value=1.7e-24  Score=168.09  Aligned_cols=158  Identities=16%  Similarity=0.261  Sum_probs=120.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+++|.+|||||||++++.++.+.. +.+| .......+.+ +  .+.+.+||+||++.+...+..++.++|+++
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~-~~~t-~~~~~~~~~~-~--~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii   89 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQ-HQPT-QHPTSEELAI-G--NIKFTTFDLGGHQQARRLWKDYFPEVNGIV   89 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCcc-cCCc-cccceEEEEE-C--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            456999999999999999999999887642 2222 2222333444 3  367899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHhc----------CCCcEEEeccCC
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALYD----------WQCGFVECSAKE  195 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~----------~~~~~~~~Sa~~  195 (253)
                      +|+|++++.++.....++..+... ...++|+++|+||+|+......+++.+.+....          ....+++|||++
T Consensus        90 ~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~  169 (184)
T smart00178       90 YLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYAASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVR  169 (184)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCCCHHHHHHHcCCCcccccccccCCceeEEEEeeccc
Confidence            999999999888877777666542 225689999999999876433444444442211          244589999999


Q ss_pred             CCCHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQ  209 (253)
Q Consensus       196 ~~~i~~l~~~l~~~  209 (253)
                      +.|++++++||...
T Consensus       170 ~~g~~~~~~wl~~~  183 (184)
T smart00178      170 RMGYGEGFKWLSQY  183 (184)
T ss_pred             CCChHHHHHHHHhh
Confidence            99999999999764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.93  E-value=2.7e-24  Score=162.83  Aligned_cols=153  Identities=17%  Similarity=0.276  Sum_probs=118.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      ||+++|.+|||||||++++++..+.. +..+.. .....+.+ +  .+.+.+||+||++.+...+..++..+|++++|||
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~~~-~~~t~~-~~~~~~~~-~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D   75 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEVVT-TIPTIG-FNVETVEY-K--NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVD   75 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCcC-cceEEEEE-C--CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEE
Confidence            68999999999999999999987432 223332 22223333 2  4689999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          131 VDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      ++++.++.....|+..+.... ..+.|+++|+||+|+.......+....+..   ....++++++|+++|.|++++|++|
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~l  155 (158)
T cd00878          76 SSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGALSVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDWL  155 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCccccCHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHHH
Confidence            999999988888777666632 357899999999998765433334443332   1345689999999999999999998


Q ss_pred             HH
Q psy549          207 LA  208 (253)
Q Consensus       207 ~~  208 (253)
                      ..
T Consensus       156 ~~  157 (158)
T cd00878         156 LQ  157 (158)
T ss_pred             hh
Confidence            75

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

>cd01898 Obg Obg subfamily

Probab=99.92  E-value=4.8e-24  Score=163.31  Aligned_cols=157  Identities=18%  Similarity=0.178  Sum_probs=115.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC----ChhhHHHh---cccC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ----FPAMRELS---ISTA  122 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~----~~~~~~~~---~~~~  122 (253)
                      +|+|+|.+|||||||+++|.+... +...+.++.......+.+ ++ ...+.+|||||..+    +..+...+   +..+
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~-~~-~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~   79 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRV-DD-GRSFVVADIPGLIEGASEGKGLGHRFLRHIERT   79 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEc-CC-CCeEEEEecCcccCcccccCCchHHHHHHHHhC
Confidence            689999999999999999997654 233344444444445555 32 24789999999642    22223333   4469


Q ss_pred             CEEEEEEECCCh-hhHHHHHHHHHHHHHhcC--CCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          123 DAFVLVYAVDDA-STWDVVKDLREQIVNKRG--LMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       123 d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      |++++|+|++++ .+++.+..|.+.+.....  ..+|+++|+||+|+.......+....+.......+++++|++++.|+
T Consensus        80 d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  159 (170)
T cd01898          80 RLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEELFELLKELLKELWGKPVFPISALTGEGL  159 (170)
T ss_pred             CEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhhHHHHHHHHhhCCCCCEEEEecCCCCCH
Confidence            999999999999 788888888888776532  36899999999999765444444444444234678999999999999


Q ss_pred             HHHHHHHHHH
Q psy549          200 VQVFKELLAQ  209 (253)
Q Consensus       200 ~~l~~~l~~~  209 (253)
                      +++|++|.+.
T Consensus       160 ~~l~~~i~~~  169 (170)
T cd01898         160 DELLRKLAEL  169 (170)
T ss_pred             HHHHHHHHhh
Confidence            9999998865

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>PLN00023 GTP-binding protein; Provisional

Probab=99.92  E-value=1e-23  Score=173.08  Aligned_cols=142  Identities=20%  Similarity=0.270  Sum_probs=117.2

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcC------------CCcEEEEEEEeCCCCCCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELP------------DGAQLTLDILDTSGAYQF  111 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~------------~~~~~~~~l~D~~g~~~~  111 (253)
                      +....+||+|+|+.|||||||+++|+++.+...+..|.. ++..+.+.+.            ++..+.++|||++|+++|
T Consensus        17 ~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErf   96 (334)
T PLN00023         17 PPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERY   96 (334)
T ss_pred             CCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhh
Confidence            345669999999999999999999999998777777776 4445555552            135788999999999999


Q ss_pred             hhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcC------------CCCCEEEEEecCCCCCcc-------cc
Q psy549          112 PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRG------------LMVPIVVVGNKCELEFKD-------VR  172 (253)
Q Consensus       112 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~------------~~~piilv~nK~Dl~~~~-------~~  172 (253)
                      ..++..++++++++|+|||+++..+|+.+..|+..+.....            .++|++||+||+|+....       +.
T Consensus        97 rsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~  176 (334)
T PLN00023         97 KDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNL  176 (334)
T ss_pred             hhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccccccccccccccc
Confidence            99999999999999999999999999999999999987531            258999999999996541       35


Q ss_pred             HHHHHHHHHhcCCC
Q psy549          173 REIAETIALYDWQC  186 (253)
Q Consensus       173 ~~~~~~~~~~~~~~  186 (253)
                      .+.++.+++...-+
T Consensus       177 ~e~a~~~A~~~g~l  190 (334)
T PLN00023        177 VDAARQWVEKQGLL  190 (334)
T ss_pred             HHHHHHHHHHcCCC
Confidence            78888888854333

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.92  E-value=1.7e-23  Score=157.88  Aligned_cols=154  Identities=24%  Similarity=0.285  Sum_probs=118.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      .|+|+|++|||||||+++|.+..+...+.++...... .+.. +  .+.+.+||+||+..+...+..++..+|++++|+|
T Consensus         1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~-~~~~-~--~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d   76 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMR-KVTK-G--NVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVD   76 (159)
T ss_pred             CEEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceE-EEEE-C--CEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEE
Confidence            3899999999999999999999887766666553222 3333 3  2789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          131 VDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      +++..++.....|+..+... ...++|+++|+||+|+.+.....+..+.+..   ....++++++|++++.|+++++++|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  156 (159)
T cd04159          77 AADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALSVDELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDWL  156 (159)
T ss_pred             CCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcCHHHHHHHhCcccccCCceEEEEEEeccCCChHHHHHHH
Confidence            99998888777776665542 2256899999999998764332233333321   1234678999999999999999998


Q ss_pred             HH
Q psy549          207 LA  208 (253)
Q Consensus       207 ~~  208 (253)
                      .+
T Consensus       157 ~~  158 (159)
T cd04159         157 IK  158 (159)
T ss_pred             hh
Confidence            75

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.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.92  E-value=3.2e-23  Score=158.48  Aligned_cols=155  Identities=19%  Similarity=0.191  Sum_probs=109.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCC-CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh---------hhHHHhc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP---------AMRELSI  119 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~---------~~~~~~~  119 (253)
                      .+|+++|++|+|||||+++|.+..+. ..++.++.......+..   ..+.+++|||||.....         .......
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   77 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDY---KYLRWQVIDTPGLLDRPLEERNTIEMQAITALA   77 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeEEEEcc---CceEEEEEECCCcCCccccCCchHHHHHHHHHH
Confidence            47999999999999999999998763 33344444444444443   24689999999974211         1111112


Q ss_pred             ccCCEEEEEEECCChhhH--HHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          120 STADAFVLVYAVDDASTW--DVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      ..+|++++|+|+++..++  .....|+..+.... .++|+++|+||+|+.......+ .+.+.. ....++++|||++|.
T Consensus        78 ~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~~-~~~~~~-~~~~~~~~~Sa~~~~  154 (168)
T cd01897          78 HLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLSE-IEEEEE-LEGEEVLKISTLTEE  154 (168)
T ss_pred             hccCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHHH-HHHhhh-hccCceEEEEecccC
Confidence            346899999999987653  45556777665432 4689999999999876432222 344444 456789999999999


Q ss_pred             CHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQA  210 (253)
Q Consensus       198 ~i~~l~~~l~~~~  210 (253)
                      |++++|+++.+.+
T Consensus       155 gi~~l~~~l~~~~  167 (168)
T cd01897         155 GVDEVKNKACELL  167 (168)
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998876

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.91  E-value=4.3e-23  Score=173.02  Aligned_cols=162  Identities=17%  Similarity=0.132  Sum_probs=125.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC----hhhHH---Hhc
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF----PAMRE---LSI  119 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~----~~~~~---~~~  119 (253)
                      -...|+|+|.||||||||+++|.+... +.+++.||.......+.+.++  ..+.+||+||..+-    ..+..   ..+
T Consensus       157 ~~adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~~~--~~~~i~D~PGli~ga~~~~gLg~~flrhi  234 (335)
T PRK12299        157 LLADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDDY--KSFVIADIPGLIEGASEGAGLGHRFLKHI  234 (335)
T ss_pred             ccCCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeCCC--cEEEEEeCCCccCCCCccccHHHHHHHHh
Confidence            345789999999999999999998653 577888888888888877443  35789999997542    12322   345


Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCCEEEEEecCCCCCcc-ccHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRG--LMVPIVVVGNKCELEFKD-VRREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      +.++++|+|+|+++..+++.+..|..++..+..  .++|+++|+||+|+.... ......+.+.. ....+++++||+++
T Consensus       235 e~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~-~~~~~i~~iSAktg  313 (335)
T PRK12299        235 ERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELA-ALGGPVFLISAVTG  313 (335)
T ss_pred             hhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHH-hcCCCEEEEEcCCC
Confidence            679999999999988788888889888877543  468999999999987653 23333333333 34578999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy549          197 YNIVQVFKELLAQAKV  212 (253)
Q Consensus       197 ~~i~~l~~~l~~~~~~  212 (253)
                      .|+++++++|.+.+..
T Consensus       314 ~GI~eL~~~L~~~l~~  329 (335)
T PRK12299        314 EGLDELLRALWELLEE  329 (335)
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999988754

>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=99.91  E-value=1.8e-23  Score=160.96  Aligned_cols=160  Identities=20%  Similarity=0.305  Sum_probs=124.3

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....++|+|+|+.|||||||++++..+.... ..+|. .+....+.+ +  .+.+.+||.+|+..++..|..++.++|++
T Consensus        11 ~~~~~~ililGl~~sGKTtll~~l~~~~~~~-~~pT~-g~~~~~i~~-~--~~~~~~~d~gG~~~~~~~w~~y~~~~~~i   85 (175)
T PF00025_consen   11 KKKEIKILILGLDGSGKTTLLNRLKNGEISE-TIPTI-GFNIEEIKY-K--GYSLTIWDLGGQESFRPLWKSYFQNADGI   85 (175)
T ss_dssp             TTSEEEEEEEESTTSSHHHHHHHHHSSSEEE-EEEES-SEEEEEEEE-T--TEEEEEEEESSSGGGGGGGGGGHTTESEE
T ss_pred             cCcEEEEEEECCCccchHHHHHHhhhccccc-cCccc-ccccceeee-C--cEEEEEEeccccccccccceeecccccee
Confidence            3678999999999999999999999876533 22332 233344445 3  36789999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh----cCCCcEEEeccCCCCCHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY----DWQCGFVECSAKENYNIV  200 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~i~  200 (253)
                      |+|+|.++.+.+......+..+... ...++|+++++||.|+.+.....++...+...    ...+.++.||+.+|.|+.
T Consensus        86 IfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~  165 (175)
T PF00025_consen   86 IFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVD  165 (175)
T ss_dssp             EEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHH
T ss_pred             EEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhhhhhhcccCCceEEEeeeccCCcCHH
Confidence            9999999998887766666665552 33569999999999998764445454444332    245568999999999999


Q ss_pred             HHHHHHHHHH
Q psy549          201 QVFKELLAQA  210 (253)
Q Consensus       201 ~l~~~l~~~~  210 (253)
                      +.|+||.+.+
T Consensus       166 e~l~WL~~~~  175 (175)
T PF00025_consen  166 EGLEWLIEQI  175 (175)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHhcC
Confidence            9999999865

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 ....

>KOG0073|consensus

Probab=99.91  E-value=7.6e-23  Score=148.41  Aligned_cols=162  Identities=19%  Similarity=0.252  Sum_probs=127.4

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...+++|.|+|..|+||||++++|.+...  +....+.-+..+.+.+   ..+.+++||++|+..+++.|..||+.+|++
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~~--~~i~pt~gf~Iktl~~---~~~~L~iwDvGGq~~lr~~W~nYfestdgl   87 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGEDT--DTISPTLGFQIKTLEY---KGYTLNIWDVGGQKTLRSYWKNYFESTDGL   87 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCCc--cccCCccceeeEEEEe---cceEEEEEEcCCcchhHHHHHHhhhccCeE
Confidence            34589999999999999999999998762  2223334455555555   347899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHH-----HHHHHhcCCCcEEEeccCCCCCH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIA-----ETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      |+|+|.+|+..++.....+..+.. .+-.+.|+++++||.|++..-..+++.     +.+.+ ...++++.||+.+|.++
T Consensus        88 IwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~k-s~~~~l~~cs~~tge~l  166 (185)
T KOG0073|consen   88 IWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLEELAK-SHHWRLVKCSAVTGEDL  166 (185)
T ss_pred             EEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHHHhcc-ccCceEEEEeccccccH
Confidence            999999999988886665554444 333568999999999998653333332     33333 56789999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy549          200 VQVFKELLAQAKVQ  213 (253)
Q Consensus       200 ~~l~~~l~~~~~~~  213 (253)
                      .+-++|++..+..+
T Consensus       167 ~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  167 LEGIDWLCDDLMSR  180 (185)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999988763

>cd01890 LepA LepA subfamily

Probab=99.91  E-value=3.3e-23  Score=160.08  Aligned_cols=154  Identities=15%  Similarity=0.241  Sum_probs=110.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC-------CCCCccccce-------eeeee--eEEc--CCCcEEEEEEEeCCCCCCCh
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR-------FISRYKETVE-------ELHRG--EYEL--PDGAQLTLDILDTSGAYQFP  112 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~-------~~~~~~~t~~-------~~~~~--~~~~--~~~~~~~~~l~D~~g~~~~~  112 (253)
                      +|+++|++++|||||+++|++..       +...+..+.+       .....  .+.+  .++..+.+.||||||++++.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            79999999999999999999742       1112211110       11111  1111  14566889999999999999


Q ss_pred             hhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCC---cEE
Q psy549          113 AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQC---GFV  189 (253)
Q Consensus       113 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~  189 (253)
                      ..+..+++.+|++|+|+|+++..++..+..|+... .   .++|+++|+||+|+.+.. .....+.+++. .+.   .++
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~-~---~~~~iiiv~NK~Dl~~~~-~~~~~~~~~~~-~~~~~~~~~  155 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL-E---NNLEIIPVINKIDLPSAD-PERVKQQIEDV-LGLDPSEAI  155 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH-H---cCCCEEEEEECCCCCcCC-HHHHHHHHHHH-hCCCcccEE
Confidence            99999999999999999999877766666554332 1   468999999999986532 22233444442 222   489


Q ss_pred             EeccCCCCCHHHHHHHHHHHH
Q psy549          190 ECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       190 ~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ++||++|.|++++|++|.+.+
T Consensus       156 ~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         156 LVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             EeeccCCCCHHHHHHHHHhhC
Confidence            999999999999999998764

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.91  E-value=1.5e-22  Score=152.31  Aligned_cols=157  Identities=25%  Similarity=0.376  Sum_probs=123.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccc-eeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETV-EELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+||+++|.+|+|||||++++.+..+...+..++ .+.....+.. ++..+.+.+||+||+.++..++......++.++.
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~   79 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEE-DGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLR   79 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEE-CCEEEEEEEEECCCcccchHHHHHHHhhhhEEEE
Confidence            3799999999999999999999988655444343 3555555666 6656789999999999999999888999999999


Q ss_pred             EEECCCh-hhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          128 VYAVDDA-STWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       128 v~d~~~~-~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      ++|.... .++.... .|...+......+.|+++|+||+|+............+.. ....+++++||+++.|+.++|++
T Consensus        80 ~~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~gv~~~~~~  158 (161)
T TIGR00231        80 VFDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAKLKTHVAFLFAK-LNGEPIIPLSAETGKNIDSAFKI  158 (161)
T ss_pred             EEEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcchhhHHHHHHHhh-ccCCceEEeecCCCCCHHHHHHH
Confidence            9999877 6666544 5665555544337899999999999776555555555555 55678999999999999999988


Q ss_pred             HH
Q psy549          206 LL  207 (253)
Q Consensus       206 l~  207 (253)
                      |-
T Consensus       159 l~  160 (161)
T TIGR00231       159 VE  160 (161)
T ss_pred             hh
Confidence            63

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.

>PTZ00099 rab6; Provisional

Probab=99.91  E-value=8.5e-23  Score=157.07  Aligned_cols=140  Identities=28%  Similarity=0.385  Sum_probs=119.0

Q ss_pred             CCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHh
Q psy549           72 DRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNK  150 (253)
Q Consensus        72 ~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  150 (253)
                      +.|...+.+|.+ ++....+.+ ++..+.+.||||+|++++..++..+++++|++|+|||++++.+|+.+..|+..+...
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~-~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~   81 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYL-DEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNE   81 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEE-CCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            346667777776 666667777 778899999999999999999999999999999999999999999999999988776


Q ss_pred             cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          151 RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       151 ~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ....+|+++|+||+|+... .+..+.+..++. ..+..+++|||++|.||+++|++|++.+.+.
T Consensus        82 ~~~~~piilVgNK~DL~~~~~v~~~e~~~~~~-~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~  144 (176)
T PTZ00099         82 RGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQ-EYNTMFHETSAKAGHNIKVLFKKIAAKLPNL  144 (176)
T ss_pred             cCCCCeEEEEEECcccccccCCCHHHHHHHHH-HcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            5567899999999999653 556666667766 5577899999999999999999999988553

>cd04155 Arl3 Arl3 subfamily

Probab=99.90  E-value=1.2e-22  Score=156.06  Aligned_cols=157  Identities=20%  Similarity=0.294  Sum_probs=115.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|||||||++++.+..+.. +.++.. .....+.+ ++  ..+.+||++|+..+...+..+++.+|+++
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~~-~~~t~g-~~~~~i~~-~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~ii   86 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDISH-ITPTQG-FNIKTVQS-DG--FKLNVWDIGGQRAIRPYWRNYFENTDCLI   86 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCcc-cCCCCC-cceEEEEE-CC--EEEEEEECCCCHHHHHHHHHHhcCCCEEE
Confidence            347999999999999999999999876532 222222 22234444 33  57899999999988888888999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHhc---CCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALYD---WQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~---~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|+|+.+..++.....|+..+... ...++|+++++||+|+.......+..+.+....   ...+++++||++|.|++++
T Consensus        87 ~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~~~  166 (173)
T cd04155          87 YVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAPAEEIAEALNLHDLRDRTWHIQACSAKTGEGLQEG  166 (173)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCCHHHHHHHcCCcccCCCeEEEEEeECCCCCCHHHH
Confidence            999999988888777776655542 234689999999999866432333333332111   1125789999999999999


Q ss_pred             HHHHHH
Q psy549          203 FKELLA  208 (253)
Q Consensus       203 ~~~l~~  208 (253)
                      |+||++
T Consensus       167 ~~~l~~  172 (173)
T cd04155         167 MNWVCK  172 (173)
T ss_pred             HHHHhc
Confidence            999975

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>cd01878 HflX HflX subfamily

Probab=99.90  E-value=9.5e-23  Score=160.91  Aligned_cols=157  Identities=17%  Similarity=0.151  Sum_probs=114.0

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC-h-hhH------HH
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF-P-AMR------EL  117 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~-~-~~~------~~  117 (253)
                      .+.++|+|+|++|||||||++++++..+ ......++.+.....+.+.+.  ..+.+|||||..+. . ...      ..
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~~~~  116 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG--REVLLTDTVGFIRDLPHQLVEAFRSTLE  116 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC--ceEEEeCCCccccCCCHHHHHHHHHHHH
Confidence            3458999999999999999999999774 333334444445555555332  26889999997432 1 111      11


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      .+..+|++++|+|++++.++.....|...+......++|+++|+||+|+.......    .... ....+++++||+++.
T Consensus       117 ~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~~----~~~~-~~~~~~~~~Sa~~~~  191 (204)
T cd01878         117 EVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEELE----ERLE-AGRPDAVFISAKTGE  191 (204)
T ss_pred             HHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHHH----HHhh-cCCCceEEEEcCCCC
Confidence            36689999999999998888777777776665544568999999999986642221    2222 456789999999999


Q ss_pred             CHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQA  210 (253)
Q Consensus       198 ~i~~l~~~l~~~~  210 (253)
                      |+.+++++|.+.+
T Consensus       192 gi~~l~~~L~~~~  204 (204)
T cd01878         192 GLDELLEAIEELL  204 (204)
T ss_pred             CHHHHHHHHHhhC
Confidence            9999999988653

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.90  E-value=3.8e-22  Score=167.23  Aligned_cols=160  Identities=17%  Similarity=0.121  Sum_probs=123.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh----hhHHHh---c
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP----AMRELS---I  119 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~----~~~~~~---~  119 (253)
                      -...|+|+|.||||||||+++|.+... +..++.|+.......+.+.+  ...+.+||+||..+..    .+...+   +
T Consensus       156 ~~adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~--~~~~~i~D~PGli~~a~~~~gLg~~flrhi  233 (329)
T TIGR02729       156 LLADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD--GRSFVIADIPGLIEGASEGAGLGHRFLKHI  233 (329)
T ss_pred             ccccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC--ceEEEEEeCCCcccCCcccccHHHHHHHHH
Confidence            446889999999999999999998663 56777888877777777733  2467999999975422    233333   4


Q ss_pred             ccCCEEEEEEECCCh---hhHHHHHHHHHHHHHhcC--CCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccC
Q psy549          120 STADAFVLVYAVDDA---STWDVVKDLREQIVNKRG--LMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      +.++++++|+|+++.   .+++.+..|.+++..+..  ..+|+++|+||+|+.......+..+.+.. ..+.+++++||+
T Consensus       234 erad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~~~~~~~~l~~-~~~~~vi~iSAk  312 (329)
T TIGR02729       234 ERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEELAELLKELKK-ALGKPVFPISAL  312 (329)
T ss_pred             HhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHHHHHHHHHHHH-HcCCcEEEEEcc
Confidence            579999999999976   677778888877766432  46899999999999776444555566665 345789999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q psy549          195 ENYNIVQVFKELLAQA  210 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~  210 (253)
                      ++.|+++++++|.+.+
T Consensus       313 tg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       313 TGEGLDELLYALAELL  328 (329)
T ss_pred             CCcCHHHHHHHHHHHh
Confidence            9999999999998765

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.90  E-value=5.1e-22  Score=158.35  Aligned_cols=167  Identities=25%  Similarity=0.349  Sum_probs=133.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+++|++|||||||+++|.++.+...+..|....+.......++..+.+.+|||+|+++|+.++..++.+++++++|
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~   84 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIV   84 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEE
Confidence            38999999999999999999999999888888877666655555455578899999999999999999999999999999


Q ss_pred             EECCC-hhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc-------------cHHHHHHHHHh--cCCCcEEEec
Q psy549          129 YAVDD-ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-------------RREIAETIALY--DWQCGFVECS  192 (253)
Q Consensus       129 ~d~~~-~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-------------~~~~~~~~~~~--~~~~~~~~~S  192 (253)
                      ||..+ ..+++....|...+........|+++|+||+|+.....             ...........  .....++++|
T Consensus        85 ~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  164 (219)
T COG1100          85 YDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETS  164 (219)
T ss_pred             EecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEee
Confidence            99999 45555577788887776656799999999999987621             11111111111  1233489999


Q ss_pred             cC--CCCCHHHHHHHHHHHHHHhcc
Q psy549          193 AK--ENYNIVQVFKELLAQAKVQYN  215 (253)
Q Consensus       193 a~--~~~~i~~l~~~l~~~~~~~~~  215 (253)
                      ++  .+.++.++|..+...+.....
T Consensus       165 ~~~~~~~~v~~~~~~~~~~~~~~~~  189 (219)
T COG1100         165 AKSLTGPNVNELFKELLRKLLEEIE  189 (219)
T ss_pred             cccCCCcCHHHHHHHHHHHHHHhhh
Confidence            99  999999999999998866533

>cd04171 SelB SelB subfamily

Probab=99.89  E-value=4.5e-22  Score=151.25  Aligned_cols=151  Identities=21%  Similarity=0.157  Sum_probs=103.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC---CCCCc-cccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR---FISRY-KETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~---~~~~~-~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      +.|+++|++|||||||+++|.+..   +...+ ..++.+.....+.+.++  ..+.+|||||+++|......+++++|++
T Consensus         1 ~~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~ad~i   78 (164)
T cd04171           1 MIIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSG--KRLGFIDVPGHEKFIKNMLAGAGGIDLV   78 (164)
T ss_pred             CEEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCC--cEEEEEECCChHHHHHHHHhhhhcCCEE
Confidence            368999999999999999999643   32222 23334444445555223  4789999999998877777788999999


Q ss_pred             EEEEECCC---hhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc----ccHHHHHHHHHh-cCCCcEEEeccCCCC
Q psy549          126 VLVYAVDD---ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD----VRREIAETIALY-DWQCGFVECSAKENY  197 (253)
Q Consensus       126 i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~~~~~~~~~~~-~~~~~~~~~Sa~~~~  197 (253)
                      ++|+|+++   ..++..+.    .+...  ...|+++|+||+|+.+..    ...+..+.+... ....+++++|++++.
T Consensus        79 i~V~d~~~~~~~~~~~~~~----~~~~~--~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  152 (164)
T cd04171          79 LLVVAADEGIMPQTREHLE----ILELL--GIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGE  152 (164)
T ss_pred             EEEEECCCCccHhHHHHHH----HHHHh--CCCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCc
Confidence            99999987   33332221    12111  124999999999987642    112223333321 146789999999999


Q ss_pred             CHHHHHHHHHH
Q psy549          198 NIVQVFKELLA  208 (253)
Q Consensus       198 ~i~~l~~~l~~  208 (253)
                      |++++++.+.+
T Consensus       153 ~v~~l~~~l~~  163 (164)
T cd04171         153 GIEELKEYLDE  163 (164)
T ss_pred             CHHHHHHHHhh
Confidence            99999998754

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.89  E-value=9.1e-23  Score=151.76  Aligned_cols=135  Identities=21%  Similarity=0.284  Sum_probs=97.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCC-----CChhhHHHhcccCCEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY-----QFPAMRELSISTADAF  125 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~-----~~~~~~~~~~~~~d~~  125 (253)
                      ||+++|++|||||||+++|.+..+.  +..|.      .+.+      .-.+|||||..     .+..+.. .++++|++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~--~~~t~------~~~~------~~~~iDt~G~~~~~~~~~~~~~~-~~~~ad~v   66 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL--YKKTQ------AVEY------NDGAIDTPGEYVENRRLYSALIV-TAADADVI   66 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc--cccce------eEEE------cCeeecCchhhhhhHHHHHHHHH-HhhcCCEE
Confidence            8999999999999999999987652  11221      1222      11689999973     2333333 47899999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      ++|||++++.++.. ..|....      ..|+++|+||+|+.+.....+..+.+.+.....+++++||++|.|++++|++
T Consensus        67 ilv~d~~~~~s~~~-~~~~~~~------~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  139 (142)
T TIGR02528        67 ALVQSATDPESRFP-PGFASIF------VKPVIGLVTKIDLAEADVDIERAKELLETAGAEPIFEISSVDEQGLEALVDY  139 (142)
T ss_pred             EEEecCCCCCcCCC-hhHHHhc------cCCeEEEEEeeccCCcccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHHH
Confidence            99999999988755 3343321      2499999999999765445555556555344458999999999999999998


Q ss_pred             HH
Q psy549          206 LL  207 (253)
Q Consensus       206 l~  207 (253)
                      ++
T Consensus       140 l~  141 (142)
T TIGR02528       140 LN  141 (142)
T ss_pred             Hh
Confidence            74

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.

>TIGR00436 era GTP-binding protein Era

Probab=99.89  E-value=7.3e-22  Score=162.19  Aligned_cols=153  Identities=20%  Similarity=0.190  Sum_probs=112.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh-h-------hHHHhcc
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP-A-------MRELSIS  120 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-~-------~~~~~~~  120 (253)
                      +|+++|.+|||||||+|+|++..+  ++..+.|+++........ ++  ..+.||||||..... .       ....++.
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~-~~--~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~   78 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTT-GA--SQIIFIDTPGFHEKKHSLNRLMMKEARSAIG   78 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEc-CC--cEEEEEECcCCCCCcchHHHHHHHHHHHHHh
Confidence            689999999999999999999875  466777888766655554 33  357899999976532 1       1234578


Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       121 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      ++|++++|+|+++..++.  ..++..+..   .+.|+++|+||+|+............+.......+++++||++|.|++
T Consensus        79 ~aDvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~v~~iSA~~g~gi~  153 (270)
T TIGR00436        79 GVDLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKFKDKLLPLIDKYAILEDFKDIVPISALTGDNTS  153 (270)
T ss_pred             hCCEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCCHHHHHHHHHHHHhhcCCCceEEEecCCCCCHH
Confidence            999999999999876654  333333333   468999999999987543333334444442333479999999999999


Q ss_pred             HHHHHHHHHHH
Q psy549          201 QVFKELLAQAK  211 (253)
Q Consensus       201 ~l~~~l~~~~~  211 (253)
                      ++++++.+.+.
T Consensus       154 ~L~~~l~~~l~  164 (270)
T TIGR00436       154 FLAAFIEVHLP  164 (270)
T ss_pred             HHHHHHHHhCC
Confidence            99999988763

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.89  E-value=9.2e-22  Score=166.28  Aligned_cols=154  Identities=18%  Similarity=0.189  Sum_probs=115.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC--ChhhHH------Hh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ--FPAMRE------LS  118 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~--~~~~~~------~~  118 (253)
                      ..++|+|+|.+|+|||||+|+|++... +.+...++.+.....+.++++.  .+.||||+|..+  ...+..      ..
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~~--~i~l~DT~G~~~~l~~~lie~f~~tle~  265 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDGG--EVLLTDTVGFIRDLPHELVAAFRATLEE  265 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCCc--eEEEEecCcccccCCHHHHHHHHHHHHH
Confidence            458999999999999999999999764 4566677788888888885553  678999999732  122212      24


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                      +.++|++++|+|++++.++..+..|...+......++|+++|+||+|+....   . ...+.  ....+++++||++|.|
T Consensus       266 ~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~---~-v~~~~--~~~~~~i~iSAktg~G  339 (351)
T TIGR03156       266 VREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEP---R-IERLE--EGYPEAVFVSAKTGEG  339 (351)
T ss_pred             HHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChH---h-HHHHH--hCCCCEEEEEccCCCC
Confidence            7789999999999998887776666655555444578999999999986431   1 11121  1234689999999999


Q ss_pred             HHHHHHHHHHH
Q psy549          199 IVQVFKELLAQ  209 (253)
Q Consensus       199 i~~l~~~l~~~  209 (253)
                      +++++++|.+.
T Consensus       340 I~eL~~~I~~~  350 (351)
T TIGR03156       340 LDLLLEAIAER  350 (351)
T ss_pred             HHHHHHHHHhh
Confidence            99999998764

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).

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.88  E-value=2.3e-21  Score=148.08  Aligned_cols=157  Identities=21%  Similarity=0.214  Sum_probs=108.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCcc-ccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYK-ETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      .|+|+|++|+|||||+++|....+..... .++.......+....+....+.+|||||++.|..++...+..+|++++|+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~   81 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVV   81 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEE
Confidence            58999999999999999999887644322 23333333344441123467899999999999988888899999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc--cHHHHHHHHH-----hcCCCcEEEeccCCCCCHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV--RREIAETIAL-----YDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      |+++......... +..+..   .++|+++|+||+|+.....  .......+..     .....+++++|+++|.|+.++
T Consensus        82 d~~~~~~~~~~~~-~~~~~~---~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  157 (168)
T cd01887          82 AADDGVMPQTIEA-IKLAKA---ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDL  157 (168)
T ss_pred             ECCCCccHHHHHH-HHHHHH---cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHH
Confidence            9988532222111 122222   5689999999999875321  1111111111     122468999999999999999


Q ss_pred             HHHHHHHHH
Q psy549          203 FKELLAQAK  211 (253)
Q Consensus       203 ~~~l~~~~~  211 (253)
                      +++|.+...
T Consensus       158 ~~~l~~~~~  166 (168)
T cd01887         158 LEAILLLAE  166 (168)
T ss_pred             HHHHHHhhh
Confidence            999988653

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.88  E-value=3.1e-21  Score=143.80  Aligned_cols=152  Identities=35%  Similarity=0.561  Sum_probs=119.3

Q ss_pred             EECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECC
Q psy549           54 VMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVD  132 (253)
Q Consensus        54 iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~  132 (253)
                      |+|++|+|||||++++.+... ......+..+.....+.. ......+.+||+||...+.......++.+|++++|+|++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTIIDFYSKTIEV-DGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccchhheeeEEEEE-CCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            589999999999999999876 444444545555556655 455678999999999988888888899999999999999


Q ss_pred             ChhhHHHHHHHH-HHHHHhcCCCCCEEEEEecCCCCCccccHHH--HHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          133 DASTWDVVKDLR-EQIVNKRGLMVPIVVVGNKCELEFKDVRREI--AETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       133 ~~~s~~~~~~~~-~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~--~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ++.++.....|+ .........++|+++|+||+|+.........  ...... ....+++++|+.++.|+.+++++|.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~-~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAK-ELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHh-hcCCcEEEEecCCCCChHHHHHHHh
Confidence            999888877762 3333345577999999999998765333332  233333 6678999999999999999999875

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

>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=99.88  E-value=4.2e-22  Score=148.25  Aligned_cols=147  Identities=20%  Similarity=0.277  Sum_probs=106.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH------HHh--cc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR------ELS--IS  120 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~------~~~--~~  120 (253)
                      ++|+++|.||||||||+|+|++.+. +.+++.+|.+...+.+.+ ++  ..+.++|+||...+....      ..+  ..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~-~~--~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~   77 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKL-GD--QQVELVDLPGIYSLSSKSEEERVARDYLLSE   77 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEE-TT--EEEEEEE----SSSSSSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEe-cC--ceEEEEECCCcccCCCCCcHHHHHHHHHhhc
Confidence            5899999999999999999999774 678889999988889988 44  467899999965432211      123  35


Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       121 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      ..|++++|.|+++.+   .-..+...+..   .++|+++|+||+|.....-..-..+.+.+ ..++|++++||+++.|++
T Consensus        78 ~~D~ii~VvDa~~l~---r~l~l~~ql~e---~g~P~vvvlN~~D~a~~~g~~id~~~Ls~-~Lg~pvi~~sa~~~~g~~  150 (156)
T PF02421_consen   78 KPDLIIVVVDATNLE---RNLYLTLQLLE---LGIPVVVVLNKMDEAERKGIEIDAEKLSE-RLGVPVIPVSARTGEGID  150 (156)
T ss_dssp             SSSEEEEEEEGGGHH---HHHHHHHHHHH---TTSSEEEEEETHHHHHHTTEEE-HHHHHH-HHTS-EEEEBTTTTBTHH
T ss_pred             CCCEEEEECCCCCHH---HHHHHHHHHHH---cCCCEEEEEeCHHHHHHcCCEECHHHHHH-HhCCCEEEEEeCCCcCHH
Confidence            799999999998743   21223333333   56999999999998766333334566666 568999999999999999


Q ss_pred             HHHHHH
Q psy549          201 QVFKEL  206 (253)
Q Consensus       201 ~l~~~l  206 (253)
                      ++++.|
T Consensus       151 ~L~~~I  156 (156)
T PF02421_consen  151 ELKDAI  156 (156)
T ss_dssp             HHHHHH
T ss_pred             HHHhhC
Confidence            999875

FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.88  E-value=3.5e-21  Score=145.51  Aligned_cols=147  Identities=20%  Similarity=0.254  Sum_probs=109.8

Q ss_pred             EECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh------hHHHhcc--cCCE
Q psy549           54 VMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA------MRELSIS--TADA  124 (253)
Q Consensus        54 iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~------~~~~~~~--~~d~  124 (253)
                      |+|.+|+|||||++++.+... ...++.++.+.....+.+ ++  ..+.+|||||+..+..      ++..++.  .+|+
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~   77 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKL-GG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDL   77 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEee-CC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcE
Confidence            589999999999999998763 455566677777777777 54  4789999999987654      3455554  8999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      +++|+|+.+....   ..|...+..   .++|+++|+||+|+.+........+.+.. ..+.+++++|+.++.|+.++++
T Consensus        78 vi~v~d~~~~~~~---~~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~-~~~~~~~~iSa~~~~~~~~l~~  150 (158)
T cd01879          78 IVNVVDATNLERN---LYLTLQLLE---LGLPVVVALNMIDEAEKRGIKIDLDKLSE-LLGVPVVPTSARKGEGIDELKD  150 (158)
T ss_pred             EEEEeeCCcchhH---HHHHHHHHH---cCCCEEEEEehhhhcccccchhhHHHHHH-hhCCCeEEEEccCCCCHHHHHH
Confidence            9999999876432   233333332   46899999999999765332333445555 4567899999999999999999


Q ss_pred             HHHHHH
Q psy549          205 ELLAQA  210 (253)
Q Consensus       205 ~l~~~~  210 (253)
                      ++.+.+
T Consensus       151 ~l~~~~  156 (158)
T cd01879         151 AIAELA  156 (158)
T ss_pred             HHHHHh
Confidence            988764

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.88  E-value=3.9e-21  Score=166.95  Aligned_cols=154  Identities=25%  Similarity=0.350  Sum_probs=120.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH--------
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR--------  115 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~--------  115 (253)
                      ....++|+++|++|||||||+|+|++..  ++..++.|+.+.....+.+ ++  +.+.+|||||..++....        
T Consensus       200 ~~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~-~g--~~v~l~DTaG~~~~~~~ie~~gi~~~  276 (442)
T TIGR00450       200 LDDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFEL-NG--ILIKLLDTAGIREHADFVERLGIEKS  276 (442)
T ss_pred             hhcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEE-CC--EEEEEeeCCCcccchhHHHHHHHHHH
Confidence            3566899999999999999999999865  5677888888888888888 65  456899999987665432        


Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          116 ELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       116 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      ..+++.+|++++|+|++++.++...  |+..+..   .++|+++|+||+|+....     .+.+.. ..+.+++++|+++
T Consensus       277 ~~~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~~~-----~~~~~~-~~~~~~~~vSak~  345 (442)
T TIGR00450       277 FKAIKQADLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKINS-----LEFFVS-SKVLNSSNLSAKQ  345 (442)
T ss_pred             HHHHhhCCEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCCcc-----hhhhhh-hcCCceEEEEEec
Confidence            2467899999999999998877654  6554432   468999999999986531     123333 4567889999998


Q ss_pred             CCCHHHHHHHHHHHHHHhc
Q psy549          196 NYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~~~~  214 (253)
                       .||.++|+.+.+.+....
T Consensus       346 -~gI~~~~~~L~~~i~~~~  363 (442)
T TIGR00450       346 -LKIKALVDLLTQKINAFY  363 (442)
T ss_pred             -CCHHHHHHHHHHHHHHHh
Confidence             699999999999887653

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.88  E-value=2.2e-21  Score=170.85  Aligned_cols=158  Identities=23%  Similarity=0.263  Sum_probs=118.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCC----------CChhhH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY----------QFPAMR  115 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~----------~~~~~~  115 (253)
                      ..++|+|+|.+|||||||+|+|++...  +...+.++.+.....+.+ ++.  .+.+|||||..          .|..+.
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~-~~~--~~~l~DTaG~~~~~~~~~~~e~~~~~~  286 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIEL-GGK--TWRFVDTAGLRRRVKQASGHEYYASLR  286 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEE-CCE--EEEEEECCCccccccccchHHHHHHHH
Confidence            468999999999999999999999764  566778888888777877 654  45799999953          233332


Q ss_pred             -HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcccc----HHHHHHHHHhcCCCcEEE
Q psy549          116 -ELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR----REIAETIALYDWQCGFVE  190 (253)
Q Consensus       116 -~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~  190 (253)
                       ..+++.+|++++|+|++++.++..+. ++..+..   .++|+++|+||+|+......    .+..+.+.. ....++++
T Consensus       287 ~~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~-~~~~~~~~  361 (472)
T PRK03003        287 THAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLVDEDRRYYLEREIDRELAQ-VPWAPRVN  361 (472)
T ss_pred             HHHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChhHHHHHHHHHHHhccc-CCCCCEEE
Confidence             23578999999999999988877753 3443333   56899999999999753211    122222332 34478999


Q ss_pred             eccCCCCCHHHHHHHHHHHHHHh
Q psy549          191 CSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      +||++|.|++++|+.+.+.+...
T Consensus       362 ~SAk~g~gv~~lf~~i~~~~~~~  384 (472)
T PRK03003        362 ISAKTGRAVDKLVPALETALESW  384 (472)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999999877544

>PRK15494 era GTPase Era; Provisional

Probab=99.88  E-value=8.1e-21  Score=160.29  Aligned_cols=157  Identities=18%  Similarity=0.280  Sum_probs=111.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCC--CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC-ChhhHH-------
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFI--SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ-FPAMRE-------  116 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~-~~~~~~-------  116 (253)
                      ...++|+++|.+|||||||+|+|++..+.  +....|+.+...+.+.. ++  ..+.||||||..+ +..+..       
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~-~~--~qi~~~DTpG~~~~~~~l~~~~~r~~~  126 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITL-KD--TQVILYDTPGIFEPKGSLEKAMVRCAW  126 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEe-CC--eEEEEEECCCcCCCcccHHHHHHHHHH
Confidence            45679999999999999999999998763  44556777777777777 44  3679999999854 332222       


Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHH-HHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          117 LSISTADAFVLVYAVDDASTWDVVKD-LREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       117 ~~~~~~d~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      ..+.++|++++|+|..+  ++..... |+..+..   .+.|+++|+||+|+... ...+..+.+........++++||++
T Consensus       127 ~~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~---~~~p~IlViNKiDl~~~-~~~~~~~~l~~~~~~~~i~~iSAkt  200 (339)
T PRK15494        127 SSLHSADLVLLIIDSLK--SFDDITHNILDKLRS---LNIVPIFLLNKIDIESK-YLNDIKAFLTENHPDSLLFPISALS  200 (339)
T ss_pred             HHhhhCCEEEEEEECCC--CCCHHHHHHHHHHHh---cCCCEEEEEEhhcCccc-cHHHHHHHHHhcCCCcEEEEEeccC
Confidence            24678999999999765  3444433 4443333   34678899999998653 2233333333322346799999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQAKV  212 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~~  212 (253)
                      |.|++++|++|.+.+..
T Consensus       201 g~gv~eL~~~L~~~l~~  217 (339)
T PRK15494        201 GKNIDGLLEYITSKAKI  217 (339)
T ss_pred             ccCHHHHHHHHHHhCCC
Confidence            99999999999887744

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.87  E-value=3.1e-21  Score=148.39  Aligned_cols=153  Identities=22%  Similarity=0.267  Sum_probs=110.9

Q ss_pred             EECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC----hhh---HHHhcccCCEE
Q psy549           54 VMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF----PAM---RELSISTADAF  125 (253)
Q Consensus        54 iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~----~~~---~~~~~~~~d~~  125 (253)
                      |+|++|||||||+++|.+... ...+..++.......+.+.++  ..+.+||+||..+.    ..+   ....++.+|++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~i   78 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVPDG--ARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAI   78 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcCCC--CeEEEEeccccchhhhcCCCccHHHHHHHhccCEE
Confidence            589999999999999999874 455566666666666666224  46799999996431    122   23357789999


Q ss_pred             EEEEECCCh------hhHHHHHHHHHHHHHhcC-------CCCCEEEEEecCCCCCccccHHH-HHHHHHhcCCCcEEEe
Q psy549          126 VLVYAVDDA------STWDVVKDLREQIVNKRG-------LMVPIVVVGNKCELEFKDVRREI-AETIALYDWQCGFVEC  191 (253)
Q Consensus       126 i~v~d~~~~------~s~~~~~~~~~~~~~~~~-------~~~piilv~nK~Dl~~~~~~~~~-~~~~~~~~~~~~~~~~  191 (253)
                      ++|+|+.+.      .++.....|...+.....       .++|+++|+||+|+......... ...... .+..+++++
T Consensus        79 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~  157 (176)
T cd01881          79 LHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELAL-EEGAEVVPI  157 (176)
T ss_pred             EEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhc-CCCCCEEEE
Confidence            999999988      467777777766654332       36899999999998765322222 222222 567789999


Q ss_pred             ccCCCCCHHHHHHHHHHH
Q psy549          192 SAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       192 Sa~~~~~i~~l~~~l~~~  209 (253)
                      |++++.|+++++++++..
T Consensus       158 Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         158 SAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             ehhhhcCHHHHHHHHHhh
Confidence            999999999999998764

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

>KOG0070|consensus

Probab=99.87  E-value=1.5e-21  Score=145.34  Aligned_cols=162  Identities=15%  Similarity=0.226  Sum_probs=129.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...+.+|+++|..++||||++++|..+++... .+|. .+....+.+.   .+.|++||..|+++++.+|..++++.+++
T Consensus        14 ~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTi-GfnVE~v~yk---n~~f~vWDvGGq~k~R~lW~~Y~~~t~~l   88 (181)
T KOG0070|consen   14 GKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTI-GFNVETVEYK---NISFTVWDVGGQEKLRPLWKHYFQNTQGL   88 (181)
T ss_pred             CcceEEEEEEeccCCCceeeeEeeccCCcccC-CCcc-ccceeEEEEc---ceEEEEEecCCCcccccchhhhccCCcEE
Confidence            46789999999999999999999999888655 3443 3444444452   47899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~  201 (253)
                      |||.|.+|++-+......+..+..... .+.|+++++||.|+++.-...++.+.+...   .....+..|+|.+|.|+.|
T Consensus        89 IfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~e  168 (181)
T KOG0070|consen   89 IFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALSAAEITNKLGLHSLRSRNWHIQSTCAISGEGLYE  168 (181)
T ss_pred             EEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCCHHHHHhHhhhhccCCCCcEEeeccccccccHHH
Confidence            999999999888776666655555333 468999999999999875555555555542   2345577899999999999


Q ss_pred             HHHHHHHHHHH
Q psy549          202 VFKELLAQAKV  212 (253)
Q Consensus       202 l~~~l~~~~~~  212 (253)
                      .++|+.+.+..
T Consensus       169 gl~wl~~~~~~  179 (181)
T KOG0070|consen  169 GLDWLSNNLKK  179 (181)
T ss_pred             HHHHHHHHHhc
Confidence            99999998854

>KOG3883|consensus

Probab=99.87  E-value=1.2e-20  Score=135.33  Aligned_cols=165  Identities=28%  Similarity=0.351  Sum_probs=142.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC-hhhHHHhcccCCE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF-PAMRELSISTADA  124 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~-~~~~~~~~~~~d~  124 (253)
                      ...||+++|-.++|||++++.++-+.  ....+.+|.++.+...+..++|..-.+.|+||.|...+ ..+-..++.-+|+
T Consensus         8 k~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDa   87 (198)
T KOG3883|consen    8 KVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADA   87 (198)
T ss_pred             cceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCce
Confidence            45799999999999999999999655  35677788899999999987777778999999998887 5666778899999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +++||+..+++||+.++.+...+....+ ..+||++++||+|+.+. ++....+..+++ ...+..+++++.+...+.+.
T Consensus        88 fVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~-rEkvkl~eVta~dR~sL~ep  166 (198)
T KOG3883|consen   88 FVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAK-REKVKLWEVTAMDRPSLYEP  166 (198)
T ss_pred             EEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHh-hhheeEEEEEeccchhhhhH
Confidence            9999999999999998877777777433 44999999999999766 788889999998 77889999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy549          203 FKELLAQAKVQ  213 (253)
Q Consensus       203 ~~~l~~~~~~~  213 (253)
                      |..++..+..-
T Consensus       167 f~~l~~rl~~p  177 (198)
T KOG3883|consen  167 FTYLASRLHQP  177 (198)
T ss_pred             HHHHHHhccCC
Confidence            99999888543

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.87  E-value=8.6e-21  Score=143.02  Aligned_cols=145  Identities=23%  Similarity=0.255  Sum_probs=110.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh--------HHHhc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM--------RELSI  119 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~--------~~~~~  119 (253)
                      ++|+++|++|+|||||++++.+...  ....+.++.+.....+.. ++  ..+.+|||||..++...        ....+
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~   78 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDI-GG--IPVRLIDTAGIRETEDEIEKIGIERAREAI   78 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEe-CC--EEEEEEECCCcCCCcchHHHHHHHHHHHHH
Confidence            6899999999999999999998764  344555655665556655 43  56899999998765432        22467


Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      ..+|++++|+|++++.+......+..      ....|+++|+||+|+.+....      ... .+..+++++||+++.|+
T Consensus        79 ~~~~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~~~~------~~~-~~~~~~~~~Sa~~~~~v  145 (157)
T cd04164          79 EEADLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPDSEL------LSL-LAGKPIIAISAKTGEGL  145 (157)
T ss_pred             hhCCEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCcccc------ccc-cCCCceEEEECCCCCCH
Confidence            78999999999998777666444333      356899999999998765332      222 56788999999999999


Q ss_pred             HHHHHHHHHHH
Q psy549          200 VQVFKELLAQA  210 (253)
Q Consensus       200 ~~l~~~l~~~~  210 (253)
                      .+++++|...+
T Consensus       146 ~~l~~~l~~~~  156 (157)
T cd04164         146 DELKEALLELA  156 (157)
T ss_pred             HHHHHHHHHhh
Confidence            99999988764

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.87  E-value=3.9e-21  Score=167.77  Aligned_cols=148  Identities=24%  Similarity=0.255  Sum_probs=117.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH--------HH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR--------EL  117 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~--------~~  117 (253)
                      ..++|+++|.+|+|||||+|+|++..  ++.+.+.++.+.....+.+ ++  ..+.+|||||..++....        ..
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~-~g--~~i~l~DT~G~~~~~~~ie~~gi~~~~~  290 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINL-DG--IPLRLIDTAGIRETDDEVEKIGIERSRE  290 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEE-CC--eEEEEEeCCCCCCCccHHHHHHHHHHHH
Confidence            45899999999999999999999876  4677788888888888887 55  467899999987655432        23


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      .+..+|++++|+|++++.++.....|..      ..++|+++|+||+|+.......       . ....+++++|+++|.
T Consensus       291 ~~~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~~~~~-------~-~~~~~~i~iSAktg~  356 (449)
T PRK05291        291 AIEEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGEIDLE-------E-ENGKPVIRISAKTGE  356 (449)
T ss_pred             HHHhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhccccchhh-------h-ccCCceEEEEeeCCC
Confidence            5788999999999999887765443432      3568999999999986532211       2 455689999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQAKV  212 (253)
Q Consensus       198 ~i~~l~~~l~~~~~~  212 (253)
                      |+++++++|.+.+..
T Consensus       357 GI~~L~~~L~~~l~~  371 (449)
T PRK05291        357 GIDELREAIKELAFG  371 (449)
T ss_pred             CHHHHHHHHHHHHhh
Confidence            999999999998854

>PRK04213 GTP-binding protein; Provisional

Probab=99.87  E-value=7.3e-22  Score=155.49  Aligned_cols=153  Identities=20%  Similarity=0.157  Sum_probs=97.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCC-ccccceeeeeeeEEcCCCcEEEEEEEeCCC-----------CCCChhh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISR-YKETVEELHRGEYELPDGAQLTLDILDTSG-----------AYQFPAM  114 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g-----------~~~~~~~  114 (253)
                      ...++|+++|++|||||||+++|.+..+... .+.++.  ....+.+ +    .+.+|||||           ++.+...
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t~--~~~~~~~-~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~   79 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVTR--KPNHYDW-G----DFILTDLPGFGFMSGVPKEVQEKIKDE   79 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCceee--CceEEee-c----ceEEEeCCccccccccCHHHHHHHHHH
Confidence            3468999999999999999999998776432 222222  2223333 2    578999999           3455555


Q ss_pred             HHHhcc----cCCEEEEEEECCChhhHHHHHHHH---------HHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHH
Q psy549          115 RELSIS----TADAFVLVYAVDDASTWDVVKDLR---------EQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL  181 (253)
Q Consensus       115 ~~~~~~----~~d~~i~v~d~~~~~s~~~~~~~~---------~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~  181 (253)
                      +..++.    .++++++|+|..+...+  ...|.         ..+......++|+++|+||+|+.+..  .+....+..
T Consensus        80 ~~~~~~~~~~~~~~vi~v~d~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~~~--~~~~~~~~~  155 (201)
T PRK04213         80 IVRYIEDNADRILAAVLVVDGKSFIEI--IERWEGRGEIPIDVEMFDFLRELGIPPIVAVNKMDKIKNR--DEVLDEIAE  155 (201)
T ss_pred             HHHHHHhhhhhheEEEEEEeCcccccc--ccccccCCCcHHHHHHHHHHHHcCCCeEEEEECccccCcH--HHHHHHHHH
Confidence            555554    35677888877542211  01110         00111112468999999999986543  223334333


Q ss_pred             hcC--------CCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          182 YDW--------QCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       182 ~~~--------~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      ...        ..+++++||++| |++++|++|++.+.
T Consensus       156 ~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~  192 (201)
T PRK04213        156 RLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLH  192 (201)
T ss_pred             HhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhc
Confidence            111        125899999999 99999999998764

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.87  E-value=6.5e-21  Score=149.28  Aligned_cols=148  Identities=16%  Similarity=0.210  Sum_probs=100.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh--CCCCCCcc------------ccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY--DRFISRYK------------ETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAM  114 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~--~~~~~~~~------------~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~  114 (253)
                      .+|+++|++++|||||+++|+.  +.+...+.            .+.. ........+ +...+.+.+|||||+++|...
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~-~~~~~~~~l~DtpG~~~~~~~   81 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAV-TYKDTKINIVDTPGHADFGGE   81 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEE-EECCEEEEEEECCCcHHHHHH
Confidence            4899999999999999999997  44533321            0111 222233333 344578999999999999999


Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc---cHHHHHHHHHh-----cCCC
Q psy549          115 RELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV---RREIAETIALY-----DWQC  186 (253)
Q Consensus       115 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~---~~~~~~~~~~~-----~~~~  186 (253)
                      +..+++.+|++++|+|+++.. +.....++..+..   .++|+++|+||+|+.....   ..+..+.+...     ..++
T Consensus        82 ~~~~~~~~d~~ilV~d~~~~~-~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (194)
T cd01891          82 VERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDF  157 (194)
T ss_pred             HHHHHHhcCEEEEEEECCCCc-cHHHHHHHHHHHH---cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCcc
Confidence            999999999999999998743 2222333333322   4689999999999865421   12222222211     2367


Q ss_pred             cEEEeccCCCCCHHHH
Q psy549          187 GFVECSAKENYNIVQV  202 (253)
Q Consensus       187 ~~~~~Sa~~~~~i~~l  202 (253)
                      +++++||++|.|+.++
T Consensus       158 ~iv~~Sa~~g~~~~~~  173 (194)
T cd01891         158 PVLYASAKNGWASLNL  173 (194)
T ss_pred             CEEEeehhcccccccc
Confidence            8999999999877443

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

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.86  E-value=2e-20  Score=159.93  Aligned_cols=163  Identities=15%  Similarity=0.147  Sum_probs=122.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh----hH---HHhcc
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA----MR---ELSIS  120 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----~~---~~~~~  120 (253)
                      ...|+|+|.||||||||+|+|++.+. ++.++.||.......+.+.+++  .+.|+|+||..+-..    +.   ...++
T Consensus       159 iadValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~~~--~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~  236 (390)
T PRK12298        159 LADVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDDER--SFVVADIPGLIEGASEGAGLGIRFLKHLE  236 (390)
T ss_pred             cccEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeCCCc--EEEEEeCCCccccccchhhHHHHHHHHHH
Confidence            34799999999999999999998664 6788899998888888884443  478999999764221    11   22477


Q ss_pred             cCCEEEEEEECC---ChhhHHHHHHHHHHHHHhcC--CCCCEEEEEecCCCCCccccHHHHHHHHHh-cCCCcEEEeccC
Q psy549          121 TADAFVLVYAVD---DASTWDVVKDLREQIVNKRG--LMVPIVVVGNKCELEFKDVRREIAETIALY-DWQCGFVECSAK  194 (253)
Q Consensus       121 ~~d~~i~v~d~~---~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~  194 (253)
                      .+|++++|+|++   +...+.....|...+.....  ...|+++|+||+|+.......+..+.+... .+..+++++||+
T Consensus       237 radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el~~~l~~l~~~~~~~~~Vi~ISA~  316 (390)
T PRK12298        237 RCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEAEERAKAIVEALGWEGPVYLISAA  316 (390)
T ss_pred             hCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHHHHHHHHHHHHhCCCCCEEEEECC
Confidence            899999999988   45566667777777666432  358999999999987653333444445442 223478999999


Q ss_pred             CCCCHHHHHHHHHHHHHHh
Q psy549          195 ENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~~~~  213 (253)
                      ++.|+++++++|.+.+.+.
T Consensus       317 tg~GIdeLl~~I~~~L~~~  335 (390)
T PRK12298        317 SGLGVKELCWDLMTFIEEN  335 (390)
T ss_pred             CCcCHHHHHHHHHHHhhhC
Confidence            9999999999999988654

>cd01894 EngA1 EngA1 subfamily

Probab=99.86  E-value=1.3e-20  Score=142.05  Aligned_cols=147  Identities=20%  Similarity=0.204  Sum_probs=105.6

Q ss_pred             EEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh--------hHHHhcccC
Q psy549           53 VVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA--------MRELSISTA  122 (253)
Q Consensus        53 ~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~--------~~~~~~~~~  122 (253)
                      +++|.+|+|||||+++|.+..  +....++++.+........ ++  ..+.+|||||...+..        .....++.+
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~   77 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEW-GG--REFILIDTGGIEPDDEGISKEIREQAELAIEEA   77 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEE-CC--eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhC
Confidence            479999999999999999875  3455566666666666666 33  5789999999988654        233467889


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      |++++|+|..+..+.... .+...+..   .+.|+++|+||+|+......   ...+.. ....+++++|++++.|++++
T Consensus        78 d~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~~~~---~~~~~~-~~~~~~~~~Sa~~~~gv~~l  149 (157)
T cd01894          78 DVILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKEEDE---AAEFYS-LGFGEPIPISAEHGRGIGDL  149 (157)
T ss_pred             CEEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCChHHH---HHHHHh-cCCCCeEEEecccCCCHHHH
Confidence            999999999876544332 12222222   34899999999998764322   223332 22237899999999999999


Q ss_pred             HHHHHHHH
Q psy549          203 FKELLAQA  210 (253)
Q Consensus       203 ~~~l~~~~  210 (253)
                      |+++++.+
T Consensus       150 ~~~l~~~~  157 (157)
T cd01894         150 LDAILELL  157 (157)
T ss_pred             HHHHHhhC
Confidence            99998753

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.

>cd01889 SelB_euk SelB subfamily

Probab=99.86  E-value=9.4e-21  Score=148.11  Aligned_cols=157  Identities=17%  Similarity=0.106  Sum_probs=103.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC----CCCCC----ccccceeeeeeeEEcC-----------CCcEEEEEEEeCCCCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD----RFISR----YKETVEELHRGEYELP-----------DGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~----~~~~~----~~~t~~~~~~~~~~~~-----------~~~~~~~~l~D~~g~~~  110 (253)
                      ++|+++|++++|||||+++|+..    .+...    ...++.+.....+.+.           ++..+.+.+|||||+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            58999999999999999999972    12111    1123333333333331           23357889999999866


Q ss_pred             ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc----cHHHHHHHHHh----
Q psy549          111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV----RREIAETIALY----  182 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~~~~~~~~----  182 (253)
                      +..........+|++++|+|+.+.........+..  ...  .+.|+++|+||+|+.....    ..+..+.+...    
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~--~~~--~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~  156 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVI--GEI--LCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKT  156 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHH--HHH--cCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            54444445567899999999988654443333221  111  2579999999999874321    22222222221    


Q ss_pred             -cCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          183 -DWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       183 -~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                       ..+++++++||++|.|++++++++..++
T Consensus       157 ~~~~~~vi~iSa~~g~gi~~L~~~l~~~~  185 (192)
T cd01889         157 RFKNSPIIPVSAKPGGGEAELGKDLNNLI  185 (192)
T ss_pred             CcCCCCEEEEeccCCCCHHHHHHHHHhcc
Confidence             2467899999999999999999998877

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

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.86  E-value=6.4e-20  Score=157.65  Aligned_cols=158  Identities=19%  Similarity=0.168  Sum_probs=120.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC----hhhHHHh---ccc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF----PAMRELS---IST  121 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~----~~~~~~~---~~~  121 (253)
                      ..|+|+|.||||||||+++|++.+. +.+++.|+.......+.+.++  ..+.+||+||..+.    ..+...+   ++.
T Consensus       159 adVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~~~--~~~~laD~PGliega~~~~gLg~~fLrhier  236 (424)
T PRK12297        159 ADVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDDG--RSFVMADIPGLIEGASEGVGLGHQFLRHIER  236 (424)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEeCC--ceEEEEECCCCcccccccchHHHHHHHHHhh
Confidence            4899999999999999999998764 467788888777777777323  46889999997542    2233333   456


Q ss_pred             CCEEEEEEECCCh---hhHHHHHHHHHHHHHhcC--CCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          122 ADAFVLVYAVDDA---STWDVVKDLREQIVNKRG--LMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       122 ~d~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      ++++|+|+|+++.   .+++....|...+..+..  ..+|+++|+||+|+...   .+..+.+.. ....+++++||+++
T Consensus       237 ~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~---~e~l~~l~~-~l~~~i~~iSA~tg  312 (424)
T PRK12297        237 TRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA---EENLEEFKE-KLGPKVFPISALTG  312 (424)
T ss_pred             CCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC---HHHHHHHHH-HhCCcEEEEeCCCC
Confidence            9999999999864   567777777777776432  46899999999998532   233444554 23378999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy549          197 YNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       197 ~~i~~l~~~l~~~~~~~  213 (253)
                      .|+++++++|.+.+...
T Consensus       313 eGI~eL~~~L~~~l~~~  329 (424)
T PRK12297        313 QGLDELLYAVAELLEET  329 (424)
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999887654

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.86  E-value=3.3e-20  Score=162.27  Aligned_cols=160  Identities=19%  Similarity=0.219  Sum_probs=117.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH---------
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR---------  115 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~---------  115 (253)
                      ...++|+++|.+|+|||||+|+|++..  .....+.|+.+.....+.. ++.  .+.+|||||..++....         
T Consensus       170 ~~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~-~~~--~~~liDT~G~~~~~~~~~~~e~~~~~  246 (429)
T TIGR03594       170 DGPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFER-NGK--KYLLIDTAGIRRKGKVTEGVEKYSVL  246 (429)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEE-CCc--EEEEEECCCccccccchhhHHHHHHH
Confidence            356899999999999999999999866  3566777877777777766 554  67899999976543221         


Q ss_pred             --HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC-ccccHHHHHHHHHh---cCCCcEE
Q psy549          116 --ELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-KDVRREIAETIALY---DWQCGFV  189 (253)
Q Consensus       116 --~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~---~~~~~~~  189 (253)
                        ...++.+|++++|+|++++.+..... ++..+..   .++|+++|+||+|+.. .....+....+...   ...++++
T Consensus       247 ~~~~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~~---~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~vi  322 (429)
T TIGR03594       247 RTLKAIERADVVLLVLDATEGITEQDLR-IAGLILE---AGKALVIVVNKWDLVKDEKTREEFKKELRRKLPFLDFAPIV  322 (429)
T ss_pred             HHHHHHHhCCEEEEEEECCCCccHHHHH-HHHHHHH---cCCcEEEEEECcccCCCHHHHHHHHHHHHHhcccCCCCceE
Confidence              23678899999999999987766543 3333332   4589999999999872 22222233333321   2357899


Q ss_pred             EeccCCCCCHHHHHHHHHHHHHHh
Q psy549          190 ECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       190 ~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ++||++|.|+.++|+++.+.....
T Consensus       323 ~~SA~~g~~v~~l~~~i~~~~~~~  346 (429)
T TIGR03594       323 FISALTGQGVDKLLDAIDEVYENA  346 (429)
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHh
Confidence            999999999999999999877654

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.86  E-value=2.3e-20  Score=164.50  Aligned_cols=154  Identities=20%  Similarity=0.222  Sum_probs=113.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC--------ChhhHHH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ--------FPAMREL  117 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~--------~~~~~~~  117 (253)
                      ..++|+|+|.+|||||||+|+|++...  ....+.++.+.....+.+ ++.  .+.+|||||.+.        +......
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~-~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~  113 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEW-NGR--RFTVVDTGGWEPDAKGLQASVAEQAEV  113 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEE-CCc--EEEEEeCCCcCCcchhHHHHHHHHHHH
Confidence            347999999999999999999998763  455666667777777777 543  578999999763        2333445


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      +++.+|++|+|+|+++..++.. ..+...+..   .++|+++|+||+|+....  .+..+.+.. ..+. ++++||++|.
T Consensus       114 ~~~~aD~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~~~--~~~~~~~~~-g~~~-~~~iSA~~g~  185 (472)
T PRK03003        114 AMRTADAVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDERGE--ADAAALWSL-GLGE-PHPVSALHGR  185 (472)
T ss_pred             HHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCccc--hhhHHHHhc-CCCC-eEEEEcCCCC
Confidence            7889999999999998866543 334443332   568999999999986432  222222222 3333 4799999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQAKV  212 (253)
Q Consensus       198 ~i~~l~~~l~~~~~~  212 (253)
                      |++++|+++++.+..
T Consensus       186 gi~eL~~~i~~~l~~  200 (472)
T PRK03003        186 GVGDLLDAVLAALPE  200 (472)
T ss_pred             CcHHHHHHHHhhccc
Confidence            999999999988754

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.86  E-value=3.5e-20  Score=144.08  Aligned_cols=153  Identities=18%  Similarity=0.210  Sum_probs=108.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccc-----------------cceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKE-----------------TVEELHRGEYELPDGAQLTLDILDTSGAYQFPA  113 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~-----------------t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~  113 (253)
                      +|+|+|.+|+|||||+++|++.........                 ++.......+..   ....+.+||+||...+..
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~liDtpG~~~~~~   77 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEW---PDRRVNFIDTPGHEDFSS   77 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEee---CCEEEEEEeCCCcHHHHH
Confidence            589999999999999999998766433211                 111222222222   245789999999999888


Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc----cHHHHHHHHHh-------
Q psy549          114 MRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV----RREIAETIALY-------  182 (253)
Q Consensus       114 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~~~~~~~~-------  182 (253)
                      .+..+++.+|++++|+|+.++..... ..++..+..   .+.|+++|+||+|+.....    .....+.+...       
T Consensus        78 ~~~~~~~~~d~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (189)
T cd00881          78 EVIRGLSVSDGAILVVDANEGVQPQT-REHLRIARE---GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKE  153 (189)
T ss_pred             HHHHHHHhcCEEEEEEECCCCCcHHH-HHHHHHHHH---CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhh
Confidence            88889999999999999988765433 233333322   5689999999999876321    11222222221       


Q ss_pred             -----cCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          183 -----DWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       183 -----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                           ....+++++|+++|.|+.+++++|.+.+
T Consensus       154 ~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         154 EGTRNGLLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             hhcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence                 2367899999999999999999998876

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.86  E-value=3.1e-20  Score=161.53  Aligned_cols=163  Identities=17%  Similarity=0.104  Sum_probs=119.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh----hhH---HHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP----AMR---ELS  118 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~----~~~---~~~  118 (253)
                      +....|+|+|.||||||||+|+|.+... +.+++.||.......+.+ ++  ..|.|||+||..+..    .+.   ...
T Consensus       157 k~~adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~-~~--~~f~laDtPGliegas~g~gLg~~fLrh  233 (500)
T PRK12296        157 KSVADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQA-GD--TRFTVADVPGLIPGASEGKGLGLDFLRH  233 (500)
T ss_pred             cccceEEEEEcCCCCHHHHHHHHhcCCccccccCcccccceEEEEEE-CC--eEEEEEECCCCccccchhhHHHHHHHHH
Confidence            4556899999999999999999998664 577888888888888877 33  478999999964321    121   224


Q ss_pred             cccCCEEEEEEECCCh----hhHHHHHHHHHHHHHhc-----------CCCCCEEEEEecCCCCCcccc-HHHHHHHHHh
Q psy549          119 ISTADAFVLVYAVDDA----STWDVVKDLREQIVNKR-----------GLMVPIVVVGNKCELEFKDVR-REIAETIALY  182 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~----~s~~~~~~~~~~~~~~~-----------~~~~piilv~nK~Dl~~~~~~-~~~~~~~~~~  182 (253)
                      ++.+|++|+|+|+++.    ..+..+..+..++..+.           ....|+++|+||+|+.+.... ......+.. 
T Consensus       234 ieradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~e~l~~~l~~-  312 (500)
T PRK12296        234 IERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELAEFVRPELEA-  312 (500)
T ss_pred             HHhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHHHHHHHHHHH-
Confidence            5779999999999753    34555555555554432           135899999999999754222 222223333 


Q ss_pred             cCCCcEEEeccCCCCCHHHHHHHHHHHHHHhc
Q psy549          183 DWQCGFVECSAKENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       183 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  214 (253)
                       .+++++++||+++.|+++++.+|.+.+....
T Consensus       313 -~g~~Vf~ISA~tgeGLdEL~~~L~ell~~~r  343 (500)
T PRK12296        313 -RGWPVFEVSAASREGLRELSFALAELVEEAR  343 (500)
T ss_pred             -cCCeEEEEECCCCCCHHHHHHHHHHHHHhhh
Confidence             3578999999999999999999999886643

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.85  E-value=3e-20  Score=140.64  Aligned_cols=143  Identities=14%  Similarity=0.176  Sum_probs=97.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH----HHhcccCCEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR----ELSISTADAFV  126 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~----~~~~~~~d~~i  126 (253)
                      +|+++|.+|+|||||+|++.+.....        .....+.+ ++.    .+||+||.......+    ...+..+|+++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~~~--------~~~~~v~~-~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il   69 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYTLA--------RKTQAVEF-NDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLI   69 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCccC--------ccceEEEE-CCC----CcccCCccccCCHHHHHHHHHHHhcCCEEE
Confidence            79999999999999999987653211        11122223 221    269999974332222    22478999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHH-HhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA-LYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~-~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|+|+++..++.  ..|+..+    ..++|+++++||+|+.+.  ..+....+. ......|++++||++|.|++++|++
T Consensus        70 ~v~d~~~~~s~~--~~~~~~~----~~~~~ii~v~nK~Dl~~~--~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~  141 (158)
T PRK15467         70 YVHGANDPESRL--PAGLLDI----GVSKRQIAVISKTDMPDA--DVAATRKLLLETGFEEPIFELNSHDPQSVQQLVDY  141 (158)
T ss_pred             EEEeCCCccccc--CHHHHhc----cCCCCeEEEEEccccCcc--cHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHHH
Confidence            999999887653  2343332    245799999999998653  223333333 3233369999999999999999999


Q ss_pred             HHHHHHHhc
Q psy549          206 LLAQAKVQY  214 (253)
Q Consensus       206 l~~~~~~~~  214 (253)
                      +.+.+.+..
T Consensus       142 l~~~~~~~~  150 (158)
T PRK15467        142 LASLTKQEE  150 (158)
T ss_pred             HHHhchhhh
Confidence            998886553

>PRK11058 GTPase HflX; Provisional

Probab=99.85  E-value=6.4e-20  Score=158.52  Aligned_cols=157  Identities=15%  Similarity=0.129  Sum_probs=114.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC--hhhHHH------hcc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF--PAMREL------SIS  120 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~--~~~~~~------~~~  120 (253)
                      ++|+|+|.+|||||||+|+|++... ..+...++.+.....+.+.+..  .+.+|||+|..+.  ..++..      .+.
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~~--~~~l~DTaG~~r~lp~~lve~f~~tl~~~~  275 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADVG--ETVLADTVGFIRHLPHDLVAAFKATLQETR  275 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCCC--eEEEEecCcccccCCHHHHHHHHHHHHHhh
Confidence            6899999999999999999998664 4556667777777777763332  5679999998442  333333      367


Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCc-EEEeccCCCCCH
Q psy549          121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCG-FVECSAKENYNI  199 (253)
Q Consensus       121 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~i  199 (253)
                      .+|++|+|+|++++.++..+..|...+......++|+++|+||+|+.......  ... .  ..+.+ ++.+||++|.|+
T Consensus       276 ~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~~~--~~~-~--~~~~~~~v~ISAktG~GI  350 (426)
T PRK11058        276 QATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFEPR--IDR-D--EENKPIRVWLSAQTGAGI  350 (426)
T ss_pred             cCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchhHH--HHH-H--hcCCCceEEEeCCCCCCH
Confidence            89999999999999887776655554444444578999999999986431111  111 1  12334 588999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy549          200 VQVFKELLAQAKVQ  213 (253)
Q Consensus       200 ~~l~~~l~~~~~~~  213 (253)
                      ++++++|.+.+...
T Consensus       351 deL~e~I~~~l~~~  364 (426)
T PRK11058        351 PLLFQALTERLSGE  364 (426)
T ss_pred             HHHHHHHHHHhhhc
Confidence            99999999988543

>COG1159 Era GTPase [General function prediction only]

Probab=99.85  E-value=3.4e-20  Score=148.49  Aligned_cols=159  Identities=16%  Similarity=0.150  Sum_probs=121.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH--------HH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR--------EL  117 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~--------~~  117 (253)
                      ..--|+|+|.||||||||+|++++.+.  ++..+.||++...+.++.++.   .+.|+||||..+-....        ..
T Consensus         5 ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~~---QiIfvDTPGih~pk~~l~~~m~~~a~~   81 (298)
T COG1159           5 KSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDNA---QIIFVDTPGIHKPKHALGELMNKAARS   81 (298)
T ss_pred             eEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcCCc---eEEEEeCCCCCCcchHHHHHHHHHHHH
Confidence            345789999999999999999999885  789999999999999998443   56799999966543222        22


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc-cHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-RREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      .+..+|++++|.|++++..-  -..+.......  .+.|+++++||+|..+... .....+.+........++++||++|
T Consensus        82 sl~dvDlilfvvd~~~~~~~--~d~~il~~lk~--~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g  157 (298)
T COG1159          82 ALKDVDLILFVVDADEGWGP--GDEFILEQLKK--TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKG  157 (298)
T ss_pred             HhccCcEEEEEEeccccCCc--cHHHHHHHHhh--cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeecccc
Confidence            57789999999999985432  23333222222  4579999999999877644 3555666666556668999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy549          197 YNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       197 ~~i~~l~~~l~~~~~~~  213 (253)
                      .|++.+.+.+...+.+.
T Consensus       158 ~n~~~L~~~i~~~Lpeg  174 (298)
T COG1159         158 DNVDTLLEIIKEYLPEG  174 (298)
T ss_pred             CCHHHHHHHHHHhCCCC
Confidence            99999999998887553

>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=99.85  E-value=1.3e-20  Score=135.90  Aligned_cols=113  Identities=30%  Similarity=0.487  Sum_probs=83.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCC--CCccccceeeee-eeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFI--SRYKETVEELHR-GEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~--~~~~~t~~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ||+|+|++|||||||+++|++..+.  ..+..+...... ..... +.....+.+||++|++.+...+..++..+|++++
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~il   79 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVV-DGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVIL   79 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEE-TTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEe-cCCceEEEEEecCccceecccccchhhcCcEEEE
Confidence            7999999999999999999998875  112222222222 23333 5555669999999999888877777999999999


Q ss_pred             EEECCChhhHHHHHHH---HHHHHHhcCCCCCEEEEEecCC
Q psy549          128 VYAVDDASTWDVVKDL---REQIVNKRGLMVPIVVVGNKCE  165 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~---~~~~~~~~~~~~piilv~nK~D  165 (253)
                      |||++++.+|+.+..+   +..+... ..++|+++|+||.|
T Consensus        80 v~D~s~~~s~~~~~~~~~~l~~~~~~-~~~~piilv~nK~D  119 (119)
T PF08477_consen   80 VYDLSDPESLEYLSQLLKWLKNIRKR-DKNIPIILVGNKSD  119 (119)
T ss_dssp             EEECCGHHHHHHHHHHHHHHHHHHHH-SSCSEEEEEEE-TC
T ss_pred             EEcCCChHHHHHHHHHHHHHHHHHcc-CCCCCEEEEEeccC
Confidence            9999999999987554   4444432 35699999999998

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.

>cd01895 EngA2 EngA2 subfamily

Probab=99.85  E-value=2.2e-19  Score=137.47  Aligned_cols=154  Identities=23%  Similarity=0.252  Sum_probs=107.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh----------h-H
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA----------M-R  115 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----------~-~  115 (253)
                      .++|+++|++|+|||||+++|++...  ....+.++.......+.. ++.  .+.+||+||..+...          . .
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~--~~~iiDtpG~~~~~~~~~~~e~~~~~~~   78 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEY-DGK--KYTLIDTAGIRRKGKVEEGIEKYSVLRT   78 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEE-CCe--eEEEEECCCCccccchhccHHHHHHHHH
Confidence            57999999999999999999998763  344444555555555555 443  578999999754311          1 1


Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc--cccHHHHHHHHHhc---CCCcEEE
Q psy549          116 ELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK--DVRREIAETIALYD---WQCGFVE  190 (253)
Q Consensus       116 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~---~~~~~~~  190 (253)
                      ...+..+|++++|+|++++.+.... .++..+..   .+.|+++|+||+|+...  .......+.+....   ...++++
T Consensus        79 ~~~~~~~d~vi~v~d~~~~~~~~~~-~~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (174)
T cd01895          79 LKAIERADVVLLVIDATEGITEQDL-RIAGLILE---EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVF  154 (174)
T ss_pred             HHHHhhcCeEEEEEeCCCCcchhHH-HHHHHHHh---cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEE
Confidence            2246789999999999998775543 23332222   35899999999998765  22233333343322   2468999


Q ss_pred             eccCCCCCHHHHHHHHHHH
Q psy549          191 CSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~  209 (253)
                      +|++++.|+.++++++.+.
T Consensus       155 ~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         155 ISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             EeccCCCCHHHHHHHHHHh
Confidence            9999999999999988753

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.

>cd04163 Era Era subfamily

Probab=99.84  E-value=1.2e-19  Score=137.86  Aligned_cols=154  Identities=18%  Similarity=0.186  Sum_probs=106.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCC--CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh--------HHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFI--SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM--------RELS  118 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~--------~~~~  118 (253)
                      ..+|+++|++|+|||||+++|++....  .....++.......+..   ..+.+.+||+||.......        ....
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   79 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIYTD---DDAQIIFVDTPGIHKPKKKLGERMVKAAWSA   79 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEEEEEc---CCeEEEEEECCCCCcchHHHHHHHHHHHHHH
Confidence            578999999999999999999987642  22223333333333322   2357889999997754332        2335


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC-ccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-KDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      +..+|++++|+|++++... ....+...+..   .+.|+++|+||+|+.. .....+....+.......+++++|++++.
T Consensus        80 ~~~~d~i~~v~d~~~~~~~-~~~~~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  155 (168)
T cd04163          80 LKDVDLVLFVVDASEPIGE-GDEFILELLKK---SKTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGE  155 (168)
T ss_pred             HHhCCEEEEEEECCCccCc-hHHHHHHHHHH---hCCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCC
Confidence            7789999999999987221 11222333332   2579999999999874 34445555566654445789999999999


Q ss_pred             CHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQ  209 (253)
Q Consensus       198 ~i~~l~~~l~~~  209 (253)
                      ++++++++|.+.
T Consensus       156 ~~~~l~~~l~~~  167 (168)
T cd04163         156 NVDELLEEIVKY  167 (168)
T ss_pred             ChHHHHHHHHhh
Confidence            999999998764

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.

>PRK00089 era GTPase Era; Reviewed

Probab=99.84  E-value=1.4e-19  Score=150.56  Aligned_cols=157  Identities=18%  Similarity=0.176  Sum_probs=112.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh--------hHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA--------MRELS  118 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~--------~~~~~  118 (253)
                      .-.|+|+|++|||||||+|+|++..+  ....+.|+.......+.. ++  ..+.+|||||......        .....
T Consensus         5 ~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~-~~--~qi~~iDTPG~~~~~~~l~~~~~~~~~~~   81 (292)
T PRK00089          5 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTE-DD--AQIIFVDTPGIHKPKRALNRAMNKAAWSS   81 (292)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEc-CC--ceEEEEECCCCCCchhHHHHHHHHHHHHH
Confidence            35699999999999999999999875  455566666655555554 32  5788999999765432        22235


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      +..+|++++|+|+++.... ........+.   ..+.|+++|+||+|+... .......+.+.......+++++||+++.
T Consensus        82 ~~~~D~il~vvd~~~~~~~-~~~~i~~~l~---~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~  157 (292)
T PRK00089         82 LKDVDLVLFVVDADEKIGP-GDEFILEKLK---KVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGD  157 (292)
T ss_pred             HhcCCEEEEEEeCCCCCCh-hHHHHHHHHh---hcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCC
Confidence            6789999999999883221 1122222222   245899999999999733 4444555666654456789999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQAKV  212 (253)
Q Consensus       198 ~i~~l~~~l~~~~~~  212 (253)
                      |++++++++.+.+..
T Consensus       158 gv~~L~~~L~~~l~~  172 (292)
T PRK00089        158 NVDELLDVIAKYLPE  172 (292)
T ss_pred             CHHHHHHHHHHhCCC
Confidence            999999999988743

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.84  E-value=1.3e-19  Score=142.70  Aligned_cols=118  Identities=14%  Similarity=0.216  Sum_probs=91.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccC-CEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTA-DAFVLVY  129 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~-d~~i~v~  129 (253)
                      +|+++|++|||||||+++|..+.+...+.++..+........ .+..+.+.+||+||+.+++..+..+++.+ +++|+|+
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~~~~~~~~~~~~-~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~Vv   80 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSIEPNVATFILNS-EGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVV   80 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcEeecceEEEeec-CCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEE
Confidence            689999999999999999999888766655544333322222 23456789999999999998888889998 9999999


Q ss_pred             ECCCh-hhHHHHHHHHHHHHHh---cCCCCCEEEEEecCCCCCc
Q psy549          130 AVDDA-STWDVVKDLREQIVNK---RGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       130 d~~~~-~s~~~~~~~~~~~~~~---~~~~~piilv~nK~Dl~~~  169 (253)
                      |+.+. .++.....|+..+...   ....+|+++|+||+|+...
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            99987 6677766666554432   2357999999999998764

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

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.84  E-value=1.2e-19  Score=163.00  Aligned_cols=157  Identities=16%  Similarity=0.227  Sum_probs=114.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC-------CCCCccccc------e-eeeee--eEEc--CCCcEEEEEEEeCCCCCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR-------FISRYKETV------E-ELHRG--EYEL--PDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~-------~~~~~~~t~------~-~~~~~--~~~~--~~~~~~~~~l~D~~g~~~  110 (253)
                      .-+|+|+|+.++|||||+++|+...       +...+..+.      + +....  .+.+  .++..+.+.||||||+.+
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            3589999999999999999999642       111111111      1 22222  1222  156678999999999999


Q ss_pred             ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCC---c
Q psy549          111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQC---G  187 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~  187 (253)
                      |...+..+++.+|++|+|+|++++.+++....|+..+.    .++|+++|+||+|+.+.. .....+.+.. ..+.   .
T Consensus        83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~~~-~~~~~~el~~-~lg~~~~~  156 (595)
T TIGR01393        83 FSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPSAD-PERVKKEIEE-VIGLDASE  156 (595)
T ss_pred             HHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCccC-HHHHHHHHHH-HhCCCcce
Confidence            99999999999999999999999877777666655432    358999999999987532 2233344444 2222   4


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHHH
Q psy549          188 FVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       188 ~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      ++++||++|.|+.++|++|.+.+.
T Consensus       157 vi~vSAktG~GI~~Lle~I~~~lp  180 (595)
T TIGR01393       157 AILASAKTGIGIEEILEAIVKRVP  180 (595)
T ss_pred             EEEeeccCCCCHHHHHHHHHHhCC
Confidence            899999999999999999988763

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.83  E-value=1.6e-19  Score=152.65  Aligned_cols=155  Identities=21%  Similarity=0.227  Sum_probs=123.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHH------
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMREL------  117 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~------  117 (253)
                      ....++|+|+|.||||||||+|.|++..  ++.+.++||+|.....+.+ +|  +.+.++||+|..+-....+.      
T Consensus       214 lr~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i-~G--~pv~l~DTAGiRet~d~VE~iGIeRs  290 (454)
T COG0486         214 LREGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINL-NG--IPVRLVDTAGIRETDDVVERIGIERA  290 (454)
T ss_pred             hhcCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEE-CC--EEEEEEecCCcccCccHHHHHHHHHH
Confidence            4577999999999999999999999866  5899999999999999999 76  57789999998876655543      


Q ss_pred             --hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          118 --SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       118 --~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                        .+..||.+++|+|.+.+.+-.+... +.    ....+.|+++|.||.|+.........     +...+.+++.+|+++
T Consensus       291 ~~~i~~ADlvL~v~D~~~~~~~~d~~~-~~----~~~~~~~~i~v~NK~DL~~~~~~~~~-----~~~~~~~~i~iSa~t  360 (454)
T COG0486         291 KKAIEEADLVLFVLDASQPLDKEDLAL-IE----LLPKKKPIIVVLNKADLVSKIELESE-----KLANGDAIISISAKT  360 (454)
T ss_pred             HHHHHhCCEEEEEEeCCCCCchhhHHH-HH----hcccCCCEEEEEechhcccccccchh-----hccCCCceEEEEecC
Confidence              5778999999999998633222221 11    23366899999999999876443222     223455789999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy549          196 NYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~~~  213 (253)
                      +.|++.+.+.|.+.+...
T Consensus       361 ~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         361 GEGLDALREAIKQLFGKG  378 (454)
T ss_pred             ccCHHHHHHHHHHHHhhc
Confidence            999999999999888766

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.83  E-value=2.8e-19  Score=156.68  Aligned_cols=146  Identities=21%  Similarity=0.221  Sum_probs=109.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC--------ChhhHHHhc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ--------FPAMRELSI  119 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~--------~~~~~~~~~  119 (253)
                      ++|+|+|.+|||||||+|+|.+..  ++...+.++.+.....+.+ ++  ..+.+|||||.+.        +......++
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~-~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~   78 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEW-LG--REFILIDTGGIEPDDDGFEKQIREQAELAI   78 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEE-CC--cEEEEEECCCCCCcchhHHHHHHHHHHHHH
Confidence            589999999999999999999876  3566777777888888877 55  5789999999887        223344567


Q ss_pred             ccCCEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCC-cEEEeccCCC
Q psy549          120 STADAFVLVYAVDDASTWDV--VKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQC-GFVECSAKEN  196 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~  196 (253)
                      ..+|++|+|+|+.++.+...  +..|+..      .++|+++|+||+|+....   .....+..  .+. .++++||++|
T Consensus        79 ~~ad~il~vvd~~~~~~~~~~~~~~~l~~------~~~piilv~NK~D~~~~~---~~~~~~~~--lg~~~~~~iSa~~g  147 (435)
T PRK00093         79 EEADVILFVVDGRAGLTPADEEIAKILRK------SNKPVILVVNKVDGPDEE---ADAYEFYS--LGLGEPYPISAEHG  147 (435)
T ss_pred             HhCCEEEEEEECCCCCCHHHHHHHHHHHH------cCCcEEEEEECccCccch---hhHHHHHh--cCCCCCEEEEeeCC
Confidence            89999999999988644332  2333322      368999999999965421   22223322  233 4799999999


Q ss_pred             CCHHHHHHHHHHH
Q psy549          197 YNIVQVFKELLAQ  209 (253)
Q Consensus       197 ~~i~~l~~~l~~~  209 (253)
                      .|+.++|+++...
T Consensus       148 ~gv~~l~~~I~~~  160 (435)
T PRK00093        148 RGIGDLLDAILEE  160 (435)
T ss_pred             CCHHHHHHHHHhh
Confidence            9999999999873

>KOG0075|consensus

Probab=99.83  E-value=4.9e-20  Score=131.38  Aligned_cols=161  Identities=20%  Similarity=0.286  Sum_probs=125.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      +.+..+.++|..++|||||+|.+..+.+..+..+|.+....+   + +...+.+.+||.+|+.+|+++|+.+++.+++++
T Consensus        18 k~emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnmrk---~-tkgnvtiklwD~gGq~rfrsmWerycR~v~aiv   93 (186)
T KOG0075|consen   18 KEEMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNMRK---V-TKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIV   93 (186)
T ss_pred             HheeeEEEEeeccCCcceEEEEEeeccchhhhcccccceeEE---e-ccCceEEEEEecCCCccHHHHHHHHhhcCcEEE
Confidence            356789999999999999999999988877666665433332   3 333478899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|.|+.+++....-...+..+.. ..-.++|+++.+||.|+++.-......+.+...   ...+..|-+|+++..||+-+
T Consensus        94 Y~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~~~li~rmgL~sitdREvcC~siScke~~Nid~~  173 (186)
T KOG0075|consen   94 YVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSKIALIERMGLSSITDREVCCFSISCKEKVNIDIT  173 (186)
T ss_pred             EEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccccHHHHHHHhCccccccceEEEEEEEEcCCccHHHH
Confidence            99999998776654443333333 334679999999999999875555555555431   22356799999999999999


Q ss_pred             HHHHHHHHH
Q psy549          203 FKELLAQAK  211 (253)
Q Consensus       203 ~~~l~~~~~  211 (253)
                      .+|+++...
T Consensus       174 ~~Wli~hsk  182 (186)
T KOG0075|consen  174 LDWLIEHSK  182 (186)
T ss_pred             HHHHHHHhh
Confidence            999998764

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.83  E-value=3.9e-19  Score=158.90  Aligned_cols=156  Identities=24%  Similarity=0.308  Sum_probs=111.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCc-cccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRY-KETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      .....+|+++|++++|||||+++|.+..+.... ...+.+.....+.+.++.  .+.||||||++.|..++...+..+|+
T Consensus        84 ~~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~~--~i~~iDTPGhe~F~~~r~rga~~aDi  161 (587)
T TIGR00487        84 VERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDGK--MITFLDTPGHEAFTSMRARGAKVTDI  161 (587)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCCc--EEEEEECCCCcchhhHHHhhhccCCE
Confidence            345689999999999999999999987764432 334444444455553332  67999999999999999888999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHh-----c--CCCcEEEeccCCCC
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALY-----D--WQCGFVECSAKENY  197 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~--~~~~~~~~Sa~~~~  197 (253)
                      +++|+|+++....+....+ .   .....++|+++++||+|+.+.. .......+...     .  ...+++++||++|.
T Consensus       162 aILVVda~dgv~~qT~e~i-~---~~~~~~vPiIVviNKiDl~~~~-~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGe  236 (587)
T TIGR00487       162 VVLVVAADDGVMPQTIEAI-S---HAKAANVPIIVAINKIDKPEAN-PDRVKQELSEYGLVPEDWGGDTIFVPVSALTGD  236 (587)
T ss_pred             EEEEEECCCCCCHhHHHHH-H---HHHHcCCCEEEEEECcccccCC-HHHHHHHHHHhhhhHHhcCCCceEEEEECCCCC
Confidence            9999999875432332222 1   1122568999999999987531 12222222211     1  23579999999999


Q ss_pred             CHHHHHHHHHH
Q psy549          198 NIVQVFKELLA  208 (253)
Q Consensus       198 ~i~~l~~~l~~  208 (253)
                      |+.++|+++..
T Consensus       237 GI~eLl~~I~~  247 (587)
T TIGR00487       237 GIDELLDMILL  247 (587)
T ss_pred             ChHHHHHhhhh
Confidence            99999999875

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.

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.82  E-value=3e-19  Score=140.70  Aligned_cols=158  Identities=15%  Similarity=0.136  Sum_probs=97.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce--eeeee--eEEcC------------------------C--C----
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE--ELHRG--EYELP------------------------D--G----   95 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~--~~~~~--~~~~~------------------------~--~----   95 (253)
                      ++|+++|+.|+|||||+..+.+............  .....  .+.+.                        .  +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            5799999999999999999975421110000000  00000  00000                        0  1    


Q ss_pred             cEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHH
Q psy549           96 AQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAST-WDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRRE  174 (253)
Q Consensus        96 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~  174 (253)
                      ....+.||||||+++|.......+..+|++++|+|+.++.. ..... .+..+...  ...|+++|+||+|+.+......
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~-~l~~~~~~--~~~~iiivvNK~Dl~~~~~~~~  157 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSE-HLAALEIM--GLKHIIIVQNKIDLVKEEQALE  157 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHH-HHHHHHHc--CCCcEEEEEEchhccCHHHHHH
Confidence            11578999999999887777778888999999999987421 11111 12222221  2247999999999876422111


Q ss_pred             ---HHHHHHHh--cCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          175 ---IAETIALY--DWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       175 ---~~~~~~~~--~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                         ..+.+...  ....+++++||++|.|++++|++|.+.+
T Consensus       158 ~~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l  198 (203)
T cd01888         158 NYEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKI  198 (203)
T ss_pred             HHHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence               12222211  1357899999999999999999998765

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.82  E-value=6.2e-19  Score=162.27  Aligned_cols=159  Identities=19%  Similarity=0.234  Sum_probs=117.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC----------ChhhH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ----------FPAMR  115 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~----------~~~~~  115 (253)
                      ..++|+|+|.+|||||||+|+|++...  +..+++|+.+.....+.+ ++.  .+.+|||||..+          |..+.
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~-~~~--~~~liDTaG~~~~~~~~~~~e~~~~~r  525 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEI-DGE--DWLFIDTAGIKRRQHKLTGAEYYSSLR  525 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEE-CCC--EEEEEECCCcccCcccchhHHHHHHHH
Confidence            458999999999999999999999773  677788888888777777 555  456999999642          22222


Q ss_pred             -HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEe
Q psy549          116 -ELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVEC  191 (253)
Q Consensus       116 -~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~  191 (253)
                       ...++.+|++++|+|++++.++..+. ++..+..   .++|+++|+||+|+.+........+.+...   ....+++++
T Consensus       526 ~~~~i~~advvilViDat~~~s~~~~~-i~~~~~~---~~~piIiV~NK~DL~~~~~~~~~~~~~~~~l~~~~~~~ii~i  601 (712)
T PRK09518        526 TQAAIERSELALFLFDASQPISEQDLK-VMSMAVD---AGRALVLVFNKWDLMDEFRRQRLERLWKTEFDRVTWARRVNL  601 (712)
T ss_pred             HHHHhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEEchhcCChhHHHHHHHHHHHhccCCCCCCEEEE
Confidence             23478899999999999988877654 3333332   458999999999987542222222222221   234578999


Q ss_pred             ccCCCCCHHHHHHHHHHHHHHh
Q psy549          192 SAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       192 Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ||++|.|++++|+.+.+.+...
T Consensus       602 SAktg~gv~~L~~~i~~~~~~~  623 (712)
T PRK09518        602 SAKTGWHTNRLAPAMQEALESW  623 (712)
T ss_pred             ECCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999988763

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.82  E-value=7.6e-19  Score=153.91  Aligned_cols=160  Identities=20%  Similarity=0.237  Sum_probs=115.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh----------h
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA----------M  114 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----------~  114 (253)
                      ...++|+|+|.+|+|||||+|+|++..  .....+.++.+.....+.. ++  ..+.+|||||..+...          .
T Consensus       171 ~~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~-~~--~~~~lvDT~G~~~~~~~~~~~e~~~~~  247 (435)
T PRK00093        171 DEPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFER-DG--QKYTLIDTAGIRRKGKVTEGVEKYSVI  247 (435)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEE-CC--eeEEEEECCCCCCCcchhhHHHHHHHH
Confidence            357999999999999999999999765  3566667777777666666 44  3568999999654321          1


Q ss_pred             H-HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEE
Q psy549          115 R-ELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVE  190 (253)
Q Consensus       115 ~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~  190 (253)
                      . ...++.+|++|+|+|++++.+..+.. ++..+..   .+.|+++|+||+|+.......+..+.+...   ....++++
T Consensus       248 ~~~~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~---~~~~~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~i~~  323 (435)
T PRK00093        248 RTLKAIERADVVLLVIDATEGITEQDLR-IAGLALE---AGRALVIVVNKWDLVDEKTMEEFKKELRRRLPFLDYAPIVF  323 (435)
T ss_pred             HHHHHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCcEEEEEECccCCCHHHHHHHHHHHHHhcccccCCCEEE
Confidence            1 23678899999999999987766543 3333332   458999999999987543222333333221   34578999


Q ss_pred             eccCCCCCHHHHHHHHHHHHHHh
Q psy549          191 CSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      +||++|.|+.++|+.+.+.....
T Consensus       324 ~SA~~~~gv~~l~~~i~~~~~~~  346 (435)
T PRK00093        324 ISALTGQGVDKLLEAIDEAYENA  346 (435)
T ss_pred             EeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999998866543

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.82  E-value=7.1e-19  Score=137.80  Aligned_cols=158  Identities=16%  Similarity=0.157  Sum_probs=99.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeee-eeeEEcCCCcEEEEEEEeCCCCC----------CChhh
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELH-RGEYELPDGAQLTLDILDTSGAY----------QFPAM  114 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~l~D~~g~~----------~~~~~  114 (253)
                      ....++|+|+|++|+|||||+++|++..+...+..+..... ...+..    ...+.||||||..          ++...
T Consensus        21 ~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~----~~~l~l~DtpG~~~~~~~~~~~~~~~~~   96 (196)
T PRK00454         21 PDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV----NDKLRLVDLPGYGYAKVSKEEKEKWQKL   96 (196)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec----CCeEEEeCCCCCCCcCCCchHHHHHHHH
Confidence            44678999999999999999999998764333222222111 111112    2478999999953          22333


Q ss_pred             HHHhccc---CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHh--cCCCcEE
Q psy549          115 RELSIST---ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALY--DWQCGFV  189 (253)
Q Consensus       115 ~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~--~~~~~~~  189 (253)
                      ...++..   .+++++|+|..++...... .+...+.   ..++|+++++||+|+.+....+...+.+...  ....+++
T Consensus        97 ~~~~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~---~~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~  172 (196)
T PRK00454         97 IEEYLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLK---EYGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEVI  172 (196)
T ss_pred             HHHHHHhCccceEEEEEEecCCCCCHHHH-HHHHHHH---HcCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCceE
Confidence            3344444   4678888888775443321 1112222   1458999999999987642222222222211  1257899


Q ss_pred             EeccCCCCCHHHHHHHHHHHHH
Q psy549          190 ECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       190 ~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      ++|++++.|++++++.|.+.+.
T Consensus       173 ~~Sa~~~~gi~~l~~~i~~~~~  194 (196)
T PRK00454        173 LFSSLKKQGIDELRAAIAKWLA  194 (196)
T ss_pred             EEEcCCCCCHHHHHHHHHHHhc
Confidence            9999999999999999988764

>KOG0096|consensus

Probab=99.82  E-value=8.3e-20  Score=135.81  Aligned_cols=164  Identities=21%  Similarity=0.298  Sum_probs=139.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++++++|+.|.||||++++.+.+.|...+..|.+-.....+...+...++|..|||+|++.+..+...+|-++.++|
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAi   87 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAI   87 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeE
Confidence            45799999999999999999999999999999999885555555554555799999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      ++||+.....+.++..|...+.... .++||++++||.|..+.++...-. .+.. ..++.++++|++.+-|.+.-|-|+
T Consensus        88 imFdVtsr~t~~n~~rwhrd~~rv~-~NiPiv~cGNKvDi~~r~~k~k~v-~~~r-kknl~y~~iSaksn~NfekPFl~L  164 (216)
T KOG0096|consen   88 IMFDVTSRFTYKNVPRWHRDLVRVR-ENIPIVLCGNKVDIKARKVKAKPV-SFHR-KKNLQYYEISAKSNYNFERPFLWL  164 (216)
T ss_pred             EEeeeeehhhhhcchHHHHHHHHHh-cCCCeeeeccceeccccccccccc-eeee-cccceeEEeecccccccccchHHH
Confidence            9999999999999999999988865 569999999999987654322222 1222 467889999999999999999999


Q ss_pred             HHHHHHh
Q psy549          207 LAQAKVQ  213 (253)
Q Consensus       207 ~~~~~~~  213 (253)
                      ++.+..+
T Consensus       165 arKl~G~  171 (216)
T KOG0096|consen  165 ARKLTGD  171 (216)
T ss_pred             hhhhcCC
Confidence            9988665

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.81  E-value=7.3e-19  Score=153.83  Aligned_cols=151  Identities=20%  Similarity=0.247  Sum_probs=111.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC--------ChhhHHHhcc
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ--------FPAMRELSIS  120 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~--------~~~~~~~~~~  120 (253)
                      +|+|+|.+|||||||+|+|++..  ++.+.++++.+.....+.+ ++.  .+.+|||||...        +......+++
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~-~~~--~~~liDTpG~~~~~~~~~~~~~~~~~~~~~   77 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEW-GGR--EFILIDTGGIEEDDDGLDKQIREQAEIAIE   77 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEE-CCe--EEEEEECCCCCCcchhHHHHHHHHHHHHHh
Confidence            58999999999999999999866  3566777888888888777 553  589999999743        3344455788


Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       121 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      .+|++++|+|+.++.+... ..+...+..   .++|+++|+||+|+......   ...+.. ....+++++||.+|.|+.
T Consensus        78 ~ad~vl~vvD~~~~~~~~d-~~i~~~l~~---~~~piilVvNK~D~~~~~~~---~~~~~~-lg~~~~~~vSa~~g~gv~  149 (429)
T TIGR03594        78 EADVILFVVDGREGLTPED-EEIAKWLRK---SGKPVILVANKIDGKKEDAV---AAEFYS-LGFGEPIPISAEHGRGIG  149 (429)
T ss_pred             hCCEEEEEEeCCCCCCHHH-HHHHHHHHH---hCCCEEEEEECccCCccccc---HHHHHh-cCCCCeEEEeCCcCCChH
Confidence            9999999999987654333 122222222   45899999999998754322   122333 233378999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy549          201 QVFKELLAQAKV  212 (253)
Q Consensus       201 ~l~~~l~~~~~~  212 (253)
                      ++++++.+.+..
T Consensus       150 ~ll~~i~~~l~~  161 (429)
T TIGR03594       150 DLLDAILELLPE  161 (429)
T ss_pred             HHHHHHHHhcCc
Confidence            999999887743

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.81  E-value=5.2e-19  Score=136.74  Aligned_cols=145  Identities=15%  Similarity=0.181  Sum_probs=94.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCC---CccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC----------Ch
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFIS---RYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ----------FP  112 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~----------~~  112 (253)
                      ....++|+|+|++|+|||||+++|.+..+..   ....++.+..  .+.. ++   .+.+||+||...          +.
T Consensus        15 ~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~--~~~~-~~---~~~liDtpG~~~~~~~~~~~~~~~   88 (179)
T TIGR03598        15 PDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLIN--FFEV-ND---GFRLVDLPGYGYAKVSKEEKEKWQ   88 (179)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEE--EEEe-CC---cEEEEeCCCCccccCChhHHHHHH
Confidence            4677899999999999999999999876322   2223332222  2222 32   578999999532          22


Q ss_pred             hhHHHhcc---cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc----ccHHHHHHHHHhcCC
Q psy549          113 AMRELSIS---TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD----VRREIAETIALYDWQ  185 (253)
Q Consensus       113 ~~~~~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~~~~~~~~~~~~~~  185 (253)
                      .+...+++   .++++++|+|++.+.+..... ++..+..   .++|+++|+||+|+....    ...+..+.+......
T Consensus        89 ~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~-~~~~~~~---~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~  164 (179)
T TIGR03598        89 KLIEEYLEKRENLKGVVLLMDIRHPLKELDLE-MLEWLRE---RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADD  164 (179)
T ss_pred             HHHHHHHHhChhhcEEEEEecCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCC
Confidence            33334444   358999999998865544432 2333322   468999999999987542    223333344332334


Q ss_pred             CcEEEeccCCCCCHH
Q psy549          186 CGFVECSAKENYNIV  200 (253)
Q Consensus       186 ~~~~~~Sa~~~~~i~  200 (253)
                      .+++++||++|.|++
T Consensus       165 ~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       165 PSVQLFSSLKKTGID  179 (179)
T ss_pred             CceEEEECCCCCCCC
Confidence            689999999999873

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.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.81  E-value=7.3e-19  Score=159.48  Aligned_cols=159  Identities=21%  Similarity=0.319  Sum_probs=112.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCcc-ccceee--eeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYK-ETVEEL--HRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTA  122 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~-~t~~~~--~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~  122 (253)
                      .....+|+|+|+.++|||||+++|....+..... ..+.+.  +...+.. ++..+.+.||||||++.|..++...+..+
T Consensus       241 ~~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~-~~~~~kItfiDTPGhe~F~~mr~rg~~~a  319 (742)
T CHL00189        241 INRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEY-KDENQKIVFLDTPGHEAFSSMRSRGANVT  319 (742)
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEe-cCCceEEEEEECCcHHHHHHHHHHHHHHC
Confidence            4566899999999999999999999876643222 222222  2222233 34457899999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHH-------hcCCCcEEEeccCC
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL-------YDWQCGFVECSAKE  195 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-------~~~~~~~~~~Sa~~  195 (253)
                      |++|+|+|++++...+....+. .+   ...++|+++|+||+|+..... ......+..       ....++++++||++
T Consensus       320 DiaILVVDA~dGv~~QT~E~I~-~~---k~~~iPiIVViNKiDl~~~~~-e~v~~eL~~~~ll~e~~g~~vpvv~VSAkt  394 (742)
T CHL00189        320 DIAILIIAADDGVKPQTIEAIN-YI---QAANVPIIVAINKIDKANANT-ERIKQQLAKYNLIPEKWGGDTPMIPISASQ  394 (742)
T ss_pred             CEEEEEEECcCCCChhhHHHHH-HH---HhcCceEEEEEECCCccccCH-HHHHHHHHHhccchHhhCCCceEEEEECCC
Confidence            9999999998854333323222 12   225689999999999875321 222222221       12237899999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQA  210 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~  210 (253)
                      |.|+.++|+++....
T Consensus       395 G~GIdeLle~I~~l~  409 (742)
T CHL00189        395 GTNIDKLLETILLLA  409 (742)
T ss_pred             CCCHHHHHHhhhhhh
Confidence            999999999988764

>KOG0071|consensus

Probab=99.81  E-value=7.3e-19  Score=124.47  Aligned_cols=159  Identities=15%  Similarity=0.212  Sum_probs=120.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+++|+.+|..++||||++..|.-+...... +|. -+....+++   +.++|.+||++|++..+.+|..+|.+..++|+
T Consensus        16 KE~~ilmlGLd~aGKTtiLyKLkl~~~~~~i-pTv-GFnvetVty---kN~kfNvwdvGGqd~iRplWrhYy~gtqglIF   90 (180)
T KOG0071|consen   16 KEMRILMLGLDAAGKTTILYKLKLGQSVTTI-PTV-GFNVETVTY---KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   90 (180)
T ss_pred             ccceEEEEecccCCceehhhHHhcCCCcccc-ccc-ceeEEEEEe---eeeEEeeeeccCchhhhHHHHhhccCCceEEE
Confidence            4799999999999999999999987764332 222 233344445   44789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      |.|..+....+.....+..+.. ..-...|+++.+||.|++.....+++.+.+...   ...+.+.++|+.+|.++.|-|
T Consensus        91 V~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~egl  170 (180)
T KOG0071|consen   91 VVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKLELERIRDRNWYVQPSCALSGDGLKEGL  170 (180)
T ss_pred             EEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHhccccccCCccEeeccccccchhHHHHH
Confidence            9999987555544433333332 222458999999999999986666666655442   234567889999999999999


Q ss_pred             HHHHHHHH
Q psy549          204 KELLAQAK  211 (253)
Q Consensus       204 ~~l~~~~~  211 (253)
                      .|+...+.
T Consensus       171 swlsnn~~  178 (180)
T KOG0071|consen  171 SWLSNNLK  178 (180)
T ss_pred             HHHHhhcc
Confidence            99987653

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.81  E-value=1.1e-18  Score=159.73  Aligned_cols=156  Identities=24%  Similarity=0.297  Sum_probs=111.4

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCC-ccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISR-YKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ......|+|+|+.++|||||+++|.+..+... ....+.+.....+.+ ++  ..+.||||||++.|..++...+..+|+
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~-~~--~~ItfiDTPGhe~F~~m~~rga~~aDi  363 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVET-NG--GKITFLDTPGHEAFTAMRARGAQVTDI  363 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEE-CC--EEEEEEECCCCccchhHHHhhhhhCCE
Confidence            45678999999999999999999998776432 222333333344555 33  568999999999999999988999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHH------H-hcCCCcEEEeccCCCC
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA------L-YDWQCGFVECSAKENY  197 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~------~-~~~~~~~~~~Sa~~~~  197 (253)
                      +|+|+|+++...-+....|.    .....++|+++|+||+|+.+... ......+.      . ....++++++||++|.
T Consensus       364 aILVVdAddGv~~qT~e~i~----~a~~~~vPiIVviNKiDl~~a~~-e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~  438 (787)
T PRK05306        364 VVLVVAADDGVMPQTIEAIN----HAKAAGVPIIVAINKIDKPGANP-DRVKQELSEYGLVPEEWGGDTIFVPVSAKTGE  438 (787)
T ss_pred             EEEEEECCCCCCHhHHHHHH----HHHhcCCcEEEEEECccccccCH-HHHHHHHHHhcccHHHhCCCceEEEEeCCCCC
Confidence            99999999853322222222    22225689999999999965321 11222221      1 1224789999999999


Q ss_pred             CHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQ  209 (253)
Q Consensus       198 ~i~~l~~~l~~~  209 (253)
                      |+.++|++|...
T Consensus       439 GI~eLle~I~~~  450 (787)
T PRK05306        439 GIDELLEAILLQ  450 (787)
T ss_pred             CchHHHHhhhhh
Confidence            999999998764

>KOG4423|consensus

Probab=99.81  E-value=1.2e-21  Score=145.13  Aligned_cols=168  Identities=26%  Similarity=0.386  Sum_probs=145.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ..-+++.|+|.-|+|||+++.+.+...+...|..|+. ++..+.+...+...+++++||..|+++|..++..+|+.+.+.
T Consensus        23 ~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~~  102 (229)
T KOG4423|consen   23 EHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHGA  102 (229)
T ss_pred             hhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcce
Confidence            3467999999999999999999999999888888887 777888888666678999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHh----cCCCCCEEEEEecCCCCCccccH--HHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNK----RGLMVPIVVVGNKCELEFKDVRR--EIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~----~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      ++|||++....|+.+..|.+.+...    .+..+|+++..||||.......+  .....+++.+....++++|++.+.++
T Consensus       103 ~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkni  182 (229)
T KOG4423|consen  103 FIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKNI  182 (229)
T ss_pred             EEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccCh
Confidence            9999999999999999999988773    33457889999999988763333  55666777566678999999999999


Q ss_pred             HHHHHHHHHHHHHhc
Q psy549          200 VQVFKELLAQAKVQY  214 (253)
Q Consensus       200 ~~l~~~l~~~~~~~~  214 (253)
                      .|+...+++.+..+.
T Consensus       183 ~Ea~r~lVe~~lvnd  197 (229)
T KOG4423|consen  183 PEAQRELVEKILVND  197 (229)
T ss_pred             hHHHHHHHHHHHhhc
Confidence            999999999987764

>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=99.81  E-value=8.8e-19  Score=136.49  Aligned_cols=158  Identities=20%  Similarity=0.233  Sum_probs=107.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCc-------------------cccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRY-------------------KETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~-------------------~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      +.++|+++|+.++|||||+++|+........                   ...+.+.....+.. +.....+.++|+||+
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~-~~~~~~i~~iDtPG~   80 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEK-NENNRKITLIDTPGH   80 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEB-TESSEEEEEEEESSS
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccc-cccccceeecccccc
Confidence            4679999999999999999999964321000                   00111222222221 234568899999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc---ccHHHHHHHHHhc--
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD---VRREIAETIALYD--  183 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~--  183 (253)
                      ..|.......+..+|++|+|+|+.++..... ...+..+..   .++|+++|+||+|+....   ...+....+.+..  
T Consensus        81 ~~f~~~~~~~~~~~D~ailvVda~~g~~~~~-~~~l~~~~~---~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~  156 (188)
T PF00009_consen   81 EDFIKEMIRGLRQADIAILVVDANDGIQPQT-EEHLKILRE---LGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGE  156 (188)
T ss_dssp             HHHHHHHHHHHTTSSEEEEEEETTTBSTHHH-HHHHHHHHH---TT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTS
T ss_pred             cceeecccceecccccceeeeeccccccccc-ccccccccc---cccceEEeeeeccchhhhHHHHHHHHHHHhcccccc
Confidence            9998888888999999999999998755433 223333333   458999999999988432   2222232332211  


Q ss_pred             ---CCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          184 ---WQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       184 ---~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                         ..++++++||++|.|+.++++.|.+.+
T Consensus       157 ~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~  186 (188)
T PF00009_consen  157 NGEEIVPVIPISALTGDGIDELLEALVELL  186 (188)
T ss_dssp             TTTSTEEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred             CccccceEEEEecCCCCCHHHHHHHHHHhC
Confidence               146899999999999999999998875

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 ....

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.81  E-value=1.6e-18  Score=146.32  Aligned_cols=151  Identities=19%  Similarity=0.164  Sum_probs=114.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh---------hhHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP---------AMRELS  118 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~---------~~~~~~  118 (253)
                      ..|+|+|.||||||||+|+|++.+  ++.+++++|+|..+....+ .+.  .|.++||+|.+...         ......
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~-~~~--~f~lIDTgGl~~~~~~~l~~~i~~Qa~~A   80 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEW-LGR--EFILIDTGGLDDGDEDELQELIREQALIA   80 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEE-cCc--eEEEEECCCCCcCCchHHHHHHHHHHHHH
Confidence            679999999999999999999977  4899999999999999998 554  48999999977432         223347


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                      +..||++|+|+|...+-+-.+ ......+.   ..++|+++|+||+|-..  .... ...+.. .+.-.++.+||..|.|
T Consensus        81 i~eADvilfvVD~~~Git~~D-~~ia~~Lr---~~~kpviLvvNK~D~~~--~e~~-~~efys-lG~g~~~~ISA~Hg~G  152 (444)
T COG1160          81 IEEADVILFVVDGREGITPAD-EEIAKILR---RSKKPVILVVNKIDNLK--AEEL-AYEFYS-LGFGEPVPISAEHGRG  152 (444)
T ss_pred             HHhCCEEEEEEeCCCCCCHHH-HHHHHHHH---hcCCCEEEEEEcccCch--hhhh-HHHHHh-cCCCCceEeehhhccC
Confidence            788999999999988654333 11222222   25589999999999652  2222 333333 2334578999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy549          199 IVQVFKELLAQAK  211 (253)
Q Consensus       199 i~~l~~~l~~~~~  211 (253)
                      +.++++++...+.
T Consensus       153 i~dLld~v~~~l~  165 (444)
T COG1160         153 IGDLLDAVLELLP  165 (444)
T ss_pred             HHHHHHHHHhhcC
Confidence            9999999999873

>KOG0076|consensus

Probab=99.81  E-value=2.1e-19  Score=131.82  Aligned_cols=165  Identities=17%  Similarity=0.200  Sum_probs=126.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC---C---CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhc
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR---F---ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSI  119 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~---~---~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~  119 (253)
                      .+..+.|+|+|..++|||||+.+.....   +   ......++.-...+++.+ +  ..++.|||..|++..+++|..+|
T Consensus        14 ~Ke~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v-~--~~~l~fwdlgGQe~lrSlw~~yY   90 (197)
T KOG0076|consen   14 KKEDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEV-C--NAPLSFWDLGGQESLRSLWKKYY   90 (197)
T ss_pred             hhhhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceee-c--cceeEEEEcCChHHHHHHHHHHH
Confidence            4567899999999999999999877532   1   222333444445555555 3  34789999999999999999999


Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHH--H--hcCCCcEEEeccC
Q psy549          120 STADAFVLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIA--L--YDWQCGFVECSAK  194 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~--~--~~~~~~~~~~Sa~  194 (253)
                      ..++++|+++|+++++-|+.....+..+... ...+.|+++.+||.|+.+.....++-..+.  .  .....++.++||.
T Consensus        91 ~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~~~El~~~~~~~e~~~~rd~~~~pvSal  170 (197)
T KOG0076|consen   91 WLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAMEAAELDGVFGLAELIPRRDNPFQPVSAL  170 (197)
T ss_pred             HHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhhHHHHHHHhhhhhhcCCccCccccchhh
Confidence            9999999999999998888766655444443 336799999999999988754444444443  1  1245679999999


Q ss_pred             CCCCHHHHHHHHHHHHHHh
Q psy549          195 ENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~~~~  213 (253)
                      +|.||++-..|+...+.+.
T Consensus       171 ~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  171 TGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hcccHHHHHHHHHHHHhhc
Confidence            9999999999999998665

>KOG1673|consensus

Probab=99.81  E-value=2.5e-19  Score=129.00  Aligned_cols=163  Identities=21%  Similarity=0.378  Sum_probs=137.0

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      +.-.++|.++|++..|||||+-.+.++.+...+..+.+ ++..+.+.+ .+..+.+.+||..|++++..+.+....++-+
T Consensus        17 n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i-~~t~IsfSIwdlgG~~~~~n~lPiac~dsva   95 (205)
T KOG1673|consen   17 NLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSI-RGTDISFSIWDLGGQREFINMLPIACKDSVA   95 (205)
T ss_pred             cceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEe-cceEEEEEEEecCCcHhhhccCceeecCcEE
Confidence            44578999999999999999999999988777777766 888888888 8888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc---c---ccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK---D---VRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~---~---~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                      ++++||++.+.++..+..|+.........-+|+ +|++|.|+.-.   +   .....+..+++ -.+.+.|.+|+....|
T Consensus        96 IlFmFDLt~r~TLnSi~~WY~QAr~~NktAiPi-lvGTKyD~fi~lp~e~Q~~I~~qar~YAk-~mnAsL~F~Sts~sIN  173 (205)
T KOG1673|consen   96 ILFMFDLTRRSTLNSIKEWYRQARGLNKTAIPI-LVGTKYDLFIDLPPELQETISRQARKYAK-VMNASLFFCSTSHSIN  173 (205)
T ss_pred             EEEEEecCchHHHHHHHHHHHHHhccCCccceE-EeccchHhhhcCCHHHHHHHHHHHHHHHH-HhCCcEEEeecccccc
Confidence            999999999999999999999887766666775 56999996433   1   12233455666 5678899999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy549          199 IVQVFKELLAQAK  211 (253)
Q Consensus       199 i~~l~~~l~~~~~  211 (253)
                      +..+|..+...+-
T Consensus       174 v~KIFK~vlAklF  186 (205)
T KOG1673|consen  174 VQKIFKIVLAKLF  186 (205)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999998877663

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.80  E-value=4e-18  Score=156.94  Aligned_cols=155  Identities=22%  Similarity=0.228  Sum_probs=111.3

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC--------ChhhHH
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ--------FPAMRE  116 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~--------~~~~~~  116 (253)
                      ....+|+|+|.+|||||||+|+|++...  +...+.++.+.......+ ++  ..+.+|||||.+.        +.....
T Consensus       273 ~~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~-~~--~~~~liDT~G~~~~~~~~~~~~~~~~~  349 (712)
T PRK09518        273 KAVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEW-AG--TDFKLVDTGGWEADVEGIDSAIASQAQ  349 (712)
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEE-CC--EEEEEEeCCCcCCCCccHHHHHHHHHH
Confidence            3457899999999999999999998763  556667777777666666 44  4688999999764        233344


Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          117 LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       117 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      .+++.+|++|+|+|+.+...... ..|...+..   .++|+++|+||+|+....  ....+.+.. ... .++++||++|
T Consensus       350 ~~~~~aD~iL~VvDa~~~~~~~d-~~i~~~Lr~---~~~pvIlV~NK~D~~~~~--~~~~~~~~l-g~~-~~~~iSA~~g  421 (712)
T PRK09518        350 IAVSLADAVVFVVDGQVGLTSTD-ERIVRMLRR---AGKPVVLAVNKIDDQASE--YDAAEFWKL-GLG-EPYPISAMHG  421 (712)
T ss_pred             HHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHh---cCCCEEEEEECcccccch--hhHHHHHHc-CCC-CeEEEECCCC
Confidence            56889999999999987533222 234444332   568999999999986432  122222222 333 3579999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy549          197 YNIVQVFKELLAQAKV  212 (253)
Q Consensus       197 ~~i~~l~~~l~~~~~~  212 (253)
                      .||.++|+++++.+..
T Consensus       422 ~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        422 RGVGDLLDEALDSLKV  437 (712)
T ss_pred             CCchHHHHHHHHhccc
Confidence            9999999999998754

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.80  E-value=1.1e-18  Score=156.86  Aligned_cols=145  Identities=19%  Similarity=0.243  Sum_probs=108.9

Q ss_pred             CCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh------HHHhc--ccCCEEE
Q psy549           56 GGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM------RELSI--STADAFV  126 (253)
Q Consensus        56 G~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~------~~~~~--~~~d~~i  126 (253)
                      |++|||||||+|++.+... ..+++.++.+.....+.+ ++.  .+.+||+||++++...      ...++  ..+|+++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~-~~~--~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI   77 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGF-QGE--DIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVV   77 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEE-CCe--EEEEEECCCccccCccchHHHHHHHHHhhcCCCEEE
Confidence            8999999999999998775 566777777777777777 543  5789999999887543      22232  4789999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      +|+|.++.+.   ...+...+.   ..++|+++|+||+|+.+........+.+++ ..+++++++||++|.|++++++++
T Consensus        78 ~VvDat~ler---~l~l~~ql~---~~~~PiIIVlNK~Dl~~~~~i~~d~~~L~~-~lg~pvv~tSA~tg~Gi~eL~~~i  150 (591)
T TIGR00437        78 NVVDASNLER---NLYLTLQLL---ELGIPMILALNLVDEAEKKGIRIDEEKLEE-RLGVPVVPTSATEGRGIERLKDAI  150 (591)
T ss_pred             EEecCCcchh---hHHHHHHHH---hcCCCEEEEEehhHHHHhCCChhhHHHHHH-HcCCCEEEEECCCCCCHHHHHHHH
Confidence            9999987432   122222222   256899999999998765333344566766 567899999999999999999999


Q ss_pred             HHHH
Q psy549          207 LAQA  210 (253)
Q Consensus       207 ~~~~  210 (253)
                      .+.+
T Consensus       151 ~~~~  154 (591)
T TIGR00437       151 RKAI  154 (591)
T ss_pred             HHHh
Confidence            8764

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.80  E-value=2.4e-18  Score=154.43  Aligned_cols=157  Identities=17%  Similarity=0.135  Sum_probs=109.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC---CCCCc-cccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR---FISRY-KETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~---~~~~~-~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      +.|+++|++++|||||+++|++..   +..++ ...+.+.....+.+ ++  ..+.|||+||+++|.......+.++|++
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~-~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~a   77 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPL-PD--YRLGFIDVPGHEKFISNAIAGGGGIDAA   77 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEe-CC--EEEEEEECCCHHHHHHHHHhhhccCCEE
Confidence            479999999999999999999633   32222 22333444445555 33  6789999999999988888888999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCccc---cHHHHHHHHHhc-C--CCcEEEeccCCCCC
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFKDV---RREIAETIALYD-W--QCGFVECSAKENYN  198 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~---~~~~~~~~~~~~-~--~~~~~~~Sa~~~~~  198 (253)
                      ++|+|++++...+..+ .+..+..   .++| +++|+||+|+.+...   ..+....+.... .  +.+++++|+++|.|
T Consensus        78 ILVVDa~~G~~~qT~e-hl~il~~---lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG~G  153 (581)
T TIGR00475        78 LLVVDADEGVMTQTGE-HLAVLDL---LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTGQG  153 (581)
T ss_pred             EEEEECCCCCcHHHHH-HHHHHHH---cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCCCC
Confidence            9999999843222211 1222222   3577 999999999976421   122233333212 1  57899999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy549          199 IVQVFKELLAQAKVQ  213 (253)
Q Consensus       199 i~~l~~~l~~~~~~~  213 (253)
                      ++++++++...+...
T Consensus       154 I~eL~~~L~~l~~~~  168 (581)
T TIGR00475       154 IGELKKELKNLLESL  168 (581)
T ss_pred             chhHHHHHHHHHHhC
Confidence            999999988776543

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.80  E-value=2.5e-18  Score=145.16  Aligned_cols=157  Identities=22%  Similarity=0.277  Sum_probs=118.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC----------ChhhH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ----------FPAMR  115 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~----------~~~~~  115 (253)
                      ..++|+|+|.||+|||||+|+|++++  ++.+.++||++.....+.+ +++  .+.++||+|..+          |....
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~-~~~--~~~liDTAGiRrk~ki~e~~E~~Sv~r  253 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFER-DGR--KYVLIDTAGIRRKGKITESVEKYSVAR  253 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEE-CCe--EEEEEECCCCCcccccccceEEEeehh
Confidence            57999999999999999999999977  5788999999999999998 766  567999999544          33222


Q ss_pred             H-HhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc--cccH----HHHHHHHHhcCCCcE
Q psy549          116 E-LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK--DVRR----EIAETIALYDWQCGF  188 (253)
Q Consensus       116 ~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~----~~~~~~~~~~~~~~~  188 (253)
                      . ..+..+|.+++|.|+..+.+.++ ......+..   .+.++++|+||+|+.+.  ....    ++...+. .....++
T Consensus       254 t~~aI~~a~vvllviDa~~~~~~qD-~~ia~~i~~---~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~-~l~~a~i  328 (444)
T COG1160         254 TLKAIERADVVLLVIDATEGISEQD-LRIAGLIEE---AGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLP-FLDFAPI  328 (444)
T ss_pred             hHhHHhhcCEEEEEEECCCCchHHH-HHHHHHHHH---cCCCeEEEEEccccCCchhhHHHHHHHHHHHHhc-cccCCeE
Confidence            2 26788999999999999876554 222233333   56899999999998764  1111    2222222 2456789


Q ss_pred             EEeccCCCCCHHHHHHHHHHHHHH
Q psy549          189 VECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       189 ~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      +.+||+++.++.++|+.+......
T Consensus       329 ~~iSA~~~~~i~~l~~~i~~~~~~  352 (444)
T COG1160         329 VFISALTGQGLDKLFEAIKEIYEC  352 (444)
T ss_pred             EEEEecCCCChHHHHHHHHHHHHH
Confidence            999999999999999998775544

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.80  E-value=3.1e-18  Score=152.94  Aligned_cols=156  Identities=17%  Similarity=0.202  Sum_probs=104.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccc-cceeeeeeeEEcC--C--------CcE-----EEEEEEeCCCCCCCh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKE-TVEELHRGEYELP--D--------GAQ-----LTLDILDTSGAYQFP  112 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~-t~~~~~~~~~~~~--~--------~~~-----~~~~l~D~~g~~~~~  112 (253)
                      ..-|+|+|++++|||||+++|.+..+...... ++.+.....+...  .        ...     ..+.||||||++.|.
T Consensus         4 ~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~   83 (590)
T TIGR00491         4 SPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFT   83 (590)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHH
Confidence            35799999999999999999998876433222 2221111111110  0        001     138899999999999


Q ss_pred             hhHHHhcccCCEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc--------------ccHH-
Q psy549          113 AMRELSISTADAFVLVYAVDDA---STWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD--------------VRRE-  174 (253)
Q Consensus       113 ~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--------------~~~~-  174 (253)
                      .++...++.+|++++|+|+++.   .+++.+..    +..   .++|+++++||+|+....              .... 
T Consensus        84 ~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~----l~~---~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v  156 (590)
T TIGR00491        84 NLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM---YKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQV  156 (590)
T ss_pred             HHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHH----HHH---cCCCEEEEEECCCccchhhhccCchHHHHHHhhhHHH
Confidence            9999999999999999999974   44433221    111   468999999999986420              0000 


Q ss_pred             ----------HHHHHHH-------------hcCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          175 ----------IAETIAL-------------YDWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       175 ----------~~~~~~~-------------~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                                ....+..             .....+++++||++|.|+++++.++.....
T Consensus       157 ~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~  216 (590)
T TIGR00491       157 QQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQ  216 (590)
T ss_pred             HHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHH
Confidence                      0111221             123578999999999999999998876543

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.

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.79  E-value=7.6e-18  Score=125.38  Aligned_cols=159  Identities=19%  Similarity=0.252  Sum_probs=124.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCC--------CC---ccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFI--------SR---YKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM  114 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~--------~~---~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~  114 (253)
                      .....||+|+|+.++||||+++++.....+        ..   ...|+.....+.+.+.++  ..+.+++||||++|.-+
T Consensus         7 k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~--~~v~LfgtPGq~RF~fm   84 (187)
T COG2229           7 KMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDED--TGVHLFGTPGQERFKFM   84 (187)
T ss_pred             cccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCc--ceEEEecCCCcHHHHHH
Confidence            456789999999999999999999876531        11   123555555555655232  35789999999999999


Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccC
Q psy549          115 RELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       115 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      |..+.+++.++|++.|.+.+..+ .....+..+....  .+|+++++||.|+.+....+.+.+.+......++++++++.
T Consensus        85 ~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~--~ip~vVa~NK~DL~~a~ppe~i~e~l~~~~~~~~vi~~~a~  161 (187)
T COG2229          85 WEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRN--PIPVVVAINKQDLFDALPPEKIREALKLELLSVPVIEIDAT  161 (187)
T ss_pred             HHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhcc--CCCEEEEeeccccCCCCCHHHHHHHHHhccCCCceeeeecc
Confidence            99999999999999999999887 3333444333322  29999999999999988888888888874468999999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy549          195 ENYNIVQVFKELLAQ  209 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~  209 (253)
                      ++.+..+.++.+...
T Consensus       162 e~~~~~~~L~~ll~~  176 (187)
T COG2229         162 EGEGARDQLDVLLLK  176 (187)
T ss_pred             cchhHHHHHHHHHhh
Confidence            999999998877655

>cd00880 Era_like Era (E

Probab=99.79  E-value=2.6e-18  Score=129.24  Aligned_cols=150  Identities=21%  Similarity=0.209  Sum_probs=106.2

Q ss_pred             EECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh-------hHHHhcccCCE
Q psy549           54 VMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA-------MRELSISTADA  124 (253)
Q Consensus        54 iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~-------~~~~~~~~~d~  124 (253)
                      |+|++|+|||||++++.+...  ......++...........+  ...+.+||+||...+..       ....++..+|+
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~   78 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGP--LGPVVLIDTPGIDEAGGLGREREELARRVLERADL   78 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecC--CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCE
Confidence            589999999999999998654  23344444455544444421  35789999999877643       33347889999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHH---HHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREI---AETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~---~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      +++|+|..+........ +.....   ..+.|+++|+||+|+.........   ...........+++++|++++.|+.+
T Consensus        79 il~v~~~~~~~~~~~~~-~~~~~~---~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~  154 (163)
T cd00880          79 ILFVVDADLRADEEEEK-LLELLR---ERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDE  154 (163)
T ss_pred             EEEEEeCCCCCCHHHHH-HHHHHH---hcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHH
Confidence            99999999987765543 233222   256899999999998765322222   12222335678999999999999999


Q ss_pred             HHHHHHHH
Q psy549          202 VFKELLAQ  209 (253)
Q Consensus       202 l~~~l~~~  209 (253)
                      +++++.+.
T Consensus       155 l~~~l~~~  162 (163)
T cd00880         155 LREALIEA  162 (163)
T ss_pred             HHHHHHhh
Confidence            99998765

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

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.79  E-value=6.5e-18  Score=151.94  Aligned_cols=158  Identities=17%  Similarity=0.227  Sum_probs=112.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CCC-----Ccccc------ce-eeeee--eEEc--CCCcEEEEEEEeCCCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FIS-----RYKET------VE-ELHRG--EYEL--PDGAQLTLDILDTSGAY  109 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~-----~~~~t------~~-~~~~~--~~~~--~~~~~~~~~l~D~~g~~  109 (253)
                      ...+|+|+|+.++|||||+++|+...  +..     .+..+      .. .....  .+.+  .++..+.+.||||||+.
T Consensus         6 ~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~   85 (600)
T PRK05433          6 NIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHV   85 (600)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcH
Confidence            45699999999999999999998632  111     11000      00 11111  1222  25667899999999999


Q ss_pred             CChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCC---C
Q psy549          110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQ---C  186 (253)
Q Consensus       110 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~---~  186 (253)
                      +|...+..+++.+|++|+|+|++++...+....|.....    .++|+++|+||+|+.+... ....+.+.. ..+   .
T Consensus        86 dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~----~~lpiIvViNKiDl~~a~~-~~v~~ei~~-~lg~~~~  159 (600)
T PRK05433         86 DFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE----NDLEIIPVLNKIDLPAADP-ERVKQEIED-VIGIDAS  159 (600)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEEEECCCCCcccH-HHHHHHHHH-HhCCCcc
Confidence            999999999999999999999998766666555544321    4689999999999865322 223334433 122   2


Q ss_pred             cEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          187 GFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       187 ~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      .++++||++|.|+.+++++|.+.+.
T Consensus       160 ~vi~iSAktG~GI~~Ll~~I~~~lp  184 (600)
T PRK05433        160 DAVLVSAKTGIGIEEVLEAIVERIP  184 (600)
T ss_pred             eEEEEecCCCCCHHHHHHHHHHhCc
Confidence            4899999999999999999998774

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.78  E-value=1.2e-17  Score=153.56  Aligned_cols=152  Identities=16%  Similarity=0.236  Sum_probs=113.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh----------HHH
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM----------REL  117 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~----------~~~  117 (253)
                      .++|+++|+||||||||+|++++... +.+.+.++.+.....+.. +  ...+.+||+||...+...          ...
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~~~-~--~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~   79 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFST-T--DHQVTLVDLPGTYSLTTISSQTSLDEQIACH   79 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEeeEEEEEEc-C--ceEEEEEECCCccccccccccccHHHHHHHH
Confidence            47899999999999999999998653 566677777666666655 3  357899999998876431          111


Q ss_pred             h--cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          118 S--ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       118 ~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      +  ...+|++++|+|+++.+..   ..+...+..   .++|+++|+||+|+.+........+.+.+ ..+++++++|+.+
T Consensus        80 ~l~~~~aD~vI~VvDat~ler~---l~l~~ql~e---~giPvIvVlNK~Dl~~~~~i~id~~~L~~-~LG~pVvpiSA~~  152 (772)
T PRK09554         80 YILSGDADLLINVVDASNLERN---LYLTLQLLE---LGIPCIVALNMLDIAEKQNIRIDIDALSA-RLGCPVIPLVSTR  152 (772)
T ss_pred             HHhccCCCEEEEEecCCcchhh---HHHHHHHHH---cCCCEEEEEEchhhhhccCcHHHHHHHHH-HhCCCEEEEEeec
Confidence            2  2479999999999875432   234344433   46899999999998755343455667766 5788999999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQA  210 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~  210 (253)
                      +.|++++++.+.+..
T Consensus       153 g~GIdeL~~~I~~~~  167 (772)
T PRK09554        153 GRGIEALKLAIDRHQ  167 (772)
T ss_pred             CCCHHHHHHHHHHhh
Confidence            999999999987765

>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=99.78  E-value=3.3e-17  Score=131.52  Aligned_cols=150  Identities=23%  Similarity=0.272  Sum_probs=106.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh-------hhHHHhcccC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP-------AMRELSISTA  122 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-------~~~~~~~~~~  122 (253)
                      +|+++|++|+|||||+++|.+... ...++.++.+...+.+.+ ++  ..+++||+||..+..       ......++++
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~-~~--~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~a   78 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEY-KG--AKIQLLDLPGIIEGAADGKGRGRQVIAVARTA   78 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEE-CC--eEEEEEECCCcccccccchhHHHHHHHhhccC
Confidence            789999999999999999998663 566677777777777777 44  578999999975432       1234578899


Q ss_pred             CEEEEEEECCChhh-HHHHHHHHHH----------------------------------------HH-Hh----------
Q psy549          123 DAFVLVYAVDDAST-WDVVKDLREQ----------------------------------------IV-NK----------  150 (253)
Q Consensus       123 d~~i~v~d~~~~~s-~~~~~~~~~~----------------------------------------~~-~~----------  150 (253)
                      |++++|+|+++... ...+...++.                                        +. .+          
T Consensus        79 d~il~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~  158 (233)
T cd01896          79 DLILMVLDATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIR  158 (233)
T ss_pred             CEEEEEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEc
Confidence            99999999987542 2222111110                                        00 00          


Q ss_pred             --------------cCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          151 --------------RGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       151 --------------~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                                    ....+|+++|+||+|+..    .+....++.   ..+++++||+++.|++++|+.|++.+
T Consensus       159 ~~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl~~----~~~~~~~~~---~~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         159 EDITVDDLIDVIEGNRVYIPCLYVYNKIDLIS----IEELDLLAR---QPNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             cCCCHHHHHHHHhCCceEeeEEEEEECccCCC----HHHHHHHhc---CCCEEEEcCCCCCCHHHHHHHHHHHh
Confidence                          012369999999999854    333334443   24589999999999999999999876

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.

>PRK10218 GTP-binding protein; Provisional

Probab=99.76  E-value=5.6e-17  Score=145.37  Aligned_cols=159  Identities=16%  Similarity=0.220  Sum_probs=111.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh--CCCCCCcc------------ccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCCh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY--DRFISRYK------------ETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFP  112 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~--~~~~~~~~------------~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~  112 (253)
                      ...+|+|+|+.++|||||+++|+.  +.+.....            .+.. ........+ +...+.+.+|||||+.+|.
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i-~~~~~~inliDTPG~~df~   82 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAI-KWNDYRINIVDTPGHADFG   82 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEE-ecCCEEEEEEECCCcchhH
Confidence            457999999999999999999996  33322110            1111 333333444 4456789999999999999


Q ss_pred             hhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc---ccHHHHHHHHH-----hcC
Q psy549          113 AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD---VRREIAETIAL-----YDW  184 (253)
Q Consensus       113 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~-----~~~  184 (253)
                      ..+..+++.+|++|+|+|+.+....+. ..++..+..   .++|+++|+||+|+....   +..++...+..     ...
T Consensus        83 ~~v~~~l~~aDg~ILVVDa~~G~~~qt-~~~l~~a~~---~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~  158 (607)
T PRK10218         83 GEVERVMSMVDSVLLVVDAFDGPMPQT-RFVTKKAFA---YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQL  158 (607)
T ss_pred             HHHHHHHHhCCEEEEEEecccCccHHH-HHHHHHHHH---cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCcccccc
Confidence            999999999999999999988643333 333333333   458999999999987652   22333333322     123


Q ss_pred             CCcEEEeccCCCC----------CHHHHHHHHHHHHH
Q psy549          185 QCGFVECSAKENY----------NIVQVFKELLAQAK  211 (253)
Q Consensus       185 ~~~~~~~Sa~~~~----------~i~~l~~~l~~~~~  211 (253)
                      .+|++.+||++|.          ++..+|+.|++.+.
T Consensus       159 ~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP  195 (607)
T PRK10218        159 DFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVP  195 (607)
T ss_pred             CCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCC
Confidence            5789999999998          58888888877763

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.75  E-value=1.1e-16  Score=143.66  Aligned_cols=157  Identities=20%  Similarity=0.250  Sum_probs=102.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCcccc-ceeeeeeeEEcC-----CCcE-----E-----EEEEEeCCCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKET-VEELHRGEYELP-----DGAQ-----L-----TLDILDTSGAYQ  110 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t-~~~~~~~~~~~~-----~~~~-----~-----~~~l~D~~g~~~  110 (253)
                      ...+.|+|+|++++|||||+++|.+.......... +.+.....+...     .+..     +     .+.||||||++.
T Consensus         4 ~R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~   83 (586)
T PRK04004          4 LRQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEA   83 (586)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHH
Confidence            34568999999999999999999876553322211 111100000110     0111     1     268999999999


Q ss_pred             ChhhHHHhcccCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-c--c-------------
Q psy549          111 FPAMRELSISTADAFVLVYAVDD---ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-D--V-------------  171 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~--~-------------  171 (253)
                      |..++...+..+|++++|+|+++   +.++..+..    +..   .++|+++++||+|+... .  .             
T Consensus        84 f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~----~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~  156 (586)
T PRK04004         84 FTNLRKRGGALADIAILVVDINEGFQPQTIEAINI----LKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQ  156 (586)
T ss_pred             HHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHH----HHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhH
Confidence            99998888899999999999997   444443322    111   46899999999998521 0  0             


Q ss_pred             --c-------HHHHHHHHHh-------------cCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          172 --R-------REIAETIALY-------------DWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       172 --~-------~~~~~~~~~~-------------~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                        .       .+....+...             ...++++++||++|.|+.+++..+...+
T Consensus       157 ~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        157 RVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence              0       0111122211             2347899999999999999998886544

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.74  E-value=2.2e-17  Score=120.30  Aligned_cols=136  Identities=19%  Similarity=0.187  Sum_probs=92.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC----ChhhHHHhcccCCEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ----FPAMRELSISTADAFV  126 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~----~~~~~~~~~~~~d~~i  126 (253)
                      ||+++|+.|+|||||+++|.+......  .|      ..+.+      .=.++||||..-    |.........+||.++
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~~~~--KT------q~i~~------~~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~   68 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEIRYK--KT------QAIEY------YDNTIDTPGEYIENPRFYHALIVTAQDADVVL   68 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCCCcC--cc------ceeEe------cccEEECChhheeCHHHHHHHHHHHhhCCEEE
Confidence            899999999999999999998765211  11      11222      113589999543    2222233456899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      +|.|++++.+... ..+...      .+.|++-|+||+|+..+....+.++.+.+..+.-.+|++|+.+|.||++|.++|
T Consensus        69 ll~dat~~~~~~p-P~fa~~------f~~pvIGVITK~Dl~~~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L  141 (143)
T PF10662_consen   69 LLQDATEPRSVFP-PGFASM------FNKPVIGVITKIDLPSDDANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDYL  141 (143)
T ss_pred             EEecCCCCCccCC-chhhcc------cCCCEEEEEECccCccchhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHHH
Confidence            9999998765332 111111      347999999999999544444444444443444567999999999999999887


Q ss_pred             H
Q psy549          207 L  207 (253)
Q Consensus       207 ~  207 (253)
                      -
T Consensus       142 ~  142 (143)
T PF10662_consen  142 E  142 (143)
T ss_pred             h
Confidence            3

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

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.74  E-value=4.9e-17  Score=145.84  Aligned_cols=157  Identities=16%  Similarity=0.239  Sum_probs=110.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh--CCCCCCcc------------ccc-eeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY--DRFISRYK------------ETV-EELHRGEYELPDGAQLTLDILDTSGAYQFPAM  114 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~--~~~~~~~~------------~t~-~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~  114 (253)
                      -+|+|+|+.++|||||+++|+.  +.+.....            ... .........+ +...+.+.||||||+.+|...
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v-~~~~~kinlIDTPGh~DF~~e   80 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAI-RYNGTKINIVDTPGHADFGGE   80 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEE-EECCEEEEEEECCCHHHHHHH
Confidence            3799999999999999999996  22321100            000 1222233333 334578999999999999999


Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc---ccHHHHHHHHH-----hcCCC
Q psy549          115 RELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD---VRREIAETIAL-----YDWQC  186 (253)
Q Consensus       115 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~-----~~~~~  186 (253)
                      +..+++.+|++++|+|+.+.. ......|+..+..   .++|+++|+||+|+.+..   +..+..+.+..     ....+
T Consensus        81 v~~~l~~aD~alLVVDa~~G~-~~qT~~~l~~a~~---~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~  156 (594)
T TIGR01394        81 VERVLGMVDGVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDF  156 (594)
T ss_pred             HHHHHHhCCEEEEEEeCCCCC-cHHHHHHHHHHHH---CCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccC
Confidence            999999999999999998753 2334455555544   458999999999987542   23333444432     12357


Q ss_pred             cEEEeccCCCC----------CHHHHHHHHHHHHH
Q psy549          187 GFVECSAKENY----------NIVQVFKELLAQAK  211 (253)
Q Consensus       187 ~~~~~Sa~~~~----------~i~~l~~~l~~~~~  211 (253)
                      |++++||++|.          |+..+|+.+++.+.
T Consensus       157 pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP  191 (594)
T TIGR01394       157 PIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVP  191 (594)
T ss_pred             cEEechhhcCcccccCcccccCHHHHHHHHHHhCC
Confidence            89999999996          79999999888774

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.74  E-value=3.7e-17  Score=141.51  Aligned_cols=162  Identities=16%  Similarity=0.092  Sum_probs=102.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCcc----ccceeeeee--------------eEEcC---CC------cEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYK----ETVEELHRG--------------EYELP---DG------AQLT   99 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~----~t~~~~~~~--------------~~~~~---~~------~~~~   99 (253)
                      .+.++|+++|++++|||||+++|.+........    ..+......              .+...   ++      ....
T Consensus         2 ~~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (406)
T TIGR03680         2 QPEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRR   81 (406)
T ss_pred             CceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccE
Confidence            467899999999999999999997532211000    000000000              00000   11      1357


Q ss_pred             EEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccH---HHH
Q psy549          100 LDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRR---EIA  176 (253)
Q Consensus       100 ~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~---~~~  176 (253)
                      +.+||+||+++|...+...+..+|++++|+|++++.........+..+...  ...|+++|+||+|+.+.....   +..
T Consensus        82 i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~--gi~~iIVvvNK~Dl~~~~~~~~~~~~i  159 (406)
T TIGR03680        82 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEII--GIKNIVIVQNKIDLVSKEKALENYEEI  159 (406)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHc--CCCeEEEEEEccccCCHHHHHHHHHHH
Confidence            899999999999888877888899999999999753111112222222221  124789999999987642221   122


Q ss_pred             HHHHHhc--CCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          177 ETIALYD--WQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       177 ~~~~~~~--~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ..+....  ..++++++||++|.|+++++++|...+
T Consensus       160 ~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l  195 (406)
T TIGR03680       160 KEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFI  195 (406)
T ss_pred             HhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhC
Confidence            2222211  257899999999999999999998765

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.74  E-value=4.8e-17  Score=141.92  Aligned_cols=154  Identities=24%  Similarity=0.298  Sum_probs=98.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCCC------------------------------ccccceeeeeeeEEcC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FISR------------------------------YKETVEELHRGEYELP   93 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~------------------------------~~~t~~~~~~~~~~~~   93 (253)
                      .++.++|+++|++++|||||+++|+...  +...                              ...++.+.....+.. 
T Consensus         3 ~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~-   81 (425)
T PRK12317          3 EKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFET-   81 (425)
T ss_pred             CCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEec-
Confidence            3567999999999999999999998432  1110                              123333444444433 


Q ss_pred             CCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc---
Q psy549           94 DGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD---  170 (253)
Q Consensus        94 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---  170 (253)
                        ..+.+.||||||+++|.......+..+|++++|+|+++...+.....+...+.... ...|+++|+||+|+....   
T Consensus        82 --~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~-~~~~iivviNK~Dl~~~~~~~  158 (425)
T PRK12317         82 --DKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL-GINQLIVAINKMDAVNYDEKR  158 (425)
T ss_pred             --CCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc-CCCeEEEEEEccccccccHHH
Confidence              34678999999999887666666789999999999987312212122211122221 124689999999987521   


Q ss_pred             ---ccHHHHHHHHHhcC---CCcEEEeccCCCCCHHHHH
Q psy549          171 ---VRREIAETIALYDW---QCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       171 ---~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~i~~l~  203 (253)
                         ...+..+.+.....   .++++++||++|.|+.++.
T Consensus       159 ~~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~  197 (425)
T PRK12317        159 YEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKS  197 (425)
T ss_pred             HHHHHHHHHHHHHhhCCCcCcceEEEeecccCCCccccc
Confidence               11122222222222   3679999999999998754

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.74  E-value=7.1e-17  Score=127.67  Aligned_cols=146  Identities=21%  Similarity=0.143  Sum_probs=91.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC--CCCC------------------------------ccccceeeeeeeEEcCCCcEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR--FISR------------------------------YKETVEELHRGEYELPDGAQL   98 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~--~~~~------------------------------~~~t~~~~~~~~~~~~~~~~~   98 (253)
                      +|+|+|++|+|||||+++|+...  +...                              ...++.+.....+.. ++  .
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~-~~--~   77 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFST-PK--R   77 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEec-CC--c
Confidence            68999999999999999998532  1100                              012223333333333 33  4


Q ss_pred             EEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc--c---H
Q psy549           99 TLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV--R---R  173 (253)
Q Consensus        99 ~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~---~  173 (253)
                      .+.||||||+.+|.......++.+|++|+|+|++++..-.. ...+..+...  ...++++|+||+|+.....  .   .
T Consensus        78 ~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~-~~~~~~~~~~--~~~~iIvviNK~D~~~~~~~~~~~i~  154 (208)
T cd04166          78 KFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT-RRHSYILSLL--GIRHVVVAVNKMDLVDYSEEVFEEIV  154 (208)
T ss_pred             eEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhH-HHHHHHHHHc--CCCcEEEEEEchhcccCCHHHHHHHH
Confidence            67899999998887666677899999999999987642222 1222222221  1245788999999865311  1   1


Q ss_pred             HHHHHHHHhcC--CCcEEEeccCCCCCHHHH
Q psy549          174 EIAETIALYDW--QCGFVECSAKENYNIVQV  202 (253)
Q Consensus       174 ~~~~~~~~~~~--~~~~~~~Sa~~~~~i~~l  202 (253)
                      ...+.+.....  ..+++++||++|.|+.+.
T Consensus       155 ~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         155 ADYLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            12222222111  356899999999998753

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.

>KOG1423|consensus

Probab=99.73  E-value=5.7e-17  Score=129.64  Aligned_cols=163  Identities=21%  Similarity=0.185  Sum_probs=116.1

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh---------
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP---------  112 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~---------  112 (253)
                      +......+|++||.||+|||||.|.+++.+.  ++....|++....+.++.++   ..+.|+||||.-.-.         
T Consensus        67 ~e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~e---TQlvf~DTPGlvs~~~~r~~~l~~  143 (379)
T KOG1423|consen   67 EEAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGE---TQLVFYDTPGLVSKKMHRRHHLMM  143 (379)
T ss_pred             hhcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCc---eEEEEecCCcccccchhhhHHHHH
Confidence            4457789999999999999999999999885  67788899888888888733   467799999943311         


Q ss_pred             ---hhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc--------------c---cc
Q psy549          113 ---AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK--------------D---VR  172 (253)
Q Consensus       113 ---~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--------------~---~~  172 (253)
                         ..-...+.+||++++|+|+++....-. ...+..+..+  ..+|-++|.||.|....              +   ..
T Consensus       144 s~lq~~~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~~y--s~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~k  220 (379)
T KOG1423|consen  144 SVLQNPRDAAQNADCVVVVVDASATRTPLH-PRVLHMLEEY--SKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLK  220 (379)
T ss_pred             HhhhCHHHHHhhCCEEEEEEeccCCcCccC-hHHHHHHHHH--hcCCceeeccchhcchhhhHHhhhHHhccccccchhh
Confidence               112235778999999999997432211 2222233333  34899999999996543              1   12


Q ss_pred             HHHHHHHHHhc----------C--CCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          173 REIAETIALYD----------W--QCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       173 ~~~~~~~~~~~----------~--~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      .++.+.+....          |  ...+|.+||++|.||+++-++|...+..
T Consensus       221 l~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~~  272 (379)
T KOG1423|consen  221 LEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAPP  272 (379)
T ss_pred             hhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCCC
Confidence            34444444422          2  3358999999999999999999887643

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.73  E-value=5e-17  Score=141.81  Aligned_cols=154  Identities=21%  Similarity=0.207  Sum_probs=99.7

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhC--CCCCC------------------------------ccccceeeeeeeEEc
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYD--RFISR------------------------------YKETVEELHRGEYEL   92 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~--~~~~~------------------------------~~~t~~~~~~~~~~~   92 (253)
                      ..++.++|+++|+.++|||||+++|+..  .+...                              ....+.+.....+..
T Consensus         3 ~~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~   82 (426)
T TIGR00483         3 KEKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFET   82 (426)
T ss_pred             CCCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEcc
Confidence            3567799999999999999999999852  22100                              011222333333333


Q ss_pred             CCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHH--HHHHhcCCCCCEEEEEecCCCCCc-
Q psy549           93 PDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLRE--QIVNKRGLMVPIVVVGNKCELEFK-  169 (253)
Q Consensus        93 ~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~--~~~~~~~~~~piilv~nK~Dl~~~-  169 (253)
                         ..+.+.|||+||+++|.......+..+|++++|+|++++.++.. ..+..  .+.... ...|+++|+||+|+.+. 
T Consensus        83 ---~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~-~~t~~~~~~~~~~-~~~~iIVviNK~Dl~~~~  157 (426)
T TIGR00483        83 ---DKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQ-PQTREHAFLARTL-GINQLIVAINKMDSVNYD  157 (426)
T ss_pred             ---CCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccC-CchHHHHHHHHHc-CCCeEEEEEEChhccCcc
Confidence               34688999999999887766667889999999999998854321 11111  122221 23578999999999642 


Q ss_pred             c----ccHHHHHHHHHhcC----CCcEEEeccCCCCCHHHHH
Q psy549          170 D----VRREIAETIALYDW----QCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       170 ~----~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~i~~l~  203 (253)
                      .    ......+.+.+...    .++++++||++|.|+.+++
T Consensus       158 ~~~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       158 EEEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcccceEEEeeccccccccccc
Confidence            1    11222233333121    3689999999999998744

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.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.73  E-value=1.1e-16  Score=128.79  Aligned_cols=113  Identities=19%  Similarity=0.249  Sum_probs=79.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC--C-----C------Cccc---cce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChh
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF--I-----S------RYKE---TVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPA  113 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~--~-----~------~~~~---t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~  113 (253)
                      +|+++|+.|+|||||+++|+...-  .     .      ++..   ... ........+ +...+++.+|||||+.+|..
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~-~~~~~~i~liDTPG~~~f~~   79 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASF-QWEDTKVNLIDTPGHMDFIA   79 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEE-EECCEEEEEEeCCCccchHH
Confidence            589999999999999999986321  0     0      0000   000 111222222 33456889999999999999


Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549          114 MRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus       114 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      .+..+++.+|++++|+|+.+..... ...++..+..   .++|+++|+||+|+..
T Consensus        80 ~~~~~l~~aD~~IlVvd~~~g~~~~-~~~~~~~~~~---~~~P~iivvNK~D~~~  130 (237)
T cd04168          80 EVERSLSVLDGAILVISAVEGVQAQ-TRILWRLLRK---LNIPTIIFVNKIDRAG  130 (237)
T ss_pred             HHHHHHHHhCeEEEEEeCCCCCCHH-HHHHHHHHHH---cCCCEEEEEECccccC
Confidence            8999999999999999999875533 3445554443   4689999999999874

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.

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.73  E-value=1.8e-16  Score=126.29  Aligned_cols=154  Identities=15%  Similarity=0.167  Sum_probs=97.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccce---------------eeeeeeEEc---------------------CC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVE---------------ELHRGEYEL---------------------PD   94 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~---------------~~~~~~~~~---------------------~~   94 (253)
                      ||+++|+.++|||||+++|..+.+.........               ......+.+                     ..
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            689999999999999999997655321110000               000000000                     01


Q ss_pred             CcEEEEEEEeCCCCCCChhhHHHhcc--cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcccc
Q psy549           95 GAQLTLDILDTSGAYQFPAMRELSIS--TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR  172 (253)
Q Consensus        95 ~~~~~~~l~D~~g~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~  172 (253)
                      .....+.++|+||+++|.......+.  .+|++++|+|+..+..-.. ..++..+..   .++|+++|+||+|+.+....
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d-~~~l~~l~~---~~ip~ivvvNK~D~~~~~~~  156 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMT-KEHLGLALA---LNIPVFVVVTKIDLAPANIL  156 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCEEEEEECccccCHHHH
Confidence            11246789999999988665554443  6899999999987644222 333333333   45899999999998654222


Q ss_pred             HHHHHHHHHh----------------------------cCCCcEEEeccCCCCCHHHHHHHHHH
Q psy549          173 REIAETIALY----------------------------DWQCGFVECSAKENYNIVQVFKELLA  208 (253)
Q Consensus       173 ~~~~~~~~~~----------------------------~~~~~~~~~Sa~~~~~i~~l~~~l~~  208 (253)
                      ......+...                            ...+|+|.+|+.+|.|++++...|..
T Consensus       157 ~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         157 QETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             HHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence            2222322221                            22458999999999999999987643

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

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.73  E-value=1.5e-16  Score=120.94  Aligned_cols=149  Identities=17%  Similarity=0.172  Sum_probs=94.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCC----------hhhHHHhc
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQF----------PAMRELSI  119 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~----------~~~~~~~~  119 (253)
                      .|+++|++|+|||||++.+.+..+.....++.. ......+.. ++   .+.+||+||....          ......++
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~-~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~   76 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNV-ND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYL   76 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEc-cC---eEEEecCCCccccccCHHHHHHHHHHHHHHH
Confidence            489999999999999999996554332222222 222223333 32   7889999995442          33333333


Q ss_pred             c---cCCEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHH----HHHhcCCCcEEE
Q psy549          120 S---TADAFVLVYAVDDASTWD--VVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAET----IALYDWQCGFVE  190 (253)
Q Consensus       120 ~---~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~----~~~~~~~~~~~~  190 (253)
                      .   ..+++++++|.....+..  .+..|+.   .   .+.|+++|+||+|+............    +.......++++
T Consensus        77 ~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~---~---~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  150 (170)
T cd01876          77 ENRENLKGVVLLIDSRHGPTEIDLEMLDWLE---E---LGIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIIL  150 (170)
T ss_pred             HhChhhhEEEEEEEcCcCCCHhHHHHHHHHH---H---cCCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEE
Confidence            3   457889999987653222  2233332   2   24799999999998544222212222    221245678999


Q ss_pred             eccCCCCCHHHHHHHHHHH
Q psy549          191 CSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~  209 (253)
                      +|++++.++.+++++|.+.
T Consensus       151 ~Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         151 FSSLKGQGIDELRALIEKW  169 (170)
T ss_pred             EecCCCCCHHHHHHHHHHh
Confidence            9999999999999999875

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.

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.72  E-value=3.7e-16  Score=121.93  Aligned_cols=144  Identities=18%  Similarity=0.169  Sum_probs=93.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC--------CC---------CccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF--------IS---------RYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF  111 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~--------~~---------~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~  111 (253)
                      .++|+++|+.++|||||+++|+....        ..         .....+.+..  ...+ ......+.|+||||+..|
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~--~~~~-~~~~~~i~~iDtPG~~~~   78 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTA--HVEY-ETANRHYAHVDCPGHADY   78 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEee--eeEe-cCCCeEEEEEECcCHHHH
Confidence            57999999999999999999985310        00         0111122222  2223 223456789999999888


Q ss_pred             hhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCc-c----ccHHHHHHHHHhcC-
Q psy549          112 PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFK-D----VRREIAETIALYDW-  184 (253)
Q Consensus       112 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~-~----~~~~~~~~~~~~~~-  184 (253)
                      .......+..+|++++|+|+..+..-.. ...+..+..   .++| +++|+||+|+... .    ...++...+....+ 
T Consensus        79 ~~~~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~---~~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~  154 (195)
T cd01884          79 IKNMITGAAQMDGAILVVSATDGPMPQT-REHLLLARQ---VGVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFD  154 (195)
T ss_pred             HHHHHHHhhhCCEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhccc
Confidence            7777778889999999999987543222 223333333   3466 7889999998643 1    11223333333222 


Q ss_pred             --CCcEEEeccCCCCCH
Q psy549          185 --QCGFVECSAKENYNI  199 (253)
Q Consensus       185 --~~~~~~~Sa~~~~~i  199 (253)
                        .++++++||++|.++
T Consensus       155 ~~~v~iipiSa~~g~n~  171 (195)
T cd01884         155 GDNTPIVRGSALKALEG  171 (195)
T ss_pred             ccCCeEEEeeCccccCC
Confidence              478999999999985

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.72  E-value=2.4e-16  Score=142.13  Aligned_cols=156  Identities=17%  Similarity=0.181  Sum_probs=103.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC---CCCCc-cccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR---FISRY-KETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~---~~~~~-~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      +-|+++|+.++|||||+++|.+..   +..+. ...+.+.....+..+++.  .+.|||+||+++|.......+..+|++
T Consensus         1 ~ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~--~i~~IDtPGhe~fi~~m~~g~~~~D~~   78 (614)
T PRK10512          1 MIIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGR--VLGFIDVPGHEKFLSNMLAGVGGIDHA   78 (614)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCc--EEEEEECCCHHHHHHHHHHHhhcCCEE
Confidence            358999999999999999998633   32221 222333333334343443  478999999999877777778999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCcccc----HHHHHHHHHhc-CCCcEEEeccCCCCCH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFKDVR----REIAETIALYD-WQCGFVECSAKENYNI  199 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~----~~~~~~~~~~~-~~~~~~~~Sa~~~~~i  199 (253)
                      ++|+|++++..-+..+ .+..+..   .++| +++|+||+|+.+....    .+..+.+.... ...+++++|+++|.|+
T Consensus        79 lLVVda~eg~~~qT~e-hl~il~~---lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI  154 (614)
T PRK10512         79 LLVVACDDGVMAQTRE-HLAILQL---TGNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGI  154 (614)
T ss_pred             EEEEECCCCCcHHHHH-HHHHHHH---cCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCC
Confidence            9999998743222212 1222222   3355 5799999998754221    22222222212 1378999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy549          200 VQVFKELLAQAK  211 (253)
Q Consensus       200 ~~l~~~l~~~~~  211 (253)
                      ++++++|.+...
T Consensus       155 ~~L~~~L~~~~~  166 (614)
T PRK10512        155 DALREHLLQLPE  166 (614)
T ss_pred             HHHHHHHHHhhc
Confidence            999999987653

>KOG0074|consensus

Probab=99.72  E-value=7.4e-17  Score=114.50  Aligned_cols=160  Identities=18%  Similarity=0.252  Sum_probs=122.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..++||+++|-.++|||||+..|.+.... ...+| .-+..+.+.+ ++ .+++.+||.+|+...+..|..+|.+.|++|
T Consensus        15 ~rEirilllGldnAGKTT~LKqL~sED~~-hltpT-~GFn~k~v~~-~g-~f~LnvwDiGGqr~IRpyWsNYyenvd~lI   90 (185)
T KOG0074|consen   15 RREIRILLLGLDNAGKTTFLKQLKSEDPR-HLTPT-NGFNTKKVEY-DG-TFHLNVWDIGGQRGIRPYWSNYYENVDGLI   90 (185)
T ss_pred             cceEEEEEEecCCCcchhHHHHHccCChh-hcccc-CCcceEEEee-cC-cEEEEEEecCCccccchhhhhhhhccceEE
Confidence            57899999999999999999998876642 22222 2344455555 43 478999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHHhc---CCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIALYD---WQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~---~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|.|.+|..-|+.+...+.++.. ..-..+|+++..||.|+......++++..+....   ..+.+.+||+.++.|+.+-
T Consensus        91 yVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~~eeia~klnl~~lrdRswhIq~csals~eg~~dg  170 (185)
T KOG0074|consen   91 YVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAKVEEIALKLNLAGLRDRSWHIQECSALSLEGSTDG  170 (185)
T ss_pred             EEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcchHHHHHhcchhhhhhceEEeeeCccccccCccCc
Confidence            99999998888877665555554 2224589999999999988766666666554322   2345678999999999999


Q ss_pred             HHHHHHHH
Q psy549          203 FKELLAQA  210 (253)
Q Consensus       203 ~~~l~~~~  210 (253)
                      .+|+....
T Consensus       171 ~~wv~sn~  178 (185)
T KOG0074|consen  171 SDWVQSNP  178 (185)
T ss_pred             chhhhcCC
Confidence            88887643

>KOG1707|consensus

Probab=99.72  E-value=8.3e-17  Score=138.53  Aligned_cols=178  Identities=25%  Similarity=0.305  Sum_probs=127.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....+||+++|+.|+||||||-.++.++|+...+..........-..++  .+...++|++..+.-+.....-++.||++
T Consensus         6 t~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IPadvtPe--~vpt~ivD~ss~~~~~~~l~~EirkA~vi   83 (625)
T KOG1707|consen    6 TLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIPADVTPE--NVPTSIVDTSSDSDDRLCLRKEIRKADVI   83 (625)
T ss_pred             CccceEEEEECCCCccHHHHHHHHHhhhccccccccCCccccCCccCcC--cCceEEEecccccchhHHHHHHHhhcCEE
Confidence            4567999999999999999999999999977665544322222111223  34578999987666666666778999999


Q ss_pred             EEEEECCChhhHHHHHH-HHHHHHHhcC--CCCCEEEEEecCCCCCcccc--H-HHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          126 VLVYAVDDASTWDVVKD-LREQIVNKRG--LMVPIVVVGNKCELEFKDVR--R-EIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~-~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~--~-~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      .+||+++++.+.+.+.. |+..+.+..+  .++|||+|+||+|.......  + .....+.........++|||++-.++
T Consensus        84 ~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n~  163 (625)
T KOG1707|consen   84 CLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLANV  163 (625)
T ss_pred             EEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhhh
Confidence            99999999999998655 6666655432  56999999999998765222  1 23333333233345689999999999


Q ss_pred             HHHHHHHHHHHHHhcccChhhccccccC
Q psy549          200 VQVFKELLAQAKVQYNLSPAVRRRRQSL  227 (253)
Q Consensus       200 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~  227 (253)
                      .|+|...-+.+  .++..|++.+..+.+
T Consensus       164 ~e~fYyaqKaV--ihPt~PLyda~~qel  189 (625)
T KOG1707|consen  164 SELFYYAQKAV--IHPTSPLYDAEEQEL  189 (625)
T ss_pred             Hhhhhhhhhee--eccCccccccccccc
Confidence            99997765555  566777777665544

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.71  E-value=4.4e-16  Score=126.13  Aligned_cols=160  Identities=22%  Similarity=0.256  Sum_probs=119.0

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC-Ch--------hhH
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ-FP--------AMR  115 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~-~~--------~~~  115 (253)
                      +.+...|+|.|.||||||||++.+.+.+. +..|+.||...+.+.+.. ++  .++|++||||.-+ --        ...
T Consensus       165 dp~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~-~~--~R~QvIDTPGlLDRPl~ErN~IE~qAi  241 (346)
T COG1084         165 DPDLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFER-GY--LRIQVIDTPGLLDRPLEERNEIERQAI  241 (346)
T ss_pred             CCCCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeeeec-CC--ceEEEecCCcccCCChHHhcHHHHHHH
Confidence            45778999999999999999999999876 789999999999888877 43  5789999999432 11        111


Q ss_pred             HHhcccCCEEEEEEECCC--hhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEecc
Q psy549          116 ELSISTADAFVLVYAVDD--ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSA  193 (253)
Q Consensus       116 ~~~~~~~d~~i~v~d~~~--~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  193 (253)
                      ...-.-+++++|+||++.  .-+.+....++..+.....  .|+++|+||+|+.+.....+....+.. ..+.....+++
T Consensus       242 ~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~~~e~~~~~~~~~~~-~~~~~~~~~~~  318 (346)
T COG1084         242 LALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIADEEKLEEIEASVLE-EGGEEPLKISA  318 (346)
T ss_pred             HHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEecccccchhHHHHHHHHHHh-hccccccceee
Confidence            123345799999999975  3456666777777777643  899999999998865444444444444 45555678888


Q ss_pred             CCCCCHHHHHHHHHHHHH
Q psy549          194 KENYNIVQVFKELLAQAK  211 (253)
Q Consensus       194 ~~~~~i~~l~~~l~~~~~  211 (253)
                      ..+.+++.+-..+...+.
T Consensus       319 ~~~~~~d~~~~~v~~~a~  336 (346)
T COG1084         319 TKGCGLDKLREEVRKTAL  336 (346)
T ss_pred             eehhhHHHHHHHHHHHhh
Confidence            888888887777766643

>KOG1489|consensus

Probab=99.71  E-value=2.2e-16  Score=126.91  Aligned_cols=158  Identities=19%  Similarity=0.237  Sum_probs=119.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH----HH---h
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR----EL---S  118 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~----~~---~  118 (253)
                      +....|.+||-||+|||||++++...+. +..|..||..+..+.+.+.|..  .+++-|.||..+-.++.    ..   -
T Consensus       194 KsiadvGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf~--q~tVADiPGiI~GAh~nkGlG~~FLrH  271 (366)
T KOG1489|consen  194 KSIADVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDFS--QITVADIPGIIEGAHMNKGLGYKFLRH  271 (366)
T ss_pred             eeecccceecCCCCcHHHHHHHhhccCCcccccceeeeccccceeeccccc--eeEeccCccccccccccCcccHHHHHH
Confidence            4556789999999999999999999775 7899999998888888884443  48899999966543322    22   3


Q ss_pred             cccCCEEEEEEECCCh---hhHHHHHHHHHHHHHhc--CCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEecc
Q psy549          119 ISTADAFVLVYAVDDA---STWDVVKDLREQIVNKR--GLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSA  193 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~---~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  193 (253)
                      ++.++..+||.|++..   ..++.+..++.++..+.  -.+.|.++|+||+|+++.+  ......+.+...+..++++||
T Consensus       272 iER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae--~~~l~~L~~~lq~~~V~pvsA  349 (366)
T KOG1489|consen  272 IERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAE--KNLLSSLAKRLQNPHVVPVSA  349 (366)
T ss_pred             HHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHH--HHHHHHHHHHcCCCcEEEeee
Confidence            5679999999999988   66666666655555532  2568999999999986322  222455666444446999999


Q ss_pred             CCCCCHHHHHHHHHH
Q psy549          194 KENYNIVQVFKELLA  208 (253)
Q Consensus       194 ~~~~~i~~l~~~l~~  208 (253)
                      +.++++.++++.|..
T Consensus       350 ~~~egl~~ll~~lr~  364 (366)
T KOG1489|consen  350 KSGEGLEELLNGLRE  364 (366)
T ss_pred             ccccchHHHHHHHhh
Confidence            999999999988754

>cd04167 Snu114p Snu114p subfamily

Probab=99.71  E-value=2.9e-16  Score=124.69  Aligned_cols=113  Identities=24%  Similarity=0.325  Sum_probs=79.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCC-----------ccccce-------ee--eeeeEEcC--CCcEEEEEEEeCCCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISR-----------YKETVE-------EL--HRGEYELP--DGAQLTLDILDTSGA  108 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~-----------~~~t~~-------~~--~~~~~~~~--~~~~~~~~l~D~~g~  108 (253)
                      +|+|+|+.++|||||+++|+.......           +..+.+       ..  ....+.+.  ++..+.+.+|||||+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            689999999999999999997543211           001100       11  11111111  355688999999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCC
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE  167 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  167 (253)
                      .+|.......+..+|++++|+|+.+..++.. ..++.....   .++|+++|+||+|+.
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence            9998888889999999999999988766543 334443332   348999999999975

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.

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.71  E-value=2.7e-16  Score=136.08  Aligned_cols=162  Identities=17%  Similarity=0.137  Sum_probs=100.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCc----cccceeee------------------eeeEEcCC-C----cEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRY----KETVEELH------------------RGEYELPD-G----AQL   98 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~----~~t~~~~~------------------~~~~~~~~-~----~~~   98 (253)
                      ..+.++|+++|+.++|||||+.+|.+.......    ...+....                  .......+ +    ...
T Consensus         6 ~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (411)
T PRK04000          6 VQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLR   85 (411)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccccccccccc
Confidence            457799999999999999999998653111110    01111100                  00000100 0    125


Q ss_pred             EEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccH---H
Q psy549           99 TLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAS-TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRR---E  174 (253)
Q Consensus        99 ~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~---~  174 (253)
                      .+.|||+||+++|..........+|++++|+|+.++. .......+ ..+...  ...|+++|+||+|+.+.....   +
T Consensus        86 ~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l-~~l~~~--~i~~iiVVlNK~Dl~~~~~~~~~~~  162 (411)
T PRK04000         86 RVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHL-MALDII--GIKNIVIVQNKIDLVSKERALENYE  162 (411)
T ss_pred             EEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHH-HHHHHc--CCCcEEEEEEeeccccchhHHHHHH
Confidence            7899999999888766666667789999999999653 22222222 222221  124789999999987642221   2


Q ss_pred             HHHHHHHh--cCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          175 IAETIALY--DWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       175 ~~~~~~~~--~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ....+...  ....+++++||++|.|+++++++|...+
T Consensus       163 ~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l  200 (411)
T PRK04000        163 QIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEI  200 (411)
T ss_pred             HHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhC
Confidence            22222221  1257899999999999999999998765

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.71  E-value=2.8e-16  Score=138.51  Aligned_cols=155  Identities=18%  Similarity=0.248  Sum_probs=119.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC-CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh-------hHHHhc-
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR-FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA-------MRELSI-  119 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~-------~~~~~~-  119 (253)
                      ..+|+++|+||||||||.|++++.+ .+.+.+..|.+...+.+.+ .+.  .++++|.||......       .+.... 
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~-~~~--~i~ivDLPG~YSL~~~S~DE~Var~~ll~   79 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKY-KGH--EIEIVDLPGTYSLTAYSEDEKVARDFLLE   79 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEe-cCc--eEEEEeCCCcCCCCCCCchHHHHHHHHhc
Confidence            4679999999999999999999966 5889999999999999998 544  478999999554321       112223 


Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      ...|+++-|.|+++-+      +-+....+....++|++++.|++|.....-..-..+.+.+ ..++|+++++|++|.|+
T Consensus        80 ~~~D~ivnVvDAtnLe------RnLyltlQLlE~g~p~ilaLNm~D~A~~~Gi~ID~~~L~~-~LGvPVv~tvA~~g~G~  152 (653)
T COG0370          80 GKPDLIVNVVDATNLE------RNLYLTLQLLELGIPMILALNMIDEAKKRGIRIDIEKLSK-LLGVPVVPTVAKRGEGL  152 (653)
T ss_pred             CCCCEEEEEcccchHH------HHHHHHHHHHHcCCCeEEEeccHhhHHhcCCcccHHHHHH-HhCCCEEEEEeecCCCH
Confidence            3579999999998753      2222222223366899999999998887655666777777 78999999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy549          200 VQVFKELLAQAKVQ  213 (253)
Q Consensus       200 ~~l~~~l~~~~~~~  213 (253)
                      +++.+.+.+....+
T Consensus       153 ~~l~~~i~~~~~~~  166 (653)
T COG0370         153 EELKRAIIELAESK  166 (653)
T ss_pred             HHHHHHHHHhcccc
Confidence            99999988755443

>KOG0072|consensus

Probab=99.69  E-value=9.1e-17  Score=114.40  Aligned_cols=160  Identities=16%  Similarity=0.182  Sum_probs=117.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+.+|.++|-.|+|||+++.++.-.+.+...+...  +....+.+   +..++++||..|+-..+..|.-+|.+.|++|+
T Consensus        17 ~e~rililgldGaGkttIlyrlqvgevvttkPtig--fnve~v~y---KNLk~~vwdLggqtSirPyWRcYy~dt~avIy   91 (182)
T KOG0072|consen   17 REMRILILGLDGAGKTTILYRLQVGEVVTTKPTIG--FNVETVPY---KNLKFQVWDLGGQTSIRPYWRCYYADTDAVIY   91 (182)
T ss_pred             cceEEEEeeccCCCeeEEEEEcccCcccccCCCCC--cCcccccc---ccccceeeEccCcccccHHHHHHhcccceEEE
Confidence            67899999999999999999888777655443322  22233333   44789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHH-HHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCcEEEeccCCCCCHHHHH
Q psy549          128 VYAVDDASTWDVVKD-LREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       128 v~d~~~~~s~~~~~~-~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      |+|.+|..-..-... ++..+....-...-+++++||.|........+....+..   +...+.+|++||.+|.|++..+
T Consensus        92 VVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~  171 (182)
T KOG0072|consen   92 VVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGALTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAM  171 (182)
T ss_pred             EEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhhhHHHHHHHhChHHHhhheeEEEeeccccccCCcHHH
Confidence            999998764433222 333333323234677888999998876444444433322   1334778999999999999999


Q ss_pred             HHHHHHHHH
Q psy549          204 KELLAQAKV  212 (253)
Q Consensus       204 ~~l~~~~~~  212 (253)
                      +|+.+.+..
T Consensus       172 DWL~~~l~~  180 (182)
T KOG0072|consen  172 DWLQRPLKS  180 (182)
T ss_pred             HHHHHHHhc
Confidence            999988754

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.68  E-value=3.2e-16  Score=124.90  Aligned_cols=144  Identities=20%  Similarity=0.215  Sum_probs=90.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC--CC------------------------------CCccccceeeeeeeEEcCCCcEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR--FI------------------------------SRYKETVEELHRGEYELPDGAQL   98 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~--~~------------------------------~~~~~t~~~~~~~~~~~~~~~~~   98 (253)
                      +|+++|+.++|||||+.+|+...  +.                              .....++.+.....+.+   ...
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~---~~~   77 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFET---EKY   77 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEee---CCe
Confidence            58999999999999999997321  10                              00111222333333434   346


Q ss_pred             EEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChh-------hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc--
Q psy549           99 TLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAS-------TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK--  169 (253)
Q Consensus        99 ~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~-------s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--  169 (253)
                      .+.+||+||+..|.......+..+|++|+|+|+++..       ..+....+ ......  ...|+++|+||+|+...  
T Consensus        78 ~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~-~~~~~~--~~~~iiivvNK~Dl~~~~~  154 (219)
T cd01883          78 RFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHA-LLARTL--GVKQLIVAVNKMDDVTVNW  154 (219)
T ss_pred             EEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHH-HHHHHc--CCCeEEEEEEccccccccc
Confidence            7899999999877776666778899999999999852       11112222 212111  23689999999999732  


Q ss_pred             --cccHHHHH----HHHHhcC---CCcEEEeccCCCCCHH
Q psy549          170 --DVRREIAE----TIALYDW---QCGFVECSAKENYNIV  200 (253)
Q Consensus       170 --~~~~~~~~----~~~~~~~---~~~~~~~Sa~~~~~i~  200 (253)
                        .......+    .+.....   .++++++||++|.|+.
T Consensus       155 ~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         155 SEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence              11112222    2332122   3789999999999987

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

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.68  E-value=3.1e-15  Score=124.62  Aligned_cols=158  Identities=19%  Similarity=0.232  Sum_probs=104.1

Q ss_pred             EEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcC--------------------CC-cEEEEEEEeCCCC-
Q psy549           52 VVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELP--------------------DG-AQLTLDILDTSGA-  108 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~--------------------~~-~~~~~~l~D~~g~-  108 (253)
                      |+|+|.|+||||||+|+|++... +.+++.++.+...+...+.                    ++ ..+.+++||+||. 
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv   80 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLV   80 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCC
Confidence            68999999999999999998774 5667777655554443321                    22 4478999999997 


Q ss_pred             ---CCChhhHHH---hcccCCEEEEEEECCCh-------------hhHHH-------HHHH--------HHHHH------
Q psy549          109 ---YQFPAMREL---SISTADAFVLVYAVDDA-------------STWDV-------VKDL--------REQIV------  148 (253)
Q Consensus       109 ---~~~~~~~~~---~~~~~d~~i~v~d~~~~-------------~s~~~-------~~~~--------~~~~~------  148 (253)
                         +++..+...   .++++|++++|+|+...             ....+       +..|        +..+.      
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~~~d~~~~~~~~~~~dp~~d~~~i~~El~~~d~~~~~~~~~~~~~~~~~~  160 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDASGGTDAEGNGVETGGHDPLEDIEFLENEIDMWIYGILEKNWEKIVRKADAE  160 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCCCCcccccccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence               445555555   48999999999999731             01111       1111        00000      


Q ss_pred             --------------------------Hh----------------------cCCCCCEEEEEecCCCCCccccHHHHHHHH
Q psy549          149 --------------------------NK----------------------RGLMVPIVVVGNKCELEFKDVRREIAETIA  180 (253)
Q Consensus       149 --------------------------~~----------------------~~~~~piilv~nK~Dl~~~~~~~~~~~~~~  180 (253)
                                                ..                      ....+|+++|+||+|+.....   ..+.+.
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~~~~~~~~~llt~KPvI~VlNK~Dl~~~~~---~~~~l~  237 (318)
T cd01899         161 KTDIVEALSEQLSGFGVNEKDVIEALEELELPEDLSKWTDEDLLRLARALRKRSKPMVIAANKADIPDAEN---NISKLR  237 (318)
T ss_pred             CccHHHHHHHHHhhccccHHHHHHHHHhCCCCCcccCCCHHHHHHHHHHHHhcCCcEEEEEEHHHccChHH---HHHHHH
Confidence                                      00                      012469999999999754321   222333


Q ss_pred             HhcCCCcEEEeccCCCCCHHHHHH-HHHHHHHH
Q psy549          181 LYDWQCGFVECSAKENYNIVQVFK-ELLAQAKV  212 (253)
Q Consensus       181 ~~~~~~~~~~~Sa~~~~~i~~l~~-~l~~~~~~  212 (253)
                      .......++.+||+.+.++.++.+ .+++.+..
T Consensus       238 ~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe  270 (318)
T cd01899         238 LKYPDEIVVPTSAEAELALRRAAKQGLIKYDPG  270 (318)
T ss_pred             hhCCCCeEEEEeCcccccHHHHHHhhHHHhCCC
Confidence            323456799999999999999997 58887743

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.68  E-value=1.2e-15  Score=123.28  Aligned_cols=172  Identities=20%  Similarity=0.227  Sum_probs=125.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh-------hHHH
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA-------MREL  117 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~-------~~~~  117 (253)
                      ......++++|.|++|||||++.|++... +.+|+.||.....+.+.+ +|  ..+|+.|+||.-+-.+       ....
T Consensus        60 KsGda~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y-~g--a~IQild~Pgii~gas~g~grG~~vls  136 (365)
T COG1163          60 KSGDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEY-KG--AQIQLLDLPGIIEGASSGRGRGRQVLS  136 (365)
T ss_pred             ccCCeEEEEEcCCCccHHHHHHHHhCCCccccccCceecccccceEee-cC--ceEEEEcCcccccCcccCCCCcceeee
Confidence            45678999999999999999999999775 789999999999999999 55  5789999998554322       2334


Q ss_pred             hcccCCEEEEEEECCChhh-HHHHHHHHHHHHHh----------------------------------------------
Q psy549          118 SISTADAFVLVYAVDDAST-WDVVKDLREQIVNK----------------------------------------------  150 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~----------------------------------------------  150 (253)
                      .+++||.+++|.|+..... .+.+...++...-.                                              
T Consensus       137 v~R~ADlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA  216 (365)
T COG1163         137 VARNADLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNA  216 (365)
T ss_pred             eeccCCEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccc
Confidence            7899999999999986543 22222221111100                                              


Q ss_pred             -------------------cCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          151 -------------------RGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       151 -------------------~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                                         ..-.+|.++|+||+|+..    .+....+.+. .  .++.+|++.+.|++++.+.|++.+.
T Consensus       217 ~V~Ir~dvTlDd~id~l~~nrvY~p~l~v~NKiD~~~----~e~~~~l~~~-~--~~v~isa~~~~nld~L~e~i~~~L~  289 (365)
T COG1163         217 DVLIREDVTLDDLIDALEGNRVYKPALYVVNKIDLPG----LEELERLARK-P--NSVPISAKKGINLDELKERIWDVLG  289 (365)
T ss_pred             eEEEecCCcHHHHHHHHhhcceeeeeEEEEecccccC----HHHHHHHHhc-c--ceEEEecccCCCHHHHHHHHHHhhC
Confidence                               111379999999999765    4445555542 2  7899999999999999999999884


Q ss_pred             HhcccChhhccccccCCCCc
Q psy549          212 VQYNLSPAVRRRRQSLPNYI  231 (253)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~~~  231 (253)
                      .    -..+.+++..-|++.
T Consensus       290 l----iRVYtK~~g~~pd~~  305 (365)
T COG1163         290 L----IRVYTKPPGEEPDFD  305 (365)
T ss_pred             e----EEEEecCCCCCCCCC
Confidence            3    345555655556553

>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=99.67  E-value=1.9e-15  Score=119.95  Aligned_cols=157  Identities=18%  Similarity=0.242  Sum_probs=100.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCcc--ccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh-----HHHhcccCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYK--ETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM-----RELSISTAD  123 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~-----~~~~~~~~d  123 (253)
                      ||+++|+.++||||+.+.+.++..+.+..  ..|.+.....+...+  .+.+++||+||+..+...     ....+++++
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~~--~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~   78 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFLS--FLPLNIWDCPGQDDFMENYFNSQREEIFSNVG   78 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEECTT--SCEEEEEEE-SSCSTTHTTHTCCHHHHHCTES
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEecCC--CcEEEEEEcCCccccccccccccHHHHHhccC
Confidence            79999999999999999999877653332  333344455554422  358899999999877554     466889999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHH--hcCCCCCEEEEEecCCCCCcc--------ccHHHHHHHHHhcC-CCcEEEec
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVN--KRGLMVPIVVVGNKCELEFKD--------VRREIAETIALYDW-QCGFVECS  192 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~--~~~~~~piilv~nK~Dl~~~~--------~~~~~~~~~~~~~~-~~~~~~~S  192 (253)
                      ++|+|+|+.+.+-.+.+..+...+..  ...+++.+.++++|+|+....        ..+.+.+.+..... .+.++.||
T Consensus        79 ~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TS  158 (232)
T PF04670_consen   79 VLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTS  158 (232)
T ss_dssp             EEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-
T ss_pred             EEEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEecc
Confidence            99999999855544555554444433  345889999999999987652        22222333332121 27789999


Q ss_pred             cCCCCCHHHHHHHHHHHH
Q psy549          193 AKENYNIVQVFKELLAQA  210 (253)
Q Consensus       193 a~~~~~i~~l~~~l~~~~  210 (253)
                      ..+ ..+.+.|..++..+
T Consensus       159 I~D-~Sly~A~S~Ivq~L  175 (232)
T PF04670_consen  159 IWD-ESLYEAWSKIVQKL  175 (232)
T ss_dssp             TTS-THHHHHHHHHHHTT
T ss_pred             CcC-cHHHHHHHHHHHHH
Confidence            987 47888888877755

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.

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.67  E-value=4.9e-15  Score=112.85  Aligned_cols=157  Identities=20%  Similarity=0.227  Sum_probs=102.5

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCC---CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCC----------CCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRF---ISRYKETVEELHRGEYELPDGAQLTLDILDTSGA----------YQF  111 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~---~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~----------~~~  111 (253)
                      +......|+|+|.+|||||||||+|++++-   ++..++.|.  ...-+.+ ++.   +.++|.||-          +..
T Consensus        20 P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq--~iNff~~-~~~---~~lVDlPGYGyAkv~k~~~e~w   93 (200)
T COG0218          20 PEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQ--LINFFEV-DDE---LRLVDLPGYGYAKVPKEVKEKW   93 (200)
T ss_pred             CCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccc--eeEEEEe-cCc---EEEEeCCCcccccCCHHHHHHH
Confidence            445778999999999999999999999763   333333332  2223333 332   679999992          223


Q ss_pred             hhhHHHhccc---CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcccc----HHHHHHHHHhcC
Q psy549          112 PAMRELSIST---ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR----REIAETIALYDW  184 (253)
Q Consensus       112 ~~~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~----~~~~~~~~~~~~  184 (253)
                      ..+...|++.   -.++++++|+..+....+. ++++.+..   .++|+++|+||+|.......    ....+.+.. ..
T Consensus        94 ~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~-em~~~l~~---~~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l~~-~~  168 (200)
T COG0218          94 KKLIEEYLEKRANLKGVVLLIDARHPPKDLDR-EMIEFLLE---LGIPVIVVLTKADKLKKSERNKQLNKVAEELKK-PP  168 (200)
T ss_pred             HHHHHHHHhhchhheEEEEEEECCCCCcHHHH-HHHHHHHH---cCCCeEEEEEccccCChhHHHHHHHHHHHHhcC-CC
Confidence            3444445543   4678888888876554332 23333333   66999999999998775222    223333333 22


Q ss_pred             CCc--EEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          185 QCG--FVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       185 ~~~--~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      ...  ++.+|+..+.|++++...|.+.+..
T Consensus       169 ~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         169 PDDQWVVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             CccceEEEEecccccCHHHHHHHHHHHhhc
Confidence            222  7888999999999999998887643

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.66  E-value=4.1e-15  Score=116.64  Aligned_cols=156  Identities=16%  Similarity=0.140  Sum_probs=94.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce----eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHH-----hc
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE----ELHRGEYELPDGAQLTLDILDTSGAYQFPAMREL-----SI  119 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~----~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~-----~~  119 (253)
                      +++|+|+|++|+|||||+|.|++.........++.    ......+..  .....+.+||+||..+.......     .+
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~--~~~~~l~l~DtpG~~~~~~~~~~~l~~~~~   78 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPH--PKFPNVTLWDLPGIGSTAFPPDDYLEEMKF   78 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeec--CCCCCceEEeCCCCCcccCCHHHHHHHhCc
Confidence            37899999999999999999998554221111111    001111111  11236799999997653222222     35


Q ss_pred             ccCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHH----
Q psy549          120 STADAFVLVYAVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIAL----  181 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~----  181 (253)
                      ..+|.+++|.+.  +  |... ..|+..+...   +.|+++|+||+|+...             +..++..+.+..    
T Consensus        79 ~~~d~~l~v~~~--~--~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~  151 (197)
T cd04104          79 SEYDFFIIISST--R--FSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQE  151 (197)
T ss_pred             cCcCEEEEEeCC--C--CCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHH
Confidence            678888887432  2  2332 3344544442   4799999999998432             111122222221    


Q ss_pred             hc-CCCcEEEeccC--CCCCHHHHHHHHHHHHHHh
Q psy549          182 YD-WQCGFVECSAK--ENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       182 ~~-~~~~~~~~Sa~--~~~~i~~l~~~l~~~~~~~  213 (253)
                      .. ...++|.+|+.  .+.++..+.+.|...+.+.
T Consensus       152 ~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~  186 (197)
T cd04104         152 AGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAH  186 (197)
T ss_pred             cCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHH
Confidence            11 23478999998  5789999999999988664

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

>PRK12736 elongation factor Tu; Reviewed

Probab=99.66  E-value=3.4e-15  Score=128.84  Aligned_cols=158  Identities=16%  Similarity=0.168  Sum_probs=99.8

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCC------------C-----CccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFI------------S-----RYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~------------~-----~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      .++.++|+++|+.++|||||+++|++....            .     .....+.+.  ....+ +.....+.|+||||+
T Consensus         9 ~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~--~~~~~-~~~~~~i~~iDtPGh   85 (394)
T PRK12736          9 SKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINT--AHVEY-ETEKRHYAHVDCPGH   85 (394)
T ss_pred             CCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEE--EeeEe-cCCCcEEEEEECCCH
Confidence            456799999999999999999999862110            0     011122222  22233 223346789999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCc-ccc----HHHHHHHHHh
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFK-DVR----REIAETIALY  182 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~-~~~----~~~~~~~~~~  182 (253)
                      ++|.......+..+|++++|+|+.++..-.... ++..+..   .++| +++|+||+|+.+. ...    .+....+...
T Consensus        86 ~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~-~~~~~~~---~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~  161 (394)
T PRK12736         86 ADYVKNMITGAAQMDGAILVVAATDGPMPQTRE-HILLARQ---VGVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEY  161 (394)
T ss_pred             HHHHHHHHHHHhhCCEEEEEEECCCCCchhHHH-HHHHHHH---cCCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHh
Confidence            988777766778899999999998753322222 2222222   3577 6788999998743 211    1222233332


Q ss_pred             cC---CCcEEEeccCCCC--------CHHHHHHHHHHHH
Q psy549          183 DW---QCGFVECSAKENY--------NIVQVFKELLAQA  210 (253)
Q Consensus       183 ~~---~~~~~~~Sa~~~~--------~i~~l~~~l~~~~  210 (253)
                      .+   .++++++||++|.        ++.++++.+.+.+
T Consensus       162 ~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~l  200 (394)
T PRK12736        162 DFPGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYI  200 (394)
T ss_pred             CCCcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhC
Confidence            32   3689999999983        4566666665554

>cd04169 RF3 RF3 subfamily

Probab=99.66  E-value=4.7e-15  Score=121.21  Aligned_cols=115  Identities=17%  Similarity=0.234  Sum_probs=79.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC--CCCC--------ccccce-----------eeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR--FISR--------YKETVE-----------ELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~--~~~~--------~~~t~~-----------~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      .+|+|+|++|+|||||+++|+...  ....        ...+..           ........+ +...+.+.+|||||+
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~-~~~~~~i~liDTPG~   81 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQF-EYRDCVINLLDTPGH   81 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEE-eeCCEEEEEEECCCc
Confidence            579999999999999999998521  1100        001111           222223334 445678999999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      .+|.......++.+|++|+|+|+++..... ...++.....   .++|+++++||+|+...
T Consensus        82 ~df~~~~~~~l~~aD~~IlVvda~~g~~~~-~~~i~~~~~~---~~~P~iivvNK~D~~~a  138 (267)
T cd04169          82 EDFSEDTYRTLTAVDSAVMVIDAAKGVEPQ-TRKLFEVCRL---RGIPIITFINKLDREGR  138 (267)
T ss_pred             hHHHHHHHHHHHHCCEEEEEEECCCCccHH-HHHHHHHHHh---cCCCEEEEEECCccCCC
Confidence            998887778889999999999998764322 2334433322   46899999999998765

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.

>KOG1145|consensus

Probab=99.65  E-value=2.5e-15  Score=128.65  Aligned_cols=157  Identities=24%  Similarity=0.265  Sum_probs=122.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...+-|.|+|+..-|||||+.+|-+... ..+....+...-...+.+++|+  .++|.||||+..|..++..-..-+|++
T Consensus       151 ~RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p~G~--~iTFLDTPGHaAF~aMRaRGA~vtDIv  228 (683)
T KOG1145|consen  151 PRPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLPSGK--SITFLDTPGHAAFSAMRARGANVTDIV  228 (683)
T ss_pred             CCCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecCCCC--EEEEecCCcHHHHHHHHhccCccccEE
Confidence            4667889999999999999999998776 3444555667777788887775  578999999999999999988899999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHH-------HHhcCCCcEEEeccCCCCC
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETI-------ALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~-------~~~~~~~~~~~~Sa~~~~~  198 (253)
                      ++|..++|.-.-    +..+.+..-.+.+.|+++.+||+|.++... +...+++       .+.++.++++++||++|.|
T Consensus       229 VLVVAadDGVmp----QT~EaIkhAk~A~VpiVvAinKiDkp~a~p-ekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~n  303 (683)
T KOG1145|consen  229 VLVVAADDGVMP----QTLEAIKHAKSANVPIVVAINKIDKPGANP-EKVKRELLSQGIVVEDLGGDVQVIPISALTGEN  303 (683)
T ss_pred             EEEEEccCCccH----hHHHHHHHHHhcCCCEEEEEeccCCCCCCH-HHHHHHHHHcCccHHHcCCceeEEEeecccCCC
Confidence            999999997443    333444444447799999999999887522 2222222       3346678999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy549          199 IVQVFKELLAQA  210 (253)
Q Consensus       199 i~~l~~~l~~~~  210 (253)
                      ++.|.+.+..++
T Consensus       304 l~~L~eaill~A  315 (683)
T KOG1145|consen  304 LDLLEEAILLLA  315 (683)
T ss_pred             hHHHHHHHHHHH
Confidence            999988877655

>COG2262 HflX GTPases [General function prediction only]

Probab=99.65  E-value=1.8e-14  Score=120.22  Aligned_cols=161  Identities=17%  Similarity=0.175  Sum_probs=121.9

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC-CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC--hhhHHH------
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR-FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF--PAMREL------  117 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~--~~~~~~------  117 (253)
                      ...+.|+++|-.|+|||||+|+|++.. +..+...+|-+.....+.++++.  .+.+.||.|--+.  ..+...      
T Consensus       190 ~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~g~--~vlLtDTVGFI~~LP~~LV~AFksTLE  267 (411)
T COG2262         190 SGIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGDGR--KVLLTDTVGFIRDLPHPLVEAFKSTLE  267 (411)
T ss_pred             cCCCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCCCc--eEEEecCccCcccCChHHHHHHHHHHH
Confidence            366899999999999999999999855 56788888889999999996655  4578899984432  222222      


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      -...+|.++.|.|++++.....+..-..-+.......+|+++|.||+|+..+..   ....+.. ... ..+.+||++|.
T Consensus       268 E~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~---~~~~~~~-~~~-~~v~iSA~~~~  342 (411)
T COG2262         268 EVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE---ILAELER-GSP-NPVFISAKTGE  342 (411)
T ss_pred             HhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh---hhhhhhh-cCC-CeEEEEeccCc
Confidence            245799999999999997766666666666665556699999999999765433   2222222 222 58999999999


Q ss_pred             CHHHHHHHHHHHHHHhc
Q psy549          198 NIVQVFKELLAQAKVQY  214 (253)
Q Consensus       198 ~i~~l~~~l~~~~~~~~  214 (253)
                      |++.+.+.|.+.+....
T Consensus       343 gl~~L~~~i~~~l~~~~  359 (411)
T COG2262         343 GLDLLRERIIELLSGLR  359 (411)
T ss_pred             CHHHHHHHHHHHhhhcc
Confidence            99999999999887543

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.64  E-value=7.7e-15  Score=116.52  Aligned_cols=113  Identities=15%  Similarity=0.198  Sum_probs=78.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC--CCCcccc---------------ceeeeeeeEEcC-------CCcEEEEEEEeCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF--ISRYKET---------------VEELHRGEYELP-------DGAQLTLDILDTS  106 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t---------------~~~~~~~~~~~~-------~~~~~~~~l~D~~  106 (253)
                      +|+|+|+.++|||||+.+|+...-  ......+               +.......+.+.       ++..+.+.+||||
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            799999999999999999985331  1100000               000011111221       2446889999999


Q ss_pred             CCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCC
Q psy549          107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE  167 (253)
Q Consensus       107 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  167 (253)
                      |+.+|.......++.+|++++|+|+.++...+....+.. ...   .++|+++|+||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~-~~~---~~~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVLRQ-ALK---ERVKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHH-HHH---cCCCEEEEEECCCcc
Confidence            999999999999999999999999998766554333222 222   457999999999976

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

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.63  E-value=1.1e-14  Score=125.76  Aligned_cols=145  Identities=17%  Similarity=0.203  Sum_probs=91.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC-------C-----CC-----CccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR-------F-----IS-----RYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~-------~-----~~-----~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      .++.++|+++|+.++|||||+++|++..       +     ..     .....+.+.  ..+.+ +.....+.||||||+
T Consensus         9 ~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~--~~~~~-~~~~~~~~liDtpGh   85 (394)
T TIGR00485         9 TKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINT--AHVEY-ETENRHYAHVDCPGH   85 (394)
T ss_pred             CCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceee--EEEEE-cCCCEEEEEEECCch
Confidence            4567999999999999999999998420       0     00     011222232  23333 334457899999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEE-EEEecCCCCCcc-ccH----HHHHHHHHh
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIV-VVGNKCELEFKD-VRR----EIAETIALY  182 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pii-lv~nK~Dl~~~~-~~~----~~~~~~~~~  182 (253)
                      ++|..........+|++++|+|+.++......+ .+..+..   .++|.+ +|+||+|+.+.. ..+    +....+...
T Consensus        86 ~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e-~l~~~~~---~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~  161 (394)
T TIGR00485        86 ADYVKNMITGAAQMDGAILVVSATDGPMPQTRE-HILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEY  161 (394)
T ss_pred             HHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHH-HHHHHHH---cCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhc
Confidence            988766666677899999999998753323222 2222222   346765 689999987542 111    222223321


Q ss_pred             cC---CCcEEEeccCCCC
Q psy549          183 DW---QCGFVECSAKENY  197 (253)
Q Consensus       183 ~~---~~~~~~~Sa~~~~  197 (253)
                      ..   .++++++|+.++.
T Consensus       162 ~~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       162 DFPGDDTPIIRGSALKAL  179 (394)
T ss_pred             CCCccCccEEECcccccc
Confidence            11   2789999999875

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.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.62  E-value=2.4e-14  Score=116.68  Aligned_cols=163  Identities=17%  Similarity=0.152  Sum_probs=117.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh----hHHH---hccc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA----MREL---SIST  121 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----~~~~---~~~~  121 (253)
                      .-|.+||-|++|||||++.+.+.+. +.+|+.||..+..+.+.+.++.  .|.+-|.||..+-.+    +-..   -++.
T Consensus       160 ADVGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~~~~~--sfv~ADIPGLIEGAs~G~GLG~~FLrHIER  237 (369)
T COG0536         160 ADVGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVDGGE--SFVVADIPGLIEGASEGVGLGLRFLRHIER  237 (369)
T ss_pred             cccccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEecCCC--cEEEecCcccccccccCCCccHHHHHHHHh
Confidence            3578999999999999999999775 8999999999999988873333  578999999665322    2222   3567


Q ss_pred             CCEEEEEEECCChh---hHHHHHHHHHHHHHhc--CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          122 ADAFVLVYAVDDAS---TWDVVKDLREQIVNKR--GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       122 ~d~~i~v~d~~~~~---s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      +.+++.|.|++..+   ..++......++..+.  -.+.|.++|+||+|+... +..+...+.+.........+++|+.+
T Consensus       238 t~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t  317 (369)
T COG0536         238 TRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALT  317 (369)
T ss_pred             hheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhc
Confidence            89999999998654   2444444445544432  245899999999996655 44455555555422222222399999


Q ss_pred             CCCHHHHHHHHHHHHHHhc
Q psy549          196 NYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~~~~  214 (253)
                      +.|+++++..+.+.+....
T Consensus       318 ~~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         318 REGLDELLRALAELLEETK  336 (369)
T ss_pred             ccCHHHHHHHHHHHHHHhh
Confidence            9999999999999887664

>CHL00071 tufA elongation factor Tu

Probab=99.61  E-value=2.3e-14  Score=124.22  Aligned_cols=147  Identities=19%  Similarity=0.176  Sum_probs=94.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCC--C---------------CccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFI--S---------------RYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~--~---------------~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      .++.++|+++|++++|||||+++|++..-.  .               .....+.+.....+..   ....+.|+||||+
T Consensus         9 ~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~---~~~~~~~iDtPGh   85 (409)
T CHL00071          9 KKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYET---ENRHYAHVDCPGH   85 (409)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEcc---CCeEEEEEECCCh
Confidence            456799999999999999999999964210  0               0011222222222222   2346789999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCccc-c----HHHHHHHHHh
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFKDV-R----REIAETIALY  182 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~-~----~~~~~~~~~~  182 (253)
                      .+|.......+..+|++++|+|+.....-+. ...+..+..   .++| +++++||+|+.+... .    .+....+...
T Consensus        86 ~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt-~~~~~~~~~---~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~  161 (409)
T CHL00071         86 ADYVKNMITGAAQMDGAILVVSAADGPMPQT-KEHILLAKQ---VGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKY  161 (409)
T ss_pred             HHHHHHHHHHHHhCCEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHh
Confidence            8887777777889999999999987543222 222332322   4578 678899999976421 1    2233333332


Q ss_pred             cC---CCcEEEeccCCCCCH
Q psy549          183 DW---QCGFVECSAKENYNI  199 (253)
Q Consensus       183 ~~---~~~~~~~Sa~~~~~i  199 (253)
                      .+   .++++++|+.+|.++
T Consensus       162 ~~~~~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        162 DFPGDDIPIVSGSALLALEA  181 (409)
T ss_pred             CCCCCcceEEEcchhhcccc
Confidence            22   378999999998743

>KOG0462|consensus

Probab=99.61  E-value=1.2e-14  Score=124.51  Aligned_cols=158  Identities=19%  Similarity=0.247  Sum_probs=119.0

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CCC--------------CccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FIS--------------RYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~--------------~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~  110 (253)
                      .+.-+++||-+..-|||||..+|+...  +..              .....|..-....+.+.+++.+.+.++||||+-+
T Consensus        58 ~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGHvD  137 (650)
T KOG0462|consen   58 ENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGHVD  137 (650)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCccc
Confidence            455689999999999999999998422  111              1112222333334444468889999999999999


Q ss_pred             ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc---ccHHHHHHHHHhcCCCc
Q psy549          111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD---VRREIAETIALYDWQCG  187 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~  187 (253)
                      |.......+.-+|++|+|+|++.+.--+.+..++..+.    .++.+|.|+||+|++...   +..+..+.|.  ....+
T Consensus       138 Fs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe----~~L~iIpVlNKIDlp~adpe~V~~q~~~lF~--~~~~~  211 (650)
T KOG0462|consen  138 FSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFE----AGLAIIPVLNKIDLPSADPERVENQLFELFD--IPPAE  211 (650)
T ss_pred             ccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHH----cCCeEEEeeeccCCCCCCHHHHHHHHHHHhc--CCccc
Confidence            99999888999999999999999866566665555544    457899999999999873   3333333333  35568


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHH
Q psy549          188 FVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       188 ~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ++.+||++|.|+.++|+++++.+
T Consensus       212 ~i~vSAK~G~~v~~lL~AII~rV  234 (650)
T KOG0462|consen  212 VIYVSAKTGLNVEELLEAIIRRV  234 (650)
T ss_pred             eEEEEeccCccHHHHHHHHHhhC
Confidence            99999999999999999999988

>PRK12735 elongation factor Tu; Reviewed

Probab=99.61  E-value=1.6e-14  Score=124.74  Aligned_cols=158  Identities=16%  Similarity=0.207  Sum_probs=98.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC-------CC--CC--------ccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR-------FI--SR--------YKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~-------~~--~~--------~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      .++.++|+++|++++|||||+++|++..       +.  ..        ....+.+..  ...+ ......+.|+||||+
T Consensus         9 ~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~--~~~~-~~~~~~i~~iDtPGh   85 (396)
T PRK12735          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTS--HVEY-ETANRHYAHVDCPGH   85 (396)
T ss_pred             CCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEe--eeEE-cCCCcEEEEEECCCH
Confidence            4567999999999999999999998621       00  00        111112222  2222 222346789999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEE-EEEecCCCCCcc-ccH----HHHHHHHHh
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIV-VVGNKCELEFKD-VRR----EIAETIALY  182 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pii-lv~nK~Dl~~~~-~~~----~~~~~~~~~  182 (253)
                      .+|.......+..+|++++|+|+.+...-.. ..++..+..   .++|.+ +++||+|+.+.. ..+    +....+...
T Consensus        86 ~~f~~~~~~~~~~aD~~llVvda~~g~~~qt-~e~l~~~~~---~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~  161 (396)
T PRK12735         86 ADYVKNMITGAAQMDGAILVVSAADGPMPQT-REHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKY  161 (396)
T ss_pred             HHHHHHHHhhhccCCEEEEEEECCCCCchhH-HHHHHHHHH---cCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHc
Confidence            8887666677788999999999987543222 223332222   457865 579999987431 111    222222221


Q ss_pred             cC---CCcEEEeccCCCC----------CHHHHHHHHHHHH
Q psy549          183 DW---QCGFVECSAKENY----------NIVQVFKELLAQA  210 (253)
Q Consensus       183 ~~---~~~~~~~Sa~~~~----------~i~~l~~~l~~~~  210 (253)
                      .+   ..+++++|++++.          ++.++++.|...+
T Consensus       162 ~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~  202 (396)
T PRK12735        162 DFPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYI  202 (396)
T ss_pred             CCCcCceeEEecchhccccCCCCCcccccHHHHHHHHHhcC
Confidence            11   3789999999984          5667776666544

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.61  E-value=3.6e-14  Score=121.74  Aligned_cols=83  Identities=19%  Similarity=0.270  Sum_probs=62.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcC--------------------C-CcEEEEEEEeCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELP--------------------D-GAQLTLDILDTSG  107 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~--------------------~-~~~~~~~l~D~~g  107 (253)
                      ++|+|+|.||||||||+|+|++... ..+++.++.+...+.+.++                    + ...+.+++||+||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            6899999999999999999998765 4577777765555544321                    1 2347799999999


Q ss_pred             CC----CChhhHHHh---cccCCEEEEEEECC
Q psy549          108 AY----QFPAMRELS---ISTADAFVLVYAVD  132 (253)
Q Consensus       108 ~~----~~~~~~~~~---~~~~d~~i~v~d~~  132 (253)
                      ..    +...+...+   ++++|++++|+|+.
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            53    334444445   88999999999996

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.61  E-value=1.1e-14  Score=125.30  Aligned_cols=161  Identities=24%  Similarity=0.247  Sum_probs=119.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCC-CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+-|+++|+-..|||||+.++-+.... .+....|.......+.+..+..-.+.|.||||++-|..++..-..-+|+++
T Consensus         4 R~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaI   83 (509)
T COG0532           4 RPPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAI   83 (509)
T ss_pred             CCCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEE
Confidence            4567999999999999999999987763 444445556666666662112236899999999999999999889999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHH-------hcCCCcEEEeccCCCCCH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL-------YDWQCGFVECSAKENYNI  199 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-------~~~~~~~~~~Sa~~~~~i  199 (253)
                      +|.+++|.-.-    +..+.+......+.|+++++||+|.++.. ......++..       ......++++||++|.|+
T Consensus        84 LVVa~dDGv~p----QTiEAI~hak~a~vP~iVAiNKiDk~~~n-p~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi  158 (509)
T COG0532          84 LVVAADDGVMP----QTIEAINHAKAAGVPIVVAINKIDKPEAN-PDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGI  158 (509)
T ss_pred             EEEEccCCcch----hHHHHHHHHHHCCCCEEEEEecccCCCCC-HHHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCH
Confidence            99999997443    33334444444779999999999998642 2233333332       123467899999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy549          200 VQVFKELLAQAKVQ  213 (253)
Q Consensus       200 ~~l~~~l~~~~~~~  213 (253)
                      .+|+..+.-.....
T Consensus       159 ~eLL~~ill~aev~  172 (509)
T COG0532         159 DELLELILLLAEVL  172 (509)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999887766444

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.61  E-value=2.2e-14  Score=127.23  Aligned_cols=117  Identities=16%  Similarity=0.221  Sum_probs=80.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh--CCCC---------------CCcccc---ce-eeeeeeEEcCCCcEEEEEEEeC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY--DRFI---------------SRYKET---VE-ELHRGEYELPDGAQLTLDILDT  105 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~--~~~~---------------~~~~~t---~~-~~~~~~~~~~~~~~~~~~l~D~  105 (253)
                      ....+|+|+|++++|||||+++|+.  +...               .++...   .. ........+ +...+.+.+|||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~-~~~~~~inliDT   86 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQF-PYRDCLINLLDT   86 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEE-EECCEEEEEEEC
Confidence            3567999999999999999999973  2110               000000   00 122222333 334578999999


Q ss_pred             CCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549          106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus       106 ~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      ||+.+|.......++.+|++|+|+|+.+..... ...++.....   .++|+++++||+|+..
T Consensus        87 PG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~-t~~l~~~~~~---~~iPiiv~iNK~D~~~  145 (526)
T PRK00741         87 PGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQ-TRKLMEVCRL---RDTPIFTFINKLDRDG  145 (526)
T ss_pred             CCchhhHHHHHHHHHHCCEEEEEEecCCCCCHH-HHHHHHHHHh---cCCCEEEEEECCcccc
Confidence            999999888888899999999999998764322 2334433322   4689999999999764

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.61  E-value=5.2e-15  Score=112.67  Aligned_cols=118  Identities=17%  Similarity=0.213  Sum_probs=74.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHH---hcccCCEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMREL---SISTADAF  125 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~---~~~~~d~~  125 (253)
                      .-.|+|+|+.|+|||+|..+|..+.......+. .......+  .+...-.+.++|+||+.+.+.....   +...+.++
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e~n~~~~~--~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~I   79 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-ENNIAYNV--NNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGI   79 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B---S-SEEEECCG--SSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEE
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-cCCceEEe--ecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEE
Confidence            457999999999999999999999776554444 22222111  1223336789999999998765544   47889999


Q ss_pred             EEEEECCC-hhhHHHHHHHHHHHHHh---cCCCCCEEEEEecCCCCCc
Q psy549          126 VLVYAVDD-ASTWDVVKDLREQIVNK---RGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       126 i~v~d~~~-~~s~~~~~~~~~~~~~~---~~~~~piilv~nK~Dl~~~  169 (253)
                      |||.|.+. ...+..+..++..+...   ....+|++|+.||.|+...
T Consensus        80 IfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A  127 (181)
T PF09439_consen   80 IFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTA  127 (181)
T ss_dssp             EEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred             EEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccccc
Confidence            99999974 34455555555544442   2356999999999998775

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.

>KOG1191|consensus

Probab=99.60  E-value=7e-15  Score=124.67  Aligned_cols=166  Identities=18%  Similarity=0.160  Sum_probs=114.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC-ChhhHH------
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ-FPAMRE------  116 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~-~~~~~~------  116 (253)
                      .+..+.|+|+|+||||||||+|.|.+..  +++..+.||+|.....+.+ +|  +++.+.||+|..+ -....+      
T Consensus       265 lq~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~-~G--~~v~L~DTAGiRe~~~~~iE~~gI~r  341 (531)
T KOG1191|consen  265 LQSGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTV-NG--VPVRLSDTAGIREESNDGIEALGIER  341 (531)
T ss_pred             hhcCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeec-CC--eEEEEEeccccccccCChhHHHhHHH
Confidence            3566999999999999999999999876  5788999999999999997 77  4668999999766 221111      


Q ss_pred             --HhcccCCEEEEEEECCCh--hhHHHHHHHHHHHHHhc------CCCCCEEEEEecCCCCCc--cccHHHHHHHH-Hhc
Q psy549          117 --LSISTADAFVLVYAVDDA--STWDVVKDLREQIVNKR------GLMVPIVVVGNKCELEFK--DVRREIAETIA-LYD  183 (253)
Q Consensus       117 --~~~~~~d~~i~v~d~~~~--~s~~~~~~~~~~~~~~~------~~~~piilv~nK~Dl~~~--~~~~~~~~~~~-~~~  183 (253)
                        ..++.+|++++|+|+...  ++-..+...++......      ....|++++.||+|+...  ...-....... .-.
T Consensus       342 A~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~~~~~~~~  421 (531)
T KOG1191|consen  342 ARKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIPVVYPSAEGR  421 (531)
T ss_pred             HHHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCceeccccccC
Confidence              146789999999999432  22222333333322211      133789999999998765  11110000111 101


Q ss_pred             CCC-cEEEeccCCCCCHHHHHHHHHHHHHHhc
Q psy549          184 WQC-GFVECSAKENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       184 ~~~-~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  214 (253)
                      ... .+.++|++++.|++++.+.+...+....
T Consensus       422 ~~~~i~~~vs~~tkeg~~~L~~all~~~~~~~  453 (531)
T KOG1191|consen  422 SVFPIVVEVSCTTKEGCERLSTALLNIVERLV  453 (531)
T ss_pred             cccceEEEeeechhhhHHHHHHHHHHHHHHhh
Confidence            123 3556999999999999999998876653

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.59  E-value=3.1e-14  Score=116.55  Aligned_cols=112  Identities=18%  Similarity=0.188  Sum_probs=77.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC--CC-----C------------CccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR--FI-----S------------RYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF  111 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~--~~-----~------------~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~  111 (253)
                      +|+|+|++|+|||||+++|+...  ..     .            .....+.+.....+.+   ....+.+|||||+.++
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~---~~~~i~liDTPG~~df   77 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFW---KDHRINIIDTPGHVDF   77 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEE---CCEEEEEEECCCcHHH
Confidence            58999999999999999997411  10     0            0011111222233333   2367889999999998


Q ss_pred             hhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          112 PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       112 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      ...+...++.+|++++|+|+.+...-.. ...+..+..   .++|+++++||+|+.+.
T Consensus        78 ~~~~~~~l~~aD~ailVVDa~~g~~~~t-~~~~~~~~~---~~~p~ivviNK~D~~~a  131 (270)
T cd01886          78 TIEVERSLRVLDGAVAVFDAVAGVEPQT-ETVWRQADR---YNVPRIAFVNKMDRTGA  131 (270)
T ss_pred             HHHHHHHHHHcCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECCCCCCC
Confidence            8888889999999999999987643222 233333333   45899999999998754

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>PRK13351 elongation factor G; Reviewed

Probab=99.59  E-value=2.5e-14  Score=131.76  Aligned_cols=116  Identities=16%  Similarity=0.195  Sum_probs=82.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC-------------CCCcc------ccceeeeeeeEEcCCCcEEEEEEEeCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF-------------ISRYK------ETVEELHRGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~-------------~~~~~------~t~~~~~~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      ....+|+|+|+.++|||||+++|+...-             ..++.      ..+.......+.+   ..+.+.+|||||
T Consensus         6 ~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~---~~~~i~liDtPG   82 (687)
T PRK13351          6 MQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDW---DNHRINLIDTPG   82 (687)
T ss_pred             ccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEE---CCEEEEEEECCC
Confidence            3568999999999999999999985321             00000      0011111112222   346889999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      +.+|...+..+++.+|++++|+|+++.........| ..+..   .++|+++|+||+|+...
T Consensus        83 ~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~~~  140 (687)
T PRK13351         83 HIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRVGA  140 (687)
T ss_pred             cHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCCCC
Confidence            999999999999999999999999987766554434 33332   45899999999998754

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.59  E-value=2.2e-14  Score=124.15  Aligned_cols=146  Identities=22%  Similarity=0.187  Sum_probs=91.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC--CCCCc----------ccc----------------------ceeeeeeeEEcCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR--FISRY----------KET----------------------VEELHRGEYELPDG   95 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~----------~~t----------------------~~~~~~~~~~~~~~   95 (253)
                      ++|+|+|+.++|||||+++|+...  .....          ..+                      +.+.....+..   
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~---   77 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFST---   77 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEcc---
Confidence            589999999999999999998422  11100          000                      11222222222   


Q ss_pred             cEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc--ccH
Q psy549           96 AQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD--VRR  173 (253)
Q Consensus        96 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~  173 (253)
                      ....+.|+||||+++|.......+..+|++++|+|+..+..-+..+.+.. +...  ...++++|+||+|+....  ...
T Consensus        78 ~~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~~-~~~~--~~~~iivviNK~D~~~~~~~~~~  154 (406)
T TIGR02034        78 DKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHSYI-ASLL--GIRHVVLAVNKMDLVDYDEEVFE  154 (406)
T ss_pred             CCeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHHHH-HHHc--CCCcEEEEEEecccccchHHHHH
Confidence            33578899999999987777777889999999999987643222222221 2221  124688999999986531  111


Q ss_pred             HHHHHH---HH-hc-CCCcEEEeccCCCCCHHH
Q psy549          174 EIAETI---AL-YD-WQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       174 ~~~~~~---~~-~~-~~~~~~~~Sa~~~~~i~~  201 (253)
                      ++.+.+   .. .. ...+++++||++|.|+.+
T Consensus       155 ~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       155 NIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             HHHHHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence            222222   12 11 235799999999999885

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.59  E-value=2.4e-14  Score=125.96  Aligned_cols=151  Identities=23%  Similarity=0.177  Sum_probs=95.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCCCc----------ccc----------------------ceeeeeeeEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FISRY----------KET----------------------VEELHRGEYE   91 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~----------~~t----------------------~~~~~~~~~~   91 (253)
                      .+..++|+|+|+.++|||||+++|+...  +....          ..+                      +.+.....+.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~  103 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFS  103 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEec
Confidence            4677999999999999999999998532  11100          111                      1122222222


Q ss_pred             cCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc--
Q psy549           92 LPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK--  169 (253)
Q Consensus        92 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--  169 (253)
                         .....+.|+||||++.|.......+..+|++++|+|+..+..-.....+. .+....  ..|+++|+||+|+...  
T Consensus       104 ---~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~-l~~~lg--~~~iIvvvNKiD~~~~~~  177 (474)
T PRK05124        104 ---TEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSF-IATLLG--IKHLVVAVNKMDLVDYSE  177 (474)
T ss_pred             ---cCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHHH-HHHHhC--CCceEEEEEeeccccchh
Confidence               23356789999999988766666678999999999998754322222222 111111  2478999999998743  


Q ss_pred             cccHHHHHHHH---Hhc---CCCcEEEeccCCCCCHHHH
Q psy549          170 DVRREIAETIA---LYD---WQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       170 ~~~~~~~~~~~---~~~---~~~~~~~~Sa~~~~~i~~l  202 (253)
                      ....+..+.+.   ...   ...+++++||++|.|+.++
T Consensus       178 ~~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        178 EVFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            11222222222   111   2478999999999999864

>PLN03126 Elongation factor Tu; Provisional

Probab=99.58  E-value=6.6e-14  Score=122.80  Aligned_cols=146  Identities=17%  Similarity=0.153  Sum_probs=94.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC------CCC-----------ccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF------ISR-----------YKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~------~~~-----------~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      .++.++|+++|++++|||||+++|+....      ...           ....+.+.....+..   ....+.|+|+||+
T Consensus        78 ~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~---~~~~i~liDtPGh  154 (478)
T PLN03126         78 KKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYET---ENRHYAHVDCPGH  154 (478)
T ss_pred             cCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEec---CCcEEEEEECCCH
Confidence            46688999999999999999999995211      000           001111222222222   3347789999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCcc-ccH----HHHHHHHHh
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFKD-VRR----EIAETIALY  182 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~-~~~----~~~~~~~~~  182 (253)
                      ++|.......+..+|++++|+|+.+...-.. ..++..+..   .++| +++++||+|+.+.+ ..+    ++...+...
T Consensus       155 ~~f~~~~~~g~~~aD~ailVVda~~G~~~qt-~e~~~~~~~---~gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~  230 (478)
T PLN03126        155 ADYVKNMITGAAQMDGAILVVSGADGPMPQT-KEHILLAKQ---VGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSY  230 (478)
T ss_pred             HHHHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhc
Confidence            9988777777889999999999987654333 233333333   3577 77889999987531 111    222233321


Q ss_pred             c---CCCcEEEeccCCCCC
Q psy549          183 D---WQCGFVECSAKENYN  198 (253)
Q Consensus       183 ~---~~~~~~~~Sa~~~~~  198 (253)
                      .   ..++++++|+.++.+
T Consensus       231 g~~~~~~~~vp~Sa~~g~n  249 (478)
T PLN03126        231 EFPGDDIPIISGSALLALE  249 (478)
T ss_pred             CCCcCcceEEEEEcccccc
Confidence            1   257899999998853

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=99.58  E-value=6.2e-14  Score=100.49  Aligned_cols=105  Identities=25%  Similarity=0.375  Sum_probs=73.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh---------HHHhc
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM---------RELSI  119 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~---------~~~~~  119 (253)
                      +|+|+|.+|+|||||+|+|++...  +.....++.......+.+ ++.  .+.++||||...-...         ....+
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~-~~~--~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~   77 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEY-NNK--KFILVDTPGINDGESQDNDGKEIRKFLEQI   77 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEE-TTE--EEEEEESSSCSSSSHHHHHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeee-cee--eEEEEeCCCCcccchhhHHHHHHHHHHHHH
Confidence            699999999999999999998543  455566666666666667 544  4579999997653111         22234


Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEec
Q psy549          120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK  163 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK  163 (253)
                      ..+|++++|+|+.++.. ......+..+   . .+.|+++|+||
T Consensus        78 ~~~d~ii~vv~~~~~~~-~~~~~~~~~l---~-~~~~~i~v~NK  116 (116)
T PF01926_consen   78 SKSDLIIYVVDASNPIT-EDDKNILREL---K-NKKPIILVLNK  116 (116)
T ss_dssp             CTESEEEEEEETTSHSH-HHHHHHHHHH---H-TTSEEEEEEES
T ss_pred             HHCCEEEEEEECCCCCC-HHHHHHHHHH---h-cCCCEEEEEcC
Confidence            78999999999877422 2223333333   2 56899999998

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 ....

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.57  E-value=4.2e-14  Score=123.22  Aligned_cols=162  Identities=16%  Similarity=0.149  Sum_probs=102.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC---CCCc--cccce--eeee---------eeE---EcCCC-----------
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF---ISRY--KETVE--ELHR---------GEY---ELPDG-----------   95 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~---~~~~--~~t~~--~~~~---------~~~---~~~~~-----------   95 (253)
                      ....++|+++|+...|||||+.+|.+...   ..+.  .-|..  ....         ...   .++++           
T Consensus        31 ~~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (460)
T PTZ00327         31 RQATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCG  110 (460)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCccccccccccc
Confidence            36779999999999999999999996322   1110  00000  0000         000   01010           


Q ss_pred             c----EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc
Q psy549           96 A----QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDA-STWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD  170 (253)
Q Consensus        96 ~----~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  170 (253)
                      .    ...+.|+|+||++.|.......+..+|++++|+|+.++ ...+..+++ ..+...  .-.++++|+||+|+.+..
T Consensus       111 ~~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl-~i~~~l--gi~~iIVvlNKiDlv~~~  187 (460)
T PTZ00327        111 HKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHL-AAVEIM--KLKHIIILQNKIDLVKEA  187 (460)
T ss_pred             ccccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHH-HHHHHc--CCCcEEEEEecccccCHH
Confidence            0    13578999999998877777778899999999999974 222222222 222221  124689999999987542


Q ss_pred             ccHHHHHHHHH-----hcCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          171 VRREIAETIAL-----YDWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       171 ~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ...+..+.+..     .....+++++||++|.|+++|++.|.+.+
T Consensus       188 ~~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~l  232 (460)
T PTZ00327        188 QAQDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQI  232 (460)
T ss_pred             HHHHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence            22222222222     12467899999999999999999988755

>PRK00049 elongation factor Tu; Reviewed

Probab=99.57  E-value=1.2e-13  Score=119.35  Aligned_cols=157  Identities=16%  Similarity=0.192  Sum_probs=98.8

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCC---C--------------CccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFI---S--------------RYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~---~--------------~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      .++.++|+++|+.++|||||+++|++....   .              .....+.+..  ...+ ......+.|+||||+
T Consensus         9 ~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~--~~~~-~~~~~~i~~iDtPG~   85 (396)
T PRK00049          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTA--HVEY-ETEKRHYAHVDCPGH   85 (396)
T ss_pred             CCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeee--EEEE-cCCCeEEEEEECCCH
Confidence            467799999999999999999999962110   0              0111222222  2223 222346789999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEE-EEEecCCCCCc-cc----cHHHHHHHHHh
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIV-VVGNKCELEFK-DV----RREIAETIALY  182 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pii-lv~nK~Dl~~~-~~----~~~~~~~~~~~  182 (253)
                      .+|.......+..+|++++|+|+..+..-.. ..++..+..   .++|++ +++||+|+.+. ..    ..+....+...
T Consensus        86 ~~f~~~~~~~~~~aD~~llVVDa~~g~~~qt-~~~~~~~~~---~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~  161 (396)
T PRK00049         86 ADYVKNMITGAAQMDGAILVVSAADGPMPQT-REHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKY  161 (396)
T ss_pred             HHHHHHHHhhhccCCEEEEEEECCCCCchHH-HHHHHHHHH---cCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhc
Confidence            8887777777889999999999987543222 233333333   357876 57999998743 11    11222333332


Q ss_pred             c---CCCcEEEeccCCCC----------CHHHHHHHHHHH
Q psy549          183 D---WQCGFVECSAKENY----------NIVQVFKELLAQ  209 (253)
Q Consensus       183 ~---~~~~~~~~Sa~~~~----------~i~~l~~~l~~~  209 (253)
                      .   ..++++++|++++.          ++..+++.|...
T Consensus       162 ~~~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~  201 (396)
T PRK00049        162 DFPGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVDSY  201 (396)
T ss_pred             CCCccCCcEEEeecccccCCCCcccccccHHHHHHHHHhc
Confidence            2   24789999999875          345555555543

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.57  E-value=5.8e-14  Score=122.62  Aligned_cols=149  Identities=18%  Similarity=0.240  Sum_probs=97.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCC------------------------Ccc------ccceeeeeeeEEcC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FIS------------------------RYK------ETVEELHRGEYELP   93 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~------------------------~~~------~t~~~~~~~~~~~~   93 (253)
                      .++.++|+++|+.++|||||+.+|+...  ...                        +..      ..+.+.....  + 
T Consensus         4 ~k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~--~-   80 (446)
T PTZ00141          4 EKTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWK--F-   80 (446)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEE--E-
Confidence            4677999999999999999999998521  110                        000      1111222222  2 


Q ss_pred             CCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhh-------HHHHHHHHHHHHHhcCCCCC-EEEEEecCC
Q psy549           94 DGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAST-------WDVVKDLREQIVNKRGLMVP-IVVVGNKCE  165 (253)
Q Consensus        94 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s-------~~~~~~~~~~~~~~~~~~~p-iilv~nK~D  165 (253)
                      ......+.|+|+||+.+|.......+..+|++++|+|+..+.-       -+..+.|. .+..   .++| +++++||+|
T Consensus        81 ~~~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~-~~~~---~gi~~iiv~vNKmD  156 (446)
T PTZ00141         81 ETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHAL-LAFT---LGVKQMIVCINKMD  156 (446)
T ss_pred             ccCCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHH-HHHH---cCCCeEEEEEEccc
Confidence            3344678999999999998888888899999999999987531       11222222 2222   3466 678999999


Q ss_pred             CCCc--------cccHHHHHHHHHhcC---CCcEEEeccCCCCCHHH
Q psy549          166 LEFK--------DVRREIAETIALYDW---QCGFVECSAKENYNIVQ  201 (253)
Q Consensus       166 l~~~--------~~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~i~~  201 (253)
                      ....        .+..++...+....+   .++++++|+.+|.|+.+
T Consensus       157 ~~~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        157 DKTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             cccchhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            5421        233334444443333   47899999999999864

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.57  E-value=5.4e-14  Score=122.74  Aligned_cols=151  Identities=18%  Similarity=0.270  Sum_probs=96.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCC------------------------Cccc-cce---eeeeeeEEcCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FIS------------------------RYKE-TVE---ELHRGEYELPDG   95 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~------------------------~~~~-t~~---~~~~~~~~~~~~   95 (253)
                      .++.++|+++|+.++|||||+.+|+...  ...                        +... ...   ........+ ..
T Consensus         4 ~k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~-~~   82 (447)
T PLN00043          4 EKVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKF-ET   82 (447)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEe-cC
Confidence            4678999999999999999999998421  100                        0000 000   111112222 33


Q ss_pred             cEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHH-------HHHHHHHHHHHhcCCCC-CEEEEEecCCCC
Q psy549           96 AQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWD-------VVKDLREQIVNKRGLMV-PIVVVGNKCELE  167 (253)
Q Consensus        96 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~-------~~~~~~~~~~~~~~~~~-piilv~nK~Dl~  167 (253)
                      ....+.++|+||+++|.......+..+|++|+|+|+++. .|+       .....+.....   .++ ++++++||+|+.
T Consensus        83 ~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~~~~~---~gi~~iIV~vNKmD~~  158 (447)
T PLN00043         83 TKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHALLAFT---LGVKQMICCCNKMDAT  158 (447)
T ss_pred             CCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHHHHHH---cCCCcEEEEEEcccCC
Confidence            456789999999999998888889999999999999874 221       22222222222   446 468889999986


Q ss_pred             Cc--------cccHHHHHHHHHhcC---CCcEEEeccCCCCCHHH
Q psy549          168 FK--------DVRREIAETIALYDW---QCGFVECSAKENYNIVQ  201 (253)
Q Consensus       168 ~~--------~~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~i~~  201 (253)
                      ..        ....++...+....+   .++++++|+.+|.|+.+
T Consensus       159 ~~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        159 TPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             chhhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            32        122333333333222   37899999999999854

>PLN03127 Elongation factor Tu; Provisional

Probab=99.56  E-value=2.3e-13  Score=118.77  Aligned_cols=158  Identities=18%  Similarity=0.210  Sum_probs=97.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhC------C--CC---------CCccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYD------R--FI---------SRYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~------~--~~---------~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      .++.++|+++|+.++|||||+++|.+.      .  +.         ......+.+.....+..   ....+.|+||||+
T Consensus        58 ~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~---~~~~i~~iDtPGh  134 (447)
T PLN03127         58 TKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYET---AKRHYAHVDCPGH  134 (447)
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcC---CCeEEEEEECCCc
Confidence            467899999999999999999999731      1  00         00122223332223322   3346789999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCc-cccH----HHHHHHHHh
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFK-DVRR----EIAETIALY  182 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~-~~~~----~~~~~~~~~  182 (253)
                      .+|.......+..+|++++|+|+.++..-+. ...+..+..   .++| +++++||+|+.+. ...+    +..+.+...
T Consensus       135 ~~f~~~~~~g~~~aD~allVVda~~g~~~qt-~e~l~~~~~---~gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~  210 (447)
T PLN03127        135 ADYVKNMITGAAQMDGGILVVSAPDGPMPQT-KEHILLARQ---VGVPSLVVFLNKVDVVDDEELLELVEMELRELLSFY  210 (447)
T ss_pred             cchHHHHHHHHhhCCEEEEEEECCCCCchhH-HHHHHHHHH---cCCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHh
Confidence            9887766666778999999999987643222 222222222   4578 4788999998753 2111    111222221


Q ss_pred             cC---CCcEEEeccC---CCCC-------HHHHHHHHHHHH
Q psy549          183 DW---QCGFVECSAK---ENYN-------IVQVFKELLAQA  210 (253)
Q Consensus       183 ~~---~~~~~~~Sa~---~~~~-------i~~l~~~l~~~~  210 (253)
                      .+   .+|++++|+.   ++.|       +.++++.+...+
T Consensus       211 ~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~l  251 (447)
T PLN03127        211 KFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYI  251 (447)
T ss_pred             CCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhC
Confidence            22   4788888876   4444       566777666554

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.56  E-value=6.9e-14  Score=114.90  Aligned_cols=123  Identities=18%  Similarity=0.202  Sum_probs=81.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCc-----cccc--------------eeeeeeeEEcCCCcEEEEEEEeCCCCCCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRY-----KETV--------------EELHRGEYELPDGAQLTLDILDTSGAYQF  111 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~-----~~t~--------------~~~~~~~~~~~~~~~~~~~l~D~~g~~~~  111 (253)
                      +|+|+|++|+|||||+++++........     ..++              .......+.+   ..+.+.+|||||+.+|
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~---~~~~i~liDtPG~~~f   77 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEW---KGHKINLIDTPGYADF   77 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEE---CCEEEEEEECcCHHHH
Confidence            5899999999999999999853211000     0010              0111122222   3467899999999888


Q ss_pred             hhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHH
Q psy549          112 PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL  181 (253)
Q Consensus       112 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~  181 (253)
                      ...+..+++.+|++++|+|+++.........| ..+..   .++|+++|+||+|..... .......+..
T Consensus        78 ~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~~---~~~p~iivvNK~D~~~~~-~~~~~~~l~~  142 (268)
T cd04170          78 VGETRAALRAADAALVVVSAQSGVEVGTEKLW-EFADE---AGIPRIIFINKMDRERAD-FDKTLAALQE  142 (268)
T ss_pred             HHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHH-HHHHH---cCCCEEEEEECCccCCCC-HHHHHHHHHH
Confidence            88888899999999999999987654433333 22222   458999999999987652 2334444544

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

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.55  E-value=6.7e-14  Score=127.71  Aligned_cols=150  Identities=21%  Similarity=0.209  Sum_probs=93.3

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCCC----------ccccce----------------------eeeeeeEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FISR----------YKETVE----------------------ELHRGEYE   91 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~----------~~~t~~----------------------~~~~~~~~   91 (253)
                      ....++|+|+|++++|||||+++|+...  +...          ...+++                      +.....+.
T Consensus        21 ~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~  100 (632)
T PRK05506         21 RKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFA  100 (632)
T ss_pred             CCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEc
Confidence            3456899999999999999999999633  2211          111211                      11122222


Q ss_pred             cCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc--
Q psy549           92 LPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK--  169 (253)
Q Consensus        92 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--  169 (253)
                      .   ....+.|+||||+++|.......+..+|++++|+|+..+..-+....+. .+...  ...++++|+||+|+.+.  
T Consensus       101 ~---~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~~~-~~~~~--~~~~iivvvNK~D~~~~~~  174 (632)
T PRK05506        101 T---PKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRHSF-IASLL--GIRHVVLAVNKMDLVDYDQ  174 (632)
T ss_pred             c---CCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHHHHH-HHHHh--CCCeEEEEEEecccccchh
Confidence            2   2346789999999887666666788999999999998754322222222 22221  12578899999998642  


Q ss_pred             cccHHHHHHH----HHhcC-CCcEEEeccCCCCCHHH
Q psy549          170 DVRREIAETI----ALYDW-QCGFVECSAKENYNIVQ  201 (253)
Q Consensus       170 ~~~~~~~~~~----~~~~~-~~~~~~~Sa~~~~~i~~  201 (253)
                      ....+....+    ..... ..+++++||++|.|+.+
T Consensus       175 ~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        175 EVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            1112222222    22122 35799999999999874

>cd01850 CDC_Septin CDC/Septin

Probab=99.54  E-value=6.8e-14  Score=114.93  Aligned_cols=140  Identities=19%  Similarity=0.210  Sum_probs=82.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCC----------ccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhh---
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISR----------YKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAM---  114 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~----------~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~---  114 (253)
                      .++|+++|.+|+|||||+|+|++..+...          ...|.. ......+.. ++..+.+.+|||||.......   
T Consensus         4 ~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~-~g~~~~l~iiDTpGfgd~~~~~~~   82 (276)
T cd01850           4 QFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEE-NGVKLKLTVIDTPGFGDNINNSDC   82 (276)
T ss_pred             EEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEE-CCEEEEEEEEecCCccccccchhh
Confidence            58999999999999999999998876322          222322 334444555 677889999999995432110   


Q ss_pred             -----------------------HHHhcc--cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          115 -----------------------RELSIS--TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       115 -----------------------~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                                             +...+.  .+|+++++.+.+... +....  +..+.... ..+|+++|+||+|+...
T Consensus        83 ~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~-l~~~D--~~~lk~l~-~~v~vi~VinK~D~l~~  158 (276)
T cd01850          83 WKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHG-LKPLD--IEFMKRLS-KRVNIIPVIAKADTLTP  158 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCC-CCHHH--HHHHHHHh-ccCCEEEEEECCCcCCH
Confidence                                   001222  356677777665311 11111  12222222 25899999999998653


Q ss_pred             c---ccHHHHHHHHHhcCCCcEEEeccC
Q psy549          170 D---VRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       170 ~---~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      .   ........... ..+++++.....
T Consensus       159 ~e~~~~k~~i~~~l~-~~~i~~~~~~~~  185 (276)
T cd01850         159 EELKEFKQRIMEDIE-EHNIKIYKFPED  185 (276)
T ss_pred             HHHHHHHHHHHHHHH-HcCCceECCCCC
Confidence            1   11222222233 456777776553

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.

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.52  E-value=1.4e-13  Score=116.35  Aligned_cols=161  Identities=21%  Similarity=0.264  Sum_probs=118.3

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CC--------------CCccccce--eeeeeeEEcCCCcEEEEEEEeCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FI--------------SRYKETVE--ELHRGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~--------------~~~~~t~~--~~~~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      .+..-+..|+-+-.-|||||..|++...  +.              ......|.  ....-.+...+|..+.+.++||||
T Consensus         6 ~~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPG   85 (603)
T COG0481           6 QKNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPG   85 (603)
T ss_pred             hhhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCC
Confidence            4455688999999999999999998422  10              00111112  334444555578899999999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHh-c-CC
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALY-D-WQ  185 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~-~~  185 (253)
                      +-.|.......+..+.++++|+|++.+..-+.+...+..+..    +..++-|+||+||+..+. +...+++... + ..
T Consensus        86 HVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~----~LeIiPViNKIDLP~Adp-ervk~eIe~~iGid~  160 (603)
T COG0481          86 HVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALEN----NLEIIPVLNKIDLPAADP-ERVKQEIEDIIGIDA  160 (603)
T ss_pred             ccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHc----CcEEEEeeecccCCCCCH-HHHHHHHHHHhCCCc
Confidence            999988888888889999999999998776777776666554    478999999999998633 2233333331 1 22


Q ss_pred             CcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          186 CGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       186 ~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      ...+.+||++|.||+++++.|++.+.
T Consensus       161 ~dav~~SAKtG~gI~~iLe~Iv~~iP  186 (603)
T COG0481         161 SDAVLVSAKTGIGIEDVLEAIVEKIP  186 (603)
T ss_pred             chheeEecccCCCHHHHHHHHHhhCC
Confidence            34689999999999999999999883

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.52  E-value=5.6e-14  Score=98.01  Aligned_cols=139  Identities=17%  Similarity=0.189  Sum_probs=95.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH----HHhcccCCEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR----ELSISTADAF  125 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~----~~~~~~~d~~  125 (253)
                      -||+++|..|+|||||.+.+.+...-..        ...-+.+ +..    -.+||||...-...+    .....++|++
T Consensus         2 Kri~~vG~~gcGKTtL~q~L~G~~~lyk--------KTQAve~-~d~----~~IDTPGEy~~~~~~Y~aL~tt~~dadvi   68 (148)
T COG4917           2 KRIAFVGQVGCGKTTLFQSLYGNDTLYK--------KTQAVEF-NDK----GDIDTPGEYFEHPRWYHALITTLQDADVI   68 (148)
T ss_pred             ceeEEecccccCchhHHHHhhcchhhhc--------ccceeec-cCc----cccCCchhhhhhhHHHHHHHHHhhcccee
Confidence            3799999999999999999988764211        1112223 111    145899854433333    3356789999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      ++|-.++++++... ..+.. +     ...|+|-|++|.|++.+.......+.+.. .+.-++|++|+.++.|++++++.
T Consensus        69 ~~v~~and~~s~f~-p~f~~-~-----~~k~vIgvVTK~DLaed~dI~~~~~~L~e-aGa~~IF~~s~~d~~gv~~l~~~  140 (148)
T COG4917          69 IYVHAANDPESRFP-PGFLD-I-----GVKKVIGVVTKADLAEDADISLVKRWLRE-AGAEPIFETSAVDNQGVEELVDY  140 (148)
T ss_pred             eeeecccCccccCC-ccccc-c-----cccceEEEEecccccchHhHHHHHHHHHH-cCCcceEEEeccCcccHHHHHHH
Confidence            99999999876433 11111 1     23579999999999975444444444444 66889999999999999999998


Q ss_pred             HHHH
Q psy549          206 LLAQ  209 (253)
Q Consensus       206 l~~~  209 (253)
                      +...
T Consensus       141 L~~~  144 (148)
T COG4917         141 LASL  144 (148)
T ss_pred             HHhh
Confidence            7653

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.51  E-value=2.7e-13  Score=107.71  Aligned_cols=162  Identities=19%  Similarity=0.234  Sum_probs=108.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC-------ChhhHH
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ-------FPAMRE  116 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~-------~~~~~~  116 (253)
                      ....++|+++|..|+|||||||+|+.+..  +.....+++........+ ++.  .+.|||+||.++       |+.+..
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~-~~~--~l~lwDtPG~gdg~~~D~~~r~~~~  112 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSY-DGE--NLVLWDTPGLGDGKDKDAEHRQLYR  112 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhc-ccc--ceEEecCCCcccchhhhHHHHHHHH
Confidence            45779999999999999999999997554  222222333223333334 442  578999999776       566667


Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc----------------cccHHHHHHHH
Q psy549          117 LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK----------------DVRREIAETIA  180 (253)
Q Consensus       117 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~----------------~~~~~~~~~~~  180 (253)
                      .++...|.++++.++.|+.---+ .+++..+.... .+.++++++|.+|....                +..++.++.+.
T Consensus       113 d~l~~~DLvL~l~~~~draL~~d-~~f~~dVi~~~-~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~~~~~  190 (296)
T COG3596         113 DYLPKLDLVLWLIKADDRALGTD-EDFLRDVIILG-LDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALG  190 (296)
T ss_pred             HHhhhccEEEEeccCCCccccCC-HHHHHHHHHhc-cCceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHH
Confidence            78888999999999998754323 33444444432 44899999999996543                11122222222


Q ss_pred             Hh-cCCCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          181 LY-DWQCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       181 ~~-~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      +. ..-.|++.++...+.|++++...+++.+..
T Consensus       191 ~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp~  223 (296)
T COG3596         191 RLFQEVKPVVAVSGRLPWGLKELVRALITALPV  223 (296)
T ss_pred             HHHhhcCCeEEeccccCccHHHHHHHHHHhCcc
Confidence            21 123467888889999999999999998753

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.51  E-value=3.7e-13  Score=123.93  Aligned_cols=116  Identities=16%  Similarity=0.140  Sum_probs=82.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--C-----CCC------------ccccceeeeeeeEEcCCCcEEEEEEEeCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--F-----ISR------------YKETVEELHRGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~-----~~~------------~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      ....+|+|+|++++|||||+++|+...  .     ..+            ...++.+.....+.+ +  ...+.+|||||
T Consensus         8 ~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~-~--~~~i~liDTPG   84 (689)
T TIGR00484         8 NRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFW-K--GHRINIIDTPG   84 (689)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEE-C--CeEEEEEECCC
Confidence            345799999999999999999998421  1     000            112222333344444 3  35789999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      +.++...+...++.+|++++|+|+.+....+... ++..+..   .++|+++|+||+|+...
T Consensus        85 ~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~-~~~~~~~---~~~p~ivviNK~D~~~~  142 (689)
T TIGR00484        85 HVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSET-VWRQANR---YEVPRIAFVNKMDKTGA  142 (689)
T ss_pred             CcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHH-HHHHHHH---cCCCEEEEEECCCCCCC
Confidence            9999888888999999999999999876554433 3333332   45899999999998864

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.

>KOG0077|consensus

Probab=99.50  E-value=9.9e-14  Score=101.43  Aligned_cols=159  Identities=18%  Similarity=0.247  Sum_probs=115.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....-|++|+|-.|+|||||++-|.+++.....+  +-.+....+.+ .+  ++++-+|.+|+..-+..|..++..+|++
T Consensus        17 ~kK~gKllFlGLDNAGKTTLLHMLKdDrl~qhvP--TlHPTSE~l~I-g~--m~ftt~DLGGH~qArr~wkdyf~~v~~i   91 (193)
T KOG0077|consen   17 YKKFGKLLFLGLDNAGKTTLLHMLKDDRLGQHVP--TLHPTSEELSI-GG--MTFTTFDLGGHLQARRVWKDYFPQVDAI   91 (193)
T ss_pred             hccCceEEEEeecCCchhhHHHHHccccccccCC--CcCCChHHhee-cC--ceEEEEccccHHHHHHHHHHHHhhhcee
Confidence            4566799999999999999999999888643221  22334445555 33  5789999999999899999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHh---------------cCCCcEE
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALY---------------DWQCGFV  189 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---------------~~~~~~~  189 (253)
                      ++.+|+.|.+-|.+....+..+.... -...|+++.+||+|.+.+...++..-.+...               ...+.++
T Consensus        92 v~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evf  171 (193)
T KOG0077|consen   92 VYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAASEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVF  171 (193)
T ss_pred             EeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcccHHHHHHHHHHHHHhcccccccccCCCCCeEEEE
Confidence            99999999998887666555555532 3568999999999998864222222211110               0113467


Q ss_pred             EeccCCCCCHHHHHHHHHHH
Q psy549          190 ECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       190 ~~Sa~~~~~i~~l~~~l~~~  209 (253)
                      .||...+.+--+.|.|+...
T Consensus       172 mcsi~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  172 MCSIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             EEEEEccCccceeeeehhhh
Confidence            88998888888888777653

>KOG1490|consensus

Probab=99.47  E-value=3.2e-13  Score=114.81  Aligned_cols=165  Identities=18%  Similarity=0.165  Sum_probs=122.5

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh---------hh
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP---------AM  114 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~---------~~  114 (253)
                      ...+....+++|-|+||||||+|.+..... +..|..|+...+.+.+.+   ....+++.||||.-+..         ..
T Consensus       164 IDp~trTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH~dy---kYlrwQViDTPGILD~plEdrN~IEmqs  240 (620)
T KOG1490|consen  164 IDPNTRTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGHLDY---KYLRWQVIDTPGILDRPEEDRNIIEMQI  240 (620)
T ss_pred             CCCCcCeEEEecCCCCCcHhhcccccccccccCCcccccchhhhhhhhh---heeeeeecCCccccCcchhhhhHHHHHH
Confidence            355677899999999999999999987664 788888988888777655   55788999999954421         11


Q ss_pred             HHHhcccCCEEEEEEECCC--hhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc----cccHHHHHHHHHhcCCCcE
Q psy549          115 RELSISTADAFVLVYAVDD--ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK----DVRREIAETIALYDWQCGF  188 (253)
Q Consensus       115 ~~~~~~~~d~~i~v~d~~~--~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~  188 (253)
                      .....+.-.+++|+.|++.  +-|......++..+.... .+.|.|+|+||+|+...    +..++..+.+.. ..++++
T Consensus       241 ITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLF-aNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~-~~~v~v  318 (620)
T KOG1490|consen  241 ITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLF-ANKVTILVLNKIDAMRPEDLDQKNQELLQTIID-DGNVKV  318 (620)
T ss_pred             HHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHh-cCCceEEEeecccccCccccCHHHHHHHHHHHh-ccCceE
Confidence            2224455678999999975  455555555665555544 46899999999998665    333444555555 566899


Q ss_pred             EEeccCCCCCHHHHHHHHHHHHHHhc
Q psy549          189 VECSAKENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       189 ~~~Sa~~~~~i~~l~~~l~~~~~~~~  214 (253)
                      +++|..+..|+.++-...++.++..+
T Consensus       319 ~~tS~~~eegVm~Vrt~ACe~LLa~R  344 (620)
T KOG1490|consen  319 VQTSCVQEEGVMDVRTTACEALLAAR  344 (620)
T ss_pred             EEecccchhceeeHHHHHHHHHHHHH
Confidence            99999999999999988888776643

>TIGR00503 prfC peptide chain release factor 3

Probab=99.47  E-value=6.9e-13  Score=117.84  Aligned_cols=118  Identities=15%  Similarity=0.245  Sum_probs=80.9

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh--CCCCC--Cc------cccc----------e-eeeeeeEEcCCCcEEEEEEEeC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY--DRFIS--RY------KETV----------E-ELHRGEYELPDGAQLTLDILDT  105 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~--~~~~~--~~------~~t~----------~-~~~~~~~~~~~~~~~~~~l~D~  105 (253)
                      ....+|+|+|++++|||||+++|+.  +.+..  ..      ..+.          . ........+ +...+.+.+|||
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~-~~~~~~inliDT   87 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQF-PYRDCLVNLLDT   87 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEE-eeCCeEEEEEEC
Confidence            4567999999999999999999863  21110  00      0000          0 222223334 445678999999


Q ss_pred             CCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       106 ~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      ||+..|.......++.+|++|+|+|+.+... .....++.....   .++|+++++||+|+...
T Consensus        88 PG~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~~PiivviNKiD~~~~  147 (527)
T TIGR00503        88 PGHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL---RDTPIFTFMNKLDRDIR  147 (527)
T ss_pred             CChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh---cCCCEEEEEECccccCC
Confidence            9999888877888999999999999987532 122334443322   45899999999998653

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.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.47  E-value=4.3e-12  Score=99.47  Aligned_cols=158  Identities=16%  Similarity=0.208  Sum_probs=96.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCC--ccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh----hH-------
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISR--YKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA----MR-------  115 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~--~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----~~-------  115 (253)
                      ++|+++|.+|+|||||+|.+++... ...  ..+.+.........+ ++.  .+.++||||..+...    ..       
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~-~~~--~i~viDTPG~~d~~~~~~~~~~~i~~~~   77 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVW-DGR--RVNVIDTPGLFDTSVSPEQLSKEIVRCL   77 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEE-CCe--EEEEEECcCCCCccCChHHHHHHHHHHH
Confidence            4799999999999999999998764 222  224445555555555 443  678999999665421    11       


Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCC--CCCEEEEEecCCCCCccc-------cHHHHHHHHHhcCCC
Q psy549          116 ELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL--MVPIVVVGNKCELEFKDV-------RREIAETIALYDWQC  186 (253)
Q Consensus       116 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~piilv~nK~Dl~~~~~-------~~~~~~~~~~~~~~~  186 (253)
                      .....+.|++++|.++.. .+-.. ...+..+......  -.++++|+|+.|......       .....+.+.. .++-
T Consensus        78 ~~~~~g~~~illVi~~~~-~t~~d-~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~-~c~~  154 (196)
T cd01852          78 SLSAPGPHAFLLVVPLGR-FTEEE-EQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLE-KCGG  154 (196)
T ss_pred             HhcCCCCEEEEEEEECCC-cCHHH-HHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHH-HhCC
Confidence            112456899999999886 22222 2223333332111  257889999999655321       1122233333 2344


Q ss_pred             cEEEec-----cCCCCCHHHHHHHHHHHHHHh
Q psy549          187 GFVECS-----AKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       187 ~~~~~S-----a~~~~~i~~l~~~l~~~~~~~  213 (253)
                      .++..+     +..+.++.+|++.|.+.+.+.
T Consensus       155 r~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~~  186 (196)
T cd01852         155 RYVAFNNKAKGEEQEQQVKELLAKVESMVKEN  186 (196)
T ss_pred             eEEEEeCCCCcchhHHHHHHHHHHHHHHHHhc
Confidence            444444     445678999999998888763

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).

>PRK12739 elongation factor G; Reviewed

Probab=99.47  E-value=2.8e-12  Score=118.17  Aligned_cols=116  Identities=19%  Similarity=0.168  Sum_probs=80.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CC-----C------------CccccceeeeeeeEEcCCCcEEEEEEEeCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FI-----S------------RYKETVEELHRGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~-----~------------~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      ....+|+|+|++++|||||+++|+...  ..     .            .....+.+.....+.+ +  ...+.|+||||
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~-~--~~~i~liDTPG   82 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFW-K--GHRINIIDTPG   82 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEE-C--CEEEEEEcCCC
Confidence            356789999999999999999998421  10     0            0112222333334444 3  35788999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      +..|...+...++.+|++++|+|+.++..-... ..+..+..   .++|+++++||+|+...
T Consensus        83 ~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~~---~~~p~iv~iNK~D~~~~  140 (691)
T PRK12739         83 HVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSE-TVWRQADK---YGVPRIVFVNKMDRIGA  140 (691)
T ss_pred             HHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECCCCCCC
Confidence            988888888889999999999999887543332 22332332   45899999999998753

>KOG0090|consensus

Probab=99.45  E-value=1.4e-12  Score=99.49  Aligned_cols=155  Identities=19%  Similarity=0.220  Sum_probs=104.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcc---cCCEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS---TADAF  125 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~---~~d~~  125 (253)
                      .-.|+++|+.+||||+|..+|..+.....+.+.  ......+.+.++   ..+++|.||+.+.+.....++.   .+-++
T Consensus        38 ~~~Vll~Gl~dSGKT~LF~qL~~gs~~~TvtSi--epn~a~~r~gs~---~~~LVD~PGH~rlR~kl~e~~~~~~~akai  112 (238)
T KOG0090|consen   38 QNAVLLVGLSDSGKTSLFTQLITGSHRGTVTSI--EPNEATYRLGSE---NVTLVDLPGHSRLRRKLLEYLKHNYSAKAI  112 (238)
T ss_pred             CCcEEEEecCCCCceeeeeehhcCCccCeeeee--ccceeeEeecCc---ceEEEeCCCcHHHHHHHHHHccccccceeE
Confidence            357999999999999999999998665544333  333334444222   2689999999998887777766   78899


Q ss_pred             EEEEECCC-hhhHHHHHHHHHHHHHhc---CCCCCEEEEEecCCCCCccccHHHHHHHHH--------------------
Q psy549          126 VLVYAVDD-ASTWDVVKDLREQIVNKR---GLMVPIVVVGNKCELEFKDVRREIAETIAL--------------------  181 (253)
Q Consensus       126 i~v~d~~~-~~s~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~~~~~~~~~~~~~--------------------  181 (253)
                      ++|.|... .....++..++..+....   ...+|++++.||.|+......+-+.+.+.+                    
T Consensus       113 VFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~  192 (238)
T KOG0090|consen  113 VFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDEDI  192 (238)
T ss_pred             EEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhccccccc
Confidence            99988653 223344555554444433   456899999999998765222111111110                    


Q ss_pred             -----------------hc-CCCcEEEeccCCCCCHHHHHHHHHHH
Q psy549          182 -----------------YD-WQCGFVECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       182 -----------------~~-~~~~~~~~Sa~~~~~i~~l~~~l~~~  209 (253)
                                       .. ..+.+.++|++++ +++++-+||.+.
T Consensus       193 ~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~  237 (238)
T KOG0090|consen  193 AKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREA  237 (238)
T ss_pred             cccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHh
Confidence                             00 2345788899988 899999998764

>PTZ00258 GTP-binding protein; Provisional

Probab=99.45  E-value=4.3e-12  Score=107.95  Aligned_cols=87  Identities=17%  Similarity=0.221  Sum_probs=67.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCc--------------EEEEEEEeCCCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGA--------------QLTLDILDTSGAYQ  110 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~--------------~~~~~l~D~~g~~~  110 (253)
                      ....++|+|+|.||||||||+|+|.+... +.+++.|+.+...+.+.++|..              +..+.++|+||...
T Consensus        18 ~~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~   97 (390)
T PTZ00258         18 PGNNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVK   97 (390)
T ss_pred             CCCCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCc
Confidence            35668999999999999999999987664 6788999988888888875433              33589999999654


Q ss_pred             Ch----hhH---HHhcccCCEEEEEEECC
Q psy549          111 FP----AMR---ELSISTADAFVLVYAVD  132 (253)
Q Consensus       111 ~~----~~~---~~~~~~~d~~i~v~d~~  132 (253)
                      -.    .+.   ...++.+|++++|+|..
T Consensus        98 ga~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         98 GASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CCcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence            22    122   22567899999999974

>PRK09866 hypothetical protein; Provisional

Probab=99.43  E-value=1e-11  Score=109.82  Aligned_cols=108  Identities=21%  Similarity=0.227  Sum_probs=70.3

Q ss_pred             EEEEEeCCCCCCC-----hhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc--c
Q psy549           99 TLDILDTSGAYQF-----PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD--V  171 (253)
Q Consensus        99 ~~~l~D~~g~~~~-----~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~  171 (253)
                      .+.|+||||....     .......+..+|++++|+|+....+..+ ....+.+.. .....|+++|+||+|+.+..  .
T Consensus       231 QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk-~~K~~PVILVVNKIDl~dreedd  308 (741)
T PRK09866        231 QLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILA-VGQSVPLYVLVNKFDQQDRNSDD  308 (741)
T ss_pred             CEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHh-cCCCCCEEEEEEcccCCCcccch
Confidence            3568999997652     2233447889999999999987544333 223333332 22235999999999986421  1


Q ss_pred             cHHHHHHHH----HhcC-CCcEEEeccCCCCCHHHHHHHHHH
Q psy549          172 RREIAETIA----LYDW-QCGFVECSAKENYNIVQVFKELLA  208 (253)
Q Consensus       172 ~~~~~~~~~----~~~~-~~~~~~~Sa~~~~~i~~l~~~l~~  208 (253)
                      .+.....+.    .... ...++++||+.|.|++++++.|..
T Consensus       309 kE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        309 ADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            223333322    1112 346999999999999999999877

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.41  E-value=5.1e-12  Score=105.63  Aligned_cols=114  Identities=18%  Similarity=0.235  Sum_probs=74.3

Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcccc----
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR----  172 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~----  172 (253)
                      .+.+.|+||+|...-...   ....+|.+++|.+...+.......   ..+..     +.-++|+||+|+......    
T Consensus       148 g~d~viieT~Gv~qs~~~---i~~~aD~vlvv~~p~~gd~iq~~k---~gi~E-----~aDIiVVNKaDl~~~~~a~~~~  216 (332)
T PRK09435        148 GYDVILVETVGVGQSETA---VAGMVDFFLLLQLPGAGDELQGIK---KGIME-----LADLIVINKADGDNKTAARRAA  216 (332)
T ss_pred             CCCEEEEECCCCccchhH---HHHhCCEEEEEecCCchHHHHHHH---hhhhh-----hhheEEeehhcccchhHHHHHH
Confidence            467889999997633222   466799999997755554443322   11222     234899999998764211    


Q ss_pred             HHHHHHHHHh-----cCCCcEEEeccCCCCCHHHHHHHHHHHHHHhcccChhhc
Q psy549          173 REIAETIALY-----DWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVR  221 (253)
Q Consensus       173 ~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~~~~~~~  221 (253)
                      .+....+...     .|..|++.+|++++.|++++++.|.+.+...++......
T Consensus       217 ~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l~~sg~l~~  270 (332)
T PRK09435        217 AEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAALTASGEFAA  270 (332)
T ss_pred             HHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhccCChHHH
Confidence            1222222211     255789999999999999999999998876665555444

>PRK13768 GTPase; Provisional

Probab=99.41  E-value=3.4e-12  Score=103.73  Aligned_cols=112  Identities=15%  Similarity=0.109  Sum_probs=71.7

Q ss_pred             EEEEEeCCCCCCC---hhhHHHhccc-----CCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549           99 TLDILDTSGAYQF---PAMRELSIST-----ADAFVLVYAVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus        99 ~~~l~D~~g~~~~---~~~~~~~~~~-----~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      .+.+||+||+.++   ...+..+++.     ++++++|+|+.......+. ..++..+......++|+++|+||+|+...
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~~~~  177 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADLLSE  177 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhhcCc
Confidence            5789999998764   3333333332     8999999999664433222 22222222211256899999999998765


Q ss_pred             cccHHHHH----------------------------HHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          170 DVRREIAE----------------------------TIALYDWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       170 ~~~~~~~~----------------------------~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      .......+                            .+.......+++++|++++.|+++++++|.+.+
T Consensus       178 ~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l  246 (253)
T PRK13768        178 EELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVF  246 (253)
T ss_pred             hhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHc
Confidence            22221111                            122223446889999999999999999998776

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.39  E-value=4e-12  Score=106.29  Aligned_cols=154  Identities=18%  Similarity=0.274  Sum_probs=96.8

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCC------------------------Cccccce----eeeeeeEEcCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FIS------------------------RYKETVE----ELHRGEYELPDG   95 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~------------------------~~~~t~~----~~~~~~~~~~~~   95 (253)
                      .++.++++|+|+..+|||||+-+|+-+.  +..                        +...+.+    ........+ ..
T Consensus         4 ~Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~f-et   82 (428)
T COG5256           4 EKPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKF-ET   82 (428)
T ss_pred             CCCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEe-ec
Confidence            4678999999999999999999998321  110                        0000000    122222223 34


Q ss_pred             cEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhh---H--HHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-
Q psy549           96 AQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAST---W--DVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-  169 (253)
Q Consensus        96 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-  169 (253)
                      ..+.|+|+|+||+..|-...-.-...||++|+|.|+.+.+.   |  ....+....+.... .-..+++++||.|+.+- 
T Consensus        83 ~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tl-Gi~~lIVavNKMD~v~wd  161 (428)
T COG5256          83 DKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTL-GIKQLIVAVNKMDLVSWD  161 (428)
T ss_pred             CCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhc-CCceEEEEEEcccccccC
Confidence            45679999999988887777777888999999999998742   1  11222222223221 12467888899998864 


Q ss_pred             -----cccHHHHHHHHHhcC---CCcEEEeccCCCCCHHH
Q psy549          170 -----DVRREIAETIALYDW---QCGFVECSAKENYNIVQ  201 (253)
Q Consensus       170 -----~~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~i~~  201 (253)
                           ++..+....+...++   .++|+++|+..|.|+.+
T Consensus       162 e~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~  201 (428)
T COG5256         162 EERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTK  201 (428)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCcccc
Confidence                 222222232222223   36799999999999864

>PRK12740 elongation factor G; Reviewed

Probab=99.38  E-value=6.1e-12  Score=115.88  Aligned_cols=108  Identities=17%  Similarity=0.181  Sum_probs=73.9

Q ss_pred             ECCCCCCHHHHHHHHHhCCC--CC-----------Cc------cccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH
Q psy549           55 MGGARVGKSSIISQFLYDRF--IS-----------RY------KETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR  115 (253)
Q Consensus        55 iG~~~~GKSsLi~~l~~~~~--~~-----------~~------~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~  115 (253)
                      +|++++|||||+++|+...-  ..           +.      ...+.......+.+   ..+.+.+|||||+.++...+
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~---~~~~i~liDtPG~~~~~~~~   77 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEW---KGHKINLIDTPGHVDFTGEV   77 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEE---CCEEEEEEECCCcHHHHHHH
Confidence            69999999999999974321  00           00      00111112223333   34678999999999888888


Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          116 ELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       116 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      ...+..+|++++|+|+++.........| ..+..   .++|+++|+||+|+...
T Consensus        78 ~~~l~~aD~vllvvd~~~~~~~~~~~~~-~~~~~---~~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         78 ERALRVLDGAVVVVCAVGGVEPQTETVW-RQAEK---YGVPRIIFVNKMDRAGA  127 (668)
T ss_pred             HHHHHHhCeEEEEEeCCCCcCHHHHHHH-HHHHH---cCCCEEEEEECCCCCCC
Confidence            8889999999999999987665543333 22222   46899999999998643

>TIGR00101 ureG urease accessory protein UreG

Probab=99.38  E-value=5.2e-12  Score=98.89  Aligned_cols=103  Identities=15%  Similarity=0.051  Sum_probs=65.7

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc--cccHHH
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK--DVRREI  175 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~  175 (253)
                      ..+.++++.|..--.....   ..+|.+|.|+|+.+..+...  .+...+      ...-++++||+|+.+.  ......
T Consensus        92 ~D~iiIEt~G~~l~~~~~~---~l~~~~i~vvD~~~~~~~~~--~~~~qi------~~ad~~~~~k~d~~~~~~~~~~~~  160 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFSP---ELADLTIFVIDVAAGDKIPR--KGGPGI------TRSDLLVINKIDLAPMVGADLGVM  160 (199)
T ss_pred             CCEEEEECCCCCcccccch---hhhCcEEEEEEcchhhhhhh--hhHhHh------hhccEEEEEhhhccccccccHHHH
Confidence            4556778877422222211   12688999999987655321  111111      1233899999999853  222333


Q ss_pred             HHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          176 AETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       176 ~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      .+.+.......+++++|+++|.|++++|++|.+.++
T Consensus       161 ~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       161 ERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             HHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            444444467889999999999999999999997653

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.37  E-value=1.6e-11  Score=115.54  Aligned_cols=144  Identities=19%  Similarity=0.236  Sum_probs=92.8

Q ss_pred             CHHHHHHHHHhCCCCC-CccccceeeeeeeEEcCCCc----------E-----EEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           61 GKSSIISQFLYDRFIS-RYKETVEELHRGEYELPDGA----------Q-----LTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        61 GKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~----------~-----~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      +||||+.++.+..... .....|...-...+......          .     -.+.||||||++.|..+....+..+|+
T Consensus       473 ~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aDi  552 (1049)
T PRK14845        473 HNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLADL  552 (1049)
T ss_pred             ccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCCE
Confidence            4999999999866532 22222333333333331111          0     127899999999998888888889999


Q ss_pred             EEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cc-------------cHHHHH----------
Q psy549          125 FVLVYAVDDA---STWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DV-------------RREIAE----------  177 (253)
Q Consensus       125 ~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~-------------~~~~~~----------  177 (253)
                      +++|+|+++.   .+++.+.    .+..   .++|+++|+||+|+... ..             .+....          
T Consensus       553 vlLVVDa~~Gi~~qT~e~I~----~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~~v~  625 (1049)
T PRK14845        553 AVLVVDINEGFKPQTIEAIN----ILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLYELI  625 (1049)
T ss_pred             EEEEEECcccCCHhHHHHHH----HHHH---cCCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHHHHh
Confidence            9999999873   3333322    2222   35899999999998642 10             011111          


Q ss_pred             -HHHH-------------hcCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          178 -TIAL-------------YDWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       178 -~~~~-------------~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                       .+..             ....++++++||++|.||++++.++.....
T Consensus       626 ~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~~  673 (1049)
T PRK14845        626 GKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLAQ  673 (1049)
T ss_pred             hHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhhH
Confidence             1111             134578999999999999999988765543

>PRK00007 elongation factor G; Reviewed

Probab=99.37  E-value=1e-11  Score=114.43  Aligned_cols=142  Identities=18%  Similarity=0.124  Sum_probs=91.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh--CCCC-----C------------CccccceeeeeeeEEcCCCcEEEEEEEeCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY--DRFI-----S------------RYKETVEELHRGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~--~~~~-----~------------~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      ....+|+|+|++++|||||+++|+.  +...     .            ....++.+.....+.+ .  ...+.|+||||
T Consensus         8 ~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~-~--~~~~~liDTPG   84 (693)
T PRK00007          8 ERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFW-K--DHRINIIDTPG   84 (693)
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEE-C--CeEEEEEeCCC
Confidence            3467999999999999999999984  2110     0            0112223333334444 2  35789999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCC--
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQ--  185 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~--  185 (253)
                      +.+|.......++.+|++++|+|+......+....|. .+..   .++|+++++||+|+.... .....+.+......  
T Consensus        85 ~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~-~~~~---~~~p~iv~vNK~D~~~~~-~~~~~~~i~~~l~~~~  159 (693)
T PRK00007         85 HVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWR-QADK---YKVPRIAFVNKMDRTGAD-FYRVVEQIKDRLGANP  159 (693)
T ss_pred             cHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHHH-HHHH---cCCCEEEEEECCCCCCCC-HHHHHHHHHHHhCCCe
Confidence            9888777777889999999999998775444433332 2333   457999999999988653 22233333332222  


Q ss_pred             -CcEEEeccCCC
Q psy549          186 -CGFVECSAKEN  196 (253)
Q Consensus       186 -~~~~~~Sa~~~  196 (253)
                       ...+++|+.++
T Consensus       160 ~~~~ipisa~~~  171 (693)
T PRK00007        160 VPIQLPIGAEDD  171 (693)
T ss_pred             eeEEecCccCCc
Confidence             23455666554

>KOG1532|consensus

Probab=99.36  E-value=1.1e-11  Score=98.30  Aligned_cols=167  Identities=13%  Similarity=0.140  Sum_probs=96.7

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce--------eeeeeeEEc----------------CC------
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE--------ELHRGEYEL----------------PD------   94 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~--------~~~~~~~~~----------------~~------   94 (253)
                      ....++.|+++|-.|+|||||+++|...-.....++-..        -.+...+.+                ||      
T Consensus        15 ~~~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGgI~Ts   94 (366)
T KOG1532|consen   15 AIQRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGGIVTS   94 (366)
T ss_pred             cccCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcchhhh
Confidence            456678999999999999999999884222111100000        111111110                01      


Q ss_pred             ------------------CcEEEEEEEeCCCCCCC------hhhHHHhccc--CCEEEEEEECCC---hhhHHHHHHHHH
Q psy549           95 ------------------GAQLTLDILDTSGAYQF------PAMRELSIST--ADAFVLVYAVDD---ASTWDVVKDLRE  145 (253)
Q Consensus        95 ------------------~~~~~~~l~D~~g~~~~------~~~~~~~~~~--~d~~i~v~d~~~---~~s~~~~~~~~~  145 (253)
                                        ...+++.++||||+.+-      ...+...+..  .-++++|.|...   +..|-.-..+..
T Consensus        95 LNLF~tk~dqv~~~iek~~~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAc  174 (366)
T KOG1532|consen   95 LNLFATKFDQVIELIEKRAEEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYAC  174 (366)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHH
Confidence                              22356789999998762      1222222222  345566666533   333433222333


Q ss_pred             HHHHhcCCCCCEEEEEecCCCCCccccH--------------------------HHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          146 QIVNKRGLMVPIVVVGNKCELEFKDVRR--------------------------EIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       146 ~~~~~~~~~~piilv~nK~Dl~~~~~~~--------------------------~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      .+.  ...++|.++|.||+|+.+.....                          .+.-.+......+..+-+|+.+|.|.
T Consensus       175 Sil--yktklp~ivvfNK~Dv~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~  252 (366)
T KOG1532|consen  175 SIL--YKTKLPFIVVFNKTDVSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGF  252 (366)
T ss_pred             HHH--HhccCCeEEEEecccccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcH
Confidence            333  33679999999999988762111                          11111223345678899999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy549          200 VQVFKELLAQAKVQ  213 (253)
Q Consensus       200 ~~l~~~l~~~~~~~  213 (253)
                      +++|..+-..+.+.
T Consensus       253 ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  253 DDFFTAVDESVDEY  266 (366)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999988766553

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.36  E-value=7.4e-12  Score=115.72  Aligned_cols=117  Identities=17%  Similarity=0.195  Sum_probs=80.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CC---------CCcc-------ccce-eeeeeeEEcCCCcEEEEEEEeCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FI---------SRYK-------ETVE-ELHRGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~---------~~~~-------~t~~-~~~~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      ....+|+|+|+.++|||||+++|+...  ..         .++.       .|.. ........+ ++..+.+.+|||||
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~-~~~~~~i~liDTPG   95 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEY-EGNEYLINLIDTPG   95 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEee-cCCceEEEEEeCCC
Confidence            345799999999999999999998521  00         0110       1111 111112223 55668899999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      +.+|.......++.+|++|+|+|+.+....+....|.. ...   .++|+++|+||+|...
T Consensus        96 ~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~~  152 (720)
T TIGR00490        96 HVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQ-ALK---ENVKPVLFINKVDRLI  152 (720)
T ss_pred             ccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHHH-HHH---cCCCEEEEEEChhccc
Confidence            99998888889999999999999987543333222222 222   4578899999999864

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.

>KOG0705|consensus

Probab=99.34  E-value=3.4e-12  Score=109.56  Aligned_cols=203  Identities=18%  Similarity=0.267  Sum_probs=147.5

Q ss_pred             hhcccccccccccccccccccCCCCCCCCCCCCCCCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeee
Q psy549            9 DKGLQTDYRKMPGACERLRLHSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG   88 (253)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~   88 (253)
                      ++.++.....+.+++.....|+++.            --+++|++|+|..++|||+|+++++.+.+..+..+. ...+.+
T Consensus         2 qn~i~~~~~~~~dafvnsqewtlsr------------sipelk~givg~~~sgktalvhr~ltgty~~~e~~e-~~~~kk   68 (749)
T KOG0705|consen    2 QNQIRESVDSIEDAFVNSQEWTLSR------------SIPELKLGIVGTSQSGKTALVHRYLTGTYTQDESPE-GGRFKK   68 (749)
T ss_pred             cchhhhchhhHHHhhccccceeeec------------ccchhheeeeecccCCceeeeeeeccceeccccCCc-Ccccee
Confidence            5667777888888888887777664            346799999999999999999999999986554333 345555


Q ss_pred             eEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCC
Q psy549           89 EYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELE  167 (253)
Q Consensus        89 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~  167 (253)
                      ++.+ +++..-+.+.|.+|..     ...|...+|++|+||.+.+..+|+.+..+...+..+. ...+|+++++++.-..
T Consensus        69 E~vv-~gqs~lLlirdeg~~~-----~aQft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS  142 (749)
T KOG0705|consen   69 EVVV-DGQSHLLLIRDEGGHP-----DAQFCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHIS  142 (749)
T ss_pred             eEEe-eccceEeeeecccCCc-----hhhhhhhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhh
Confidence            6656 7777778888888732     2445677999999999999999998877666555432 3558889888875432


Q ss_pred             Cc----cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHHhcccChhhccccccCCCCc
Q psy549          168 FK----DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPNYI  231 (253)
Q Consensus       168 ~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  231 (253)
                      ..    ..........++ ...+.+|++++.+|.+++.+|..++.++....+.....-.+...++.++
T Consensus       143 ~~~~rv~~da~~r~l~~~-~krcsy~et~atyGlnv~rvf~~~~~k~i~~~~~qq~~~~~~~s~~~s~  209 (749)
T KOG0705|consen  143 AKRPRVITDDRARQLSAQ-MKRCSYYETCATYGLNVERVFQEVAQKIVQLRKYQQLPASSSKSLPESP  209 (749)
T ss_pred             cccccccchHHHHHHHHh-cCccceeecchhhhhhHHHHHHHHHHHHHHHHhhhhcccccccccccCC
Confidence            22    344444444555 7778899999999999999999999887666444443344444444444

>cd01882 BMS1 Bms1

Probab=99.34  E-value=4.5e-11  Score=95.56  Aligned_cols=141  Identities=13%  Similarity=0.074  Sum_probs=83.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ......|+|+|.+|+|||||++.+....-....     ....+.+.+.......+.++|+||..   .......+.+|++
T Consensus        36 ~~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~-----~~~~g~i~i~~~~~~~i~~vDtPg~~---~~~l~~ak~aDvV  107 (225)
T cd01882          36 EPPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNI-----SDIKGPITVVTGKKRRLTFIECPNDI---NAMIDIAKVADLV  107 (225)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhcccCcc-----ccccccEEEEecCCceEEEEeCCchH---HHHHHHHHhcCEE
Confidence            345688999999999999999999864211111     01111111111233467899999853   2223356889999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCE-EEEEecCCCCCcc-----ccHHHHHHHH-HhcCCCcEEEeccCCCCC
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPI-VVVGNKCELEFKD-----VRREIAETIA-LYDWQCGFVECSAKENYN  198 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~~~-----~~~~~~~~~~-~~~~~~~~~~~Sa~~~~~  198 (253)
                      ++|+|+........ ..++..+..   .++|. ++|+||.|+.+..     ...++.+.+. ......+++.+||+++-.
T Consensus       108 llviDa~~~~~~~~-~~i~~~l~~---~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~~  183 (225)
T cd01882         108 LLLIDASFGFEMET-FEFLNILQV---HGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHGR  183 (225)
T ss_pred             EEEEecCcCCCHHH-HHHHHHHHH---cCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCCC
Confidence            99999986544332 223333322   34674 5599999986431     1112222222 123457899999998753

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.

>KOG1486|consensus

Probab=99.33  E-value=8.3e-11  Score=92.22  Aligned_cols=172  Identities=19%  Similarity=0.264  Sum_probs=123.3

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHH-------H
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRE-------L  117 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~-------~  117 (253)
                      .+...+|+++|-|.+|||||+..+..-.. ...|..|+.....+.+.+ ++.  .+++.|.||.-+-.+...       .
T Consensus        59 KsGdaRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~y-~ga--~IQllDLPGIieGAsqgkGRGRQvia  135 (364)
T KOG1486|consen   59 KSGDARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIHY-NGA--NIQLLDLPGIIEGASQGKGRGRQVIA  135 (364)
T ss_pred             ccCCeEEEEecCCCccHHHHHHHhhcchhhhhceeeeEEEeecceEEe-cCc--eEEEecCcccccccccCCCCCceEEE
Confidence            56678999999999999999999987553 678889999999999999 664  679999999766443332       2


Q ss_pred             hcccCCEEEEEEECCChhhHHH-HHHHHHHHHHh----------------------------------------------
Q psy549          118 SISTADAFVLVYAVDDASTWDV-VKDLREQIVNK----------------------------------------------  150 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~----------------------------------------------  150 (253)
                      ..+-+|.+++|.|++..+--.. ++..++.+-..                                              
T Consensus       136 vArtaDlilMvLDatk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~ek~i~~ILheykI~Na  215 (364)
T KOG1486|consen  136 VARTADLILMVLDATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDEKLIYTILHEYKIHNA  215 (364)
T ss_pred             EeecccEEEEEecCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccHHHHHHHHHHHeeccc
Confidence            5667999999999987533221 22222211110                                              


Q ss_pred             -------------------cCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          151 -------------------RGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       151 -------------------~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                                         ..-.++.+.|-||+|    ++..+....++. ..+.  +.+|.....|++.+++.|++.+ 
T Consensus       216 evl~ReD~t~DdfIDvi~gnr~Y~~ClYvYnKID----~vs~eevdrlAr-~Pns--vViSC~m~lnld~lle~iWe~l-  287 (364)
T KOG1486|consen  216 EVLFREDCTVDDFIDVIEGNRVYIKCLYVYNKID----QVSIEEVDRLAR-QPNS--VVISCNMKLNLDRLLERIWEEL-  287 (364)
T ss_pred             eEEEecCCChHHHHHHHhccceEEEEEEEeeccc----eecHHHHHHHhc-CCCc--EEEEeccccCHHHHHHHHHHHh-
Confidence                               001257788899998    778888888887 4443  4566667799999999999988 


Q ss_pred             HhcccChhhccccccCCCCc
Q psy549          212 VQYNLSPAVRRRRQSLPNYI  231 (253)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~~~  231 (253)
                         .+.....+++...|...
T Consensus       288 ---~L~rvYtKk~g~~Pdfd  304 (364)
T KOG1486|consen  288 ---NLVRVYTKKKGQRPDFD  304 (364)
T ss_pred             ---ceEEEEecCCCCCCCCC
Confidence               34455566666666655

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.31  E-value=7.2e-11  Score=95.43  Aligned_cols=121  Identities=21%  Similarity=0.211  Sum_probs=75.1

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh--hH-----
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA--MR-----  115 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~--~~-----  115 (253)
                      .....++|+++|.+|+|||||+|+|++...  .....+++.......... ++  ..+.+|||||..+...  ..     
T Consensus        27 ~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~-~g--~~i~vIDTPGl~~~~~~~~~~~~~~  103 (249)
T cd01853          27 ELDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTV-DG--FKLNIIDTPGLLESVMDQRVNRKIL  103 (249)
T ss_pred             hccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEE-CC--eEEEEEECCCcCcchhhHHHHHHHH
Confidence            346779999999999999999999999764  333434444444444444 44  4679999999776521  11     


Q ss_pred             ---HHhcc--cCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCC--CCCEEEEEecCCCCCc
Q psy549          116 ---ELSIS--TADAFVLVYAVDDAS-TWDVVKDLREQIVNKRGL--MVPIVVVGNKCELEFK  169 (253)
Q Consensus       116 ---~~~~~--~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~--~~piilv~nK~Dl~~~  169 (253)
                         ..++.  ..|++++|..++... ...+ ...+..+......  -.++++|.||+|....
T Consensus       104 ~~I~~~l~~~~idvIL~V~rlD~~r~~~~d-~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p  164 (249)
T cd01853         104 SSIKRYLKKKTPDVVLYVDRLDMYRRDYLD-LPLLRAITDSFGPSIWRNAIVVLTHAASSPP  164 (249)
T ss_pred             HHHHHHHhccCCCEEEEEEcCCCCCCCHHH-HHHHHHHHHHhChhhHhCEEEEEeCCccCCC
Confidence               11222  568888887666432 2221 2233333332211  1579999999997543

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.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.30  E-value=1.4e-10  Score=97.64  Aligned_cols=83  Identities=22%  Similarity=0.268  Sum_probs=64.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCc--------------EEEEEEEeCCCCCCCh--
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGA--------------QLTLDILDTSGAYQFP--  112 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~--------------~~~~~l~D~~g~~~~~--  112 (253)
                      ++|+|+|.||||||||+|++++... +.+++.||.+...+.+.+++..              +..+.++|+||...-.  
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~   82 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   82 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCCh
Confidence            7899999999999999999998764 5778889988888888775531              1358999999965422  


Q ss_pred             --hhHH---HhcccCCEEEEEEECC
Q psy549          113 --AMRE---LSISTADAFVLVYAVD  132 (253)
Q Consensus       113 --~~~~---~~~~~~d~~i~v~d~~  132 (253)
                        .+..   ..++.+|++++|+|+.
T Consensus        83 g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         83 GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence              1222   2467899999999984

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.30  E-value=2.8e-11  Score=87.35  Aligned_cols=113  Identities=26%  Similarity=0.213  Sum_probs=78.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCcc-ccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYK-ETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+++|+.|+|||+|+.++....+...+. ++..                           +.......++.++.+++|
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v   53 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQC   53 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEE
Confidence            589999999999999999997776643222 2211                           222234456778999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      |+..+..++..+  |...+......++|.++++||.|+... ....+.         ...++++|++++.|+.
T Consensus        54 ~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~---------~~~~~~~s~~~~~~~~  115 (124)
T smart00010       54 WRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEE---------GLEFAETSAKTPEEGE  115 (124)
T ss_pred             EEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHH---------HHHHHHHhCCCcchhh
Confidence            999999998765  766666544566899999999997432 222211         1235678889998874

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.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=99.30  E-value=2.3e-12  Score=103.52  Aligned_cols=112  Identities=18%  Similarity=0.115  Sum_probs=59.2

Q ss_pred             EEEEEeCCCCCCChhhHHHhc--------ccCCEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549           99 TLDILDTSGAYQFPAMRELSI--------STADAFVLVYAVDDAST-WDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus        99 ~~~l~D~~g~~~~~~~~~~~~--------~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      .+.++|||||.++-..+....        ...-+++++.|..-..+ ...+..++..+......+.|.+.|+||+|+...
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~~  171 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLSK  171 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-H
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCcccc
Confidence            678999999998755554422        23457778888753322 112233333333333356899999999999872


Q ss_pred             c------------c--------cHHHHHHHHHh---cCCC-cEEEeccCCCCCHHHHHHHHHHHH
Q psy549          170 D------------V--------RREIAETIALY---DWQC-GFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       170 ~------------~--------~~~~~~~~~~~---~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      .            .        .....+.++..   .... .++++|+.++.++.+++..+-+.+
T Consensus       172 ~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  172 YLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             HHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             hhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            1            0        01111222221   2233 799999999999999998876654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.29  E-value=1.5e-11  Score=99.37  Aligned_cols=96  Identities=14%  Similarity=0.104  Sum_probs=78.2

Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCC
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDAS-TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQ  185 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~  185 (253)
                      .+++..+...+++++|++++|||+.++. ++..+..|+..+..   .++|+++|+||+||.+. ....+..+.+..  .+
T Consensus        23 ~eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~~~~~~~~~~--~g   97 (245)
T TIGR00157        23 AERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDMEKEQLDIYRN--IG   97 (245)
T ss_pred             ecccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHHHHHHH--CC
Confidence            3677778888999999999999999877 89999999876654   56899999999999654 333344555543  56


Q ss_pred             CcEEEeccCCCCCHHHHHHHHHH
Q psy549          186 CGFVECSAKENYNIVQVFKELLA  208 (253)
Q Consensus       186 ~~~~~~Sa~~~~~i~~l~~~l~~  208 (253)
                      .+++++||++|.|++++|+.+..
T Consensus        98 ~~v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157        98 YQVLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             CeEEEEecCCchhHHHHHhhhcC
Confidence            78999999999999999998864

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>cd01900 YchF YchF subfamily

Probab=99.27  E-value=1.4e-10  Score=94.73  Aligned_cols=81  Identities=21%  Similarity=0.263  Sum_probs=61.9

Q ss_pred             EEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCc--------------EEEEEEEeCCCCCCCh----
Q psy549           52 VVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGA--------------QLTLDILDTSGAYQFP----  112 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~--------------~~~~~l~D~~g~~~~~----  112 (253)
                      |+|+|.||||||||+|++++... +.+++.+|.+...+.+.+++..              +..++++|+||..+-.    
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~   80 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE   80 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhh
Confidence            58999999999999999999764 6788889888888888775532              2358999999965422    


Q ss_pred             hhHHH---hcccCCEEEEEEECC
Q psy549          113 AMREL---SISTADAFVLVYAVD  132 (253)
Q Consensus       113 ~~~~~---~~~~~d~~i~v~d~~  132 (253)
                      .+...   .++.+|++++|+|+.
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence            22222   467899999999874

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.

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.26  E-value=1.1e-10  Score=98.84  Aligned_cols=161  Identities=17%  Similarity=0.256  Sum_probs=111.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CCCC------------ccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCCh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FISR------------YKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFP  112 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~------------~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~  112 (253)
                      +--+|+||-+..-|||||+..|+.+.  |...            .....+ ....+...+ +...+++.++||||+-.|.
T Consensus         4 ~iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav-~~~~~~INIvDTPGHADFG   82 (603)
T COG1217           4 DIRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAV-NYNGTRINIVDTPGHADFG   82 (603)
T ss_pred             ccceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEecccee-ecCCeEEEEecCCCcCCcc
Confidence            34689999999999999999999643  3110            000001 333343334 4455789999999999999


Q ss_pred             hhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc---cccHHHHHHHHH-----hcC
Q psy549          113 AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK---DVRREIAETIAL-----YDW  184 (253)
Q Consensus       113 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~---~~~~~~~~~~~~-----~~~  184 (253)
                      ...+..+.=+|++++++|+.+..--+. ...+...+.   .+.+.++|+||+|.++.   .+..+..+.|..     ...
T Consensus        83 GEVERvl~MVDgvlLlVDA~EGpMPQT-rFVlkKAl~---~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQL  158 (603)
T COG1217          83 GEVERVLSMVDGVLLLVDASEGPMPQT-RFVLKKALA---LGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQL  158 (603)
T ss_pred             chhhhhhhhcceEEEEEEcccCCCCch-hhhHHHHHH---cCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhC
Confidence            999999999999999999998643221 222222222   45677889999999887   344444555543     245


Q ss_pred             CCcEEEeccCCCC----------CHHHHHHHHHHHHHHh
Q psy549          185 QCGFVECSAKENY----------NIVQVFKELLAQAKVQ  213 (253)
Q Consensus       185 ~~~~~~~Sa~~~~----------~i~~l~~~l~~~~~~~  213 (253)
                      ..|+++.|+..|.          ++.-+|+.|++.+..-
T Consensus       159 dFPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P  197 (603)
T COG1217         159 DFPIVYASARNGTASLDPEDEADDMAPLFETILDHVPAP  197 (603)
T ss_pred             CCcEEEeeccCceeccCccccccchhHHHHHHHHhCCCC
Confidence            6899999998875          4777888888887543

>cd00066 G-alpha G protein alpha subunit

Probab=99.25  E-value=1.3e-10  Score=97.44  Aligned_cols=117  Identities=17%  Similarity=0.089  Sum_probs=78.8

Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCCh----------hhHHHHHHHHHHHHHh-cCCCCCEEEEEecCC
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDA----------STWDVVKDLREQIVNK-RGLMVPIVVVGNKCE  165 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~~-~~~~~piilv~nK~D  165 (253)
                      .+.+.+||++|+...+..|..++.+++++++|+|+++-          ..+......+..+... .-.++|+++++||.|
T Consensus       160 ~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D  239 (317)
T cd00066         160 NLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKD  239 (317)
T ss_pred             ceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChH
Confidence            46788999999999999999999999999999999873          2233322233333332 224689999999999


Q ss_pred             CCCcc------------------ccHH----HHHHHHHh----cCCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          166 LEFKD------------------VRRE----IAETIALY----DWQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       166 l~~~~------------------~~~~----~~~~~~~~----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      +....                  ....    +...+...    ...+.+..|+|.+-.++..+|+.+.+.+...
T Consensus       240 ~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~  313 (317)
T cd00066         240 LFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQN  313 (317)
T ss_pred             HHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHH
Confidence            64320                  0111    11222221    1234456688888889999999888887665

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.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.25  E-value=1.4e-10  Score=95.32  Aligned_cols=119  Identities=22%  Similarity=0.272  Sum_probs=71.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHH---hc-
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMREL---SI-  119 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~---~~-  119 (253)
                      ....++|+++|.+|+||||++|+|++...  .+...+++.......... ++  ..+.++||||..+.......   .+ 
T Consensus        35 ~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~-~G--~~l~VIDTPGL~d~~~~~e~~~~~ik  111 (313)
T TIGR00991        35 DVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTR-AG--FTLNIIDTPGLIEGGYINDQAVNIIK  111 (313)
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEE-CC--eEEEEEECCCCCchHHHHHHHHHHHH
Confidence            45679999999999999999999998763  333333322222223333 43  57899999998765322211   11 


Q ss_pred             -----ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCCEEEEEecCCCC
Q psy549          120 -----STADAFVLVYAVDDASTWDVVKDLREQIVNKRG--LMVPIVVVGNKCELE  167 (253)
Q Consensus       120 -----~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~  167 (253)
                           ...|++++|..++.......-...+..+.....  --.+.++|+|+.|..
T Consensus       112 ~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~  166 (313)
T TIGR00991       112 RFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFS  166 (313)
T ss_pred             HHhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccC
Confidence                 258999999765532111111222222222211  125789999999965

>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=99.25  E-value=1.3e-11  Score=98.12  Aligned_cols=160  Identities=18%  Similarity=0.135  Sum_probs=91.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC------CC-----CCCccccc----------------eeeeeeeEEcC-------
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD------RF-----ISRYKETV----------------EELHRGEYELP-------   93 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~------~~-----~~~~~~t~----------------~~~~~~~~~~~-------   93 (253)
                      +.+.|+|.|+||+|||||++.|...      +.     .+..+.|.                ...|...+..-       
T Consensus        28 ~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGls  107 (266)
T PF03308_consen   28 RAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGGLS  107 (266)
T ss_dssp             -SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHHHH
T ss_pred             CceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCCcc
Confidence            4589999999999999999998821      10     01111111                01111111110       


Q ss_pred             ----------CCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEec
Q psy549           94 ----------DGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK  163 (253)
Q Consensus        94 ----------~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK  163 (253)
                                +.-.+.+.|++|.|.-.-.   .....-+|.+++|..+.-.+..+-++.-+-++        +=++|+||
T Consensus       108 ~~t~~~v~ll~aaG~D~IiiETVGvGQsE---~~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEi--------aDi~vVNK  176 (266)
T PF03308_consen  108 RATRDAVRLLDAAGFDVIIIETVGVGQSE---VDIADMADTVVLVLVPGLGDEIQAIKAGIMEI--------ADIFVVNK  176 (266)
T ss_dssp             HHHHHHHHHHHHTT-SEEEEEEESSSTHH---HHHHTTSSEEEEEEESSTCCCCCTB-TTHHHH---------SEEEEE-
T ss_pred             HhHHHHHHHHHHcCCCEEEEeCCCCCccH---HHHHHhcCeEEEEecCCCccHHHHHhhhhhhh--------ccEEEEeC
Confidence                      1113667788887743221   22345699999999998776655544433333        33899999


Q ss_pred             CCCCCccccHHHHHHHHH------hcCCCcEEEeccCCCCCHHHHHHHHHHHHHHhcccCh
Q psy549          164 CELEFKDVRREIAETIAL------YDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSP  218 (253)
Q Consensus       164 ~Dl~~~~~~~~~~~~~~~------~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~~~~  218 (253)
                      +|.+.........+..-.      ..|..|++.|||.++.|++++++.|.+..........
T Consensus       177 aD~~gA~~~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~~l~~sg~  237 (266)
T PF03308_consen  177 ADRPGADRTVRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRDYLKESGE  237 (266)
T ss_dssp             -SHHHHHHHHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHHHHHHTTH
T ss_pred             CChHHHHHHHHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHcch
Confidence            996655333322222221      2456799999999999999999999886655544443

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.25  E-value=1.9e-10  Score=92.74  Aligned_cols=159  Identities=18%  Similarity=0.111  Sum_probs=100.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-----------CCCccccce----------------eeeeeeEEc--------
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-----------ISRYKETVE----------------ELHRGEYEL--------   92 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-----------~~~~~~t~~----------------~~~~~~~~~--------   92 (253)
                      +...|.|.|.||+|||||+..|...-.           .+..+.|.+                ..+...+..        
T Consensus        50 ~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~~~~~~~vFiRs~~srG~lGGlS  129 (323)
T COG1703          50 NAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQRLAVDPGVFIRSSPSRGTLGGLS  129 (323)
T ss_pred             CCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHhhccCCCeEEeecCCCccchhhh
Confidence            456999999999999999999872110           111111211                111111110        


Q ss_pred             ---------CCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEec
Q psy549           93 ---------PDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK  163 (253)
Q Consensus        93 ---------~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK  163 (253)
                               .+.-.+.+.|++|.|.-.-..   ....-+|.+++|.-..-.+..+-++.-+-++.        =++|+||
T Consensus       130 ~at~~~i~~ldAaG~DvIIVETVGvGQsev---~I~~~aDt~~~v~~pg~GD~~Q~iK~GimEia--------Di~vINK  198 (323)
T COG1703         130 RATREAIKLLDAAGYDVIIVETVGVGQSEV---DIANMADTFLVVMIPGAGDDLQGIKAGIMEIA--------DIIVINK  198 (323)
T ss_pred             HHHHHHHHHHHhcCCCEEEEEecCCCcchh---HHhhhcceEEEEecCCCCcHHHHHHhhhhhhh--------heeeEec
Confidence                     023346778899987543322   23345899999998877766666555444333        3899999


Q ss_pred             CCCCCccccHHHH----H----HHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHHhcccC
Q psy549          164 CELEFKDVRREIA----E----TIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLS  217 (253)
Q Consensus       164 ~Dl~~~~~~~~~~----~----~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~~~  217 (253)
                      .|....+......    .    ......|..|++.|||.+|.|++++++.+.+.........
T Consensus       199 aD~~~A~~a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~~~sg  260 (323)
T COG1703         199 ADRKGAEKAARELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFLTESG  260 (323)
T ss_pred             cChhhHHHHHHHHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHHHhcc
Confidence            9966542111111    1    1233468889999999999999999999999876654443

>KOG3905|consensus

Probab=99.23  E-value=6.8e-10  Score=90.19  Aligned_cols=165  Identities=16%  Similarity=0.219  Sum_probs=110.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcC-CCcEEEEEEEeCCCCCCChhhHHHhccc---
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELP-DGAQLTLDILDTSGAYQFPAMRELSIST---  121 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~---  121 (253)
                      ....-+|+++|+.++||||||.+|.+.+-+..  .....+.+-.+.-. .....++.+|-..|.-....+....+..   
T Consensus        49 lpsgk~VlvlGdn~sGKtsLi~klqg~e~~Kk--gsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~  126 (473)
T KOG3905|consen   49 LPSGKNVLVLGDNGSGKTSLISKLQGSETVKK--GSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSL  126 (473)
T ss_pred             CCCCCeEEEEccCCCchhHHHHHhhcccccCC--CCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCc
Confidence            34567899999999999999999998663211  11112222222110 1223456788877766666665554433   


Q ss_pred             C-CEEEEEEECCChh-hHHHHHHHHHHHHHh-------------------------------------------------
Q psy549          122 A-DAFVLVYAVDDAS-TWDVVKDLREQIVNK-------------------------------------------------  150 (253)
Q Consensus       122 ~-d~~i~v~d~~~~~-s~~~~~~~~~~~~~~-------------------------------------------------  150 (253)
                      + -.+|++.|.+++. -++.+.+|..-+..+                                                 
T Consensus       127 aetlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de  206 (473)
T KOG3905|consen  127 AETLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADE  206 (473)
T ss_pred             cceEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCcccc
Confidence            2 3778889999984 455677776554442                                                 


Q ss_pred             ------------cCCCCCEEEEEecCCCCCc------------cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          151 ------------RGLMVPIVVVGNKCELEFK------------DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       151 ------------~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                                  ...++|+++|++|+|....            ...+..++.|+. ..+...+++|++...||+-++.+|
T Consensus       207 ~~llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCL-r~GaaLiyTSvKE~KNidllyKYi  285 (473)
T KOG3905|consen  207 HVLLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCL-RYGAALIYTSVKETKNIDLLYKYI  285 (473)
T ss_pred             ccccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHH-HcCceeEEeecccccchHHHHHHH
Confidence                        1236899999999997322            233455677777 678889999999999999999999


Q ss_pred             HHHHHHh
Q psy549          207 LAQAKVQ  213 (253)
Q Consensus       207 ~~~~~~~  213 (253)
                      ..++...
T Consensus       286 vhr~yG~  292 (473)
T KOG3905|consen  286 VHRSYGF  292 (473)
T ss_pred             HHHhcCc
Confidence            9877543

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=99.22  E-value=1.3e-10  Score=88.11  Aligned_cols=80  Identities=15%  Similarity=0.032  Sum_probs=57.1

Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc--ccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD--VRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      +.-|+|+|++.++...  .+-...+.      ..=++|+||.|+....  ..+.+.+...+.+...+++++|+++|.|++
T Consensus       119 ~~~v~VidvteGe~~P--~K~gP~i~------~aDllVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~  190 (202)
T COG0378         119 HLRVVVIDVTEGEDIP--RKGGPGIF------KADLLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLD  190 (202)
T ss_pred             ceEEEEEECCCCCCCc--ccCCCcee------EeeEEEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHH
Confidence            3888899988764311  11011111      1338999999998872  336666777777889999999999999999


Q ss_pred             HHHHHHHHHH
Q psy549          201 QVFKELLAQA  210 (253)
Q Consensus       201 ~l~~~l~~~~  210 (253)
                      ++++|+...+
T Consensus       191 ~~~~~i~~~~  200 (202)
T COG0378         191 EWLRFIEPQA  200 (202)
T ss_pred             HHHHHHHhhc
Confidence            9999987654

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.21  E-value=8.7e-10  Score=93.16  Aligned_cols=154  Identities=16%  Similarity=0.221  Sum_probs=95.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC----C-------------CCCCccc----cceee----eeeeEEcCCCcEEEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD----R-------------FISRYKE----TVEEL----HRGEYELPDGAQLTLDI  102 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~----~-------------~~~~~~~----t~~~~----~~~~~~~~~~~~~~~~l  102 (253)
                      ..+.|+|+|+.++|||||+|+|++.    .             ++++..+    |+...    ..-.+...++...++.+
T Consensus        16 G~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~Vrl   95 (492)
T TIGR02836        16 GDIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRL   95 (492)
T ss_pred             CcEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEE
Confidence            5689999999999999999999976    2             2233333    33222    22344444666788999


Q ss_pred             EeCCCCCCC--------hh---------------------hHHHhcc-cCCEEEEEE-ECC----ChhhH-HHHHHHHHH
Q psy549          103 LDTSGAYQF--------PA---------------------MRELSIS-TADAFVLVY-AVD----DASTW-DVVKDLREQ  146 (253)
Q Consensus       103 ~D~~g~~~~--------~~---------------------~~~~~~~-~~d~~i~v~-d~~----~~~s~-~~~~~~~~~  146 (253)
                      +||+|-..-        ..                     .+...+. .+++.|+|. |.+    .++.+ ..-..++..
T Consensus        96 IDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~e  175 (492)
T TIGR02836        96 VDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEE  175 (492)
T ss_pred             EECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHH
Confidence            999993221        01                     0223455 789999988 653    11122 223456666


Q ss_pred             HHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCC--CCCHHHHHHHH
Q psy549          147 IVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKE--NYNIVQVFKEL  206 (253)
Q Consensus       147 ~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~--~~~i~~l~~~l  206 (253)
                      +..   .++|+++|+|+.|-.. ....+..+.+.. ..+++++.+|...  ...|..+|+.+
T Consensus       176 Lk~---~~kPfiivlN~~dp~~-~et~~l~~~l~e-ky~vpvl~v~c~~l~~~DI~~il~~v  232 (492)
T TIGR02836       176 LKE---LNKPFIILLNSTHPYH-PETEALRQELEE-KYDVPVLAMDVESMRESDILSVLEEV  232 (492)
T ss_pred             HHh---cCCCEEEEEECcCCCC-chhHHHHHHHHH-HhCCceEEEEHHHcCHHHHHHHHHHH
Confidence            655   5689999999999332 224444556655 4568888877743  33455555443

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.21  E-value=2.9e-10  Score=94.82  Aligned_cols=106  Identities=20%  Similarity=0.191  Sum_probs=67.5

Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHH--
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRRE--  174 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~--  174 (253)
                      .+++.|+||+|...   .....+..+|.++++-.....   +.+......+     ..+|.++|+||+|+........  
T Consensus       126 g~D~viidT~G~~~---~e~~i~~~aD~i~vv~~~~~~---~el~~~~~~l-----~~~~~ivv~NK~Dl~~~~~~~~~~  194 (300)
T TIGR00750       126 GYDVIIVETVGVGQ---SEVDIANMADTFVVVTIPGTG---DDLQGIKAGL-----MEIADIYVVNKADGEGATNVTIAR  194 (300)
T ss_pred             CCCEEEEeCCCCch---hhhHHHHhhceEEEEecCCcc---HHHHHHHHHH-----hhhccEEEEEcccccchhHHHHHH
Confidence            46788999998542   122356678888888544433   3333333323     2368899999999876422111  


Q ss_pred             -----HHHHHHH--hcCCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          175 -----IAETIAL--YDWQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       175 -----~~~~~~~--~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                           ....+..  ..|..+++.+|++++.|++++++++.+.....
T Consensus       195 ~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~~~  240 (300)
T TIGR00750       195 LMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKTFL  240 (300)
T ss_pred             HHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHHHH
Confidence                 0111111  13445799999999999999999999875533

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=99.21  E-value=2.5e-10  Score=93.38  Aligned_cols=159  Identities=21%  Similarity=0.220  Sum_probs=95.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC----CCCCCccccce----eeeeeeE------EcCCCcEEEEEEEeCCCCCCChh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD----RFISRYKETVE----ELHRGEY------ELPDGAQLTLDILDTSGAYQFPA  113 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~----~~~~~~~~t~~----~~~~~~~------~~~~~~~~~~~l~D~~g~~~~~~  113 (253)
                      ..+++.++|+..+|||||.+++..-    .|.....++.+    +.-...+      ..+.+..+.+.++|+||+...-.
T Consensus         6 ~n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLIR   85 (522)
T KOG0461|consen    6 SNLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLIR   85 (522)
T ss_pred             ceeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHHH
Confidence            4599999999999999999999842    23222222222    2222222      34567788999999999854333


Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc----ccHHHHHHHHH------hc
Q psy549          114 MRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD----VRREIAETIAL------YD  183 (253)
Q Consensus       114 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~~~~~~~~~~------~~  183 (253)
                      ......+--|..++|.|+..+.--+..+.++  +...  ...-.++|+||+|.....    ..+.....+.+      ..
T Consensus        86 tiiggaqiiDlm~lviDv~kG~QtQtAEcLi--ig~~--~c~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f~  161 (522)
T KOG0461|consen   86 TIIGGAQIIDLMILVIDVQKGKQTQTAECLI--IGEL--LCKKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGFD  161 (522)
T ss_pred             HHHhhhheeeeeeEEEehhcccccccchhhh--hhhh--hccceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCcC
Confidence            3333334458899999998754323222221  1111  124567888998865541    12222333322      13


Q ss_pred             CCCcEEEeccCCC----CCHHHHHHHHHHHH
Q psy549          184 WQCGFVECSAKEN----YNIVQVFKELLAQA  210 (253)
Q Consensus       184 ~~~~~~~~Sa~~~----~~i~~l~~~l~~~~  210 (253)
                      .+.|++++|+..|    .+|.++.+.+-.++
T Consensus       162 g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~i  192 (522)
T KOG0461|consen  162 GNSPIVEVSAADGYFKEEMIQELKEALESRI  192 (522)
T ss_pred             CCCceeEEecCCCccchhHHHHHHHHHHHhh
Confidence            4589999999999    45555555555554

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.21  E-value=5.7e-10  Score=88.17  Aligned_cols=151  Identities=13%  Similarity=0.091  Sum_probs=84.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC--------CCCcc---ccc--eeeeeeeEEcCCCc------------------
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF--------ISRYK---ETV--EELHRGEYELPDGA------------------   96 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~--------~~~~~---~t~--~~~~~~~~~~~~~~------------------   96 (253)
                      ....|+|+|..|+|||||+++++....        ..+..   .+.  .......+.+.++.                  
T Consensus        21 ~~~~i~~~G~~gsGKTTli~~l~~~~~~~~~v~v~~~~~~~~~D~~~~~~~~~~~~~l~~gcic~~~~~~~~~~l~~~~~  100 (207)
T TIGR00073        21 GLVVLNFMSSPGSGKTTLIEKLIDNLKDEVKIAVIEGDVITKFDAERLRKYGAPAIQINTGKECHLDAHMVAHALEDLPL  100 (207)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhcCCeEEEEECCCCCcccHHHHHHcCCcEEEEcCCCcccCChHHHHHHHHHhcc
Confidence            468899999999999999999985310        00000   000  00000111111111                  


Q ss_pred             -EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc--ccH
Q psy549           97 -QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD--VRR  173 (253)
Q Consensus        97 -~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~  173 (253)
                       ...+.++++.|.-....   .+....+..+.|+|+.+....  +..... .     ...|.++++||+|+.+..  ...
T Consensus       101 ~~~d~IiIEt~G~l~~~~---~~~~~~~~~i~Vvd~~~~d~~--~~~~~~-~-----~~~a~iiv~NK~Dl~~~~~~~~~  169 (207)
T TIGR00073       101 DDIDLLFIENVGNLVCPA---DFDLGEHMRVVLLSVTEGDDK--PLKYPG-M-----FKEADLIVINKADLAEAVGFDVE  169 (207)
T ss_pred             CCCCEEEEecCCCcCCCc---ccccccCeEEEEEecCcccch--hhhhHh-H-----HhhCCEEEEEHHHccccchhhHH
Confidence             23555677766211000   111234555667777654321  111111 1     225789999999997531  123


Q ss_pred             HHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHH
Q psy549          174 EIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  209 (253)
                      ...+.+.......+++++|++++.|++++|+++.+.
T Consensus       170 ~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       170 KMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             HHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            334444444556899999999999999999999875

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.20  E-value=4.6e-10  Score=104.18  Aligned_cols=117  Identities=15%  Similarity=0.187  Sum_probs=78.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CCCCccc-c--------------ceeee--eeeEEcCCCcEEEEEEEeCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FISRYKE-T--------------VEELH--RGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~-t--------------~~~~~--~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      ....+|+|+|+.++|||||+++|+...  ....... +              +....  ...+.+ ++..+.+.|+||||
T Consensus        18 ~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~-~~~~~~i~liDtPG   96 (731)
T PRK07560         18 EQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEY-EGKEYLINLIDTPG   96 (731)
T ss_pred             hcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEe-cCCcEEEEEEcCCC
Confidence            345689999999999999999998532  1110000 0              00000  111122 33456789999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      +.+|.......++.+|++|+|+|+......+....|.. ...   .++|.++++||+|...
T Consensus        97 ~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~-~~~---~~~~~iv~iNK~D~~~  153 (731)
T PRK07560         97 HVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQ-ALR---ERVKPVLFINKVDRLI  153 (731)
T ss_pred             ccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHH-HHH---cCCCeEEEEECchhhc
Confidence            99998888889999999999999987644333333332 222   2468899999999763

>KOG3886|consensus

Probab=99.20  E-value=3.3e-11  Score=93.19  Aligned_cols=146  Identities=17%  Similarity=0.247  Sum_probs=100.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCC--CccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh-----HHHhccc
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFIS--RYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM-----RELSIST  121 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~-----~~~~~~~  121 (253)
                      .-||+++|.+|+|||++-..+..+....  ...+.+.+.....+.+.++  +.+.+||++|++.+...     ....+++
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflGn--l~LnlwDcGgqe~fmen~~~~q~d~iF~n   81 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLGN--LVLNLWDCGGQEEFMENYLSSQEDNIFRN   81 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhhh--heeehhccCCcHHHHHHHHhhcchhhhee
Confidence            4689999999999999988877655422  2233444677777766333  56899999999865433     3347889


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHH--hcCCCCCEEEEEecCCCCCcccc-------HHHHHHHHHhcCCCcEEEec
Q psy549          122 ADAFVLVYAVDDASTWDVVKDLREQIVN--KRGLMVPIVVVGNKCELEFKDVR-------REIAETIALYDWQCGFVECS  192 (253)
Q Consensus       122 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~--~~~~~~piilv~nK~Dl~~~~~~-------~~~~~~~~~~~~~~~~~~~S  192 (253)
                      ++++++|||+...+-..++..+...+..  ...+...+++.++|.|+......       .+....+.. .+.+.++++|
T Consensus        82 V~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s~-~~~~~~f~Ts  160 (295)
T KOG3886|consen   82 VQVLIYVFDVESREMEKDFHYYQKCLEALLQNSPEAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLSR-PLECKCFPTS  160 (295)
T ss_pred             heeeeeeeeccchhhhhhHHHHHHHHHHHHhcCCcceEEEEEeechhcccchHHHHHHHHHHHHHHhcc-cccccccccc
Confidence            9999999999988766666666654333  45577889999999998765222       222233333 4456678887


Q ss_pred             cCCCC
Q psy549          193 AKENY  197 (253)
Q Consensus       193 a~~~~  197 (253)
                      ..+..
T Consensus       161 iwDet  165 (295)
T KOG3886|consen  161 IWDET  165 (295)
T ss_pred             hhhHH
Confidence            76543

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.19  E-value=9.7e-11  Score=109.96  Aligned_cols=117  Identities=15%  Similarity=0.171  Sum_probs=80.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCcccc---------------ceeeeeeeEEc-------------CCCc
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKET---------------VEELHRGEYEL-------------PDGA   96 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t---------------~~~~~~~~~~~-------------~~~~   96 (253)
                      ....+|+|+|+.++|||||+++|+...-  ......+               +.......+.+             .++.
T Consensus        17 ~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (843)
T PLN00116         17 HNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDGN   96 (843)
T ss_pred             cCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccCCC
Confidence            4567999999999999999999985331  1100000               00110111212             0223


Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCC
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE  167 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  167 (253)
                      .+.+.|+||||+.+|.......++.+|++|+|+|+.++........|.. +..   .++|+++++||+|..
T Consensus        97 ~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~-~~~---~~~p~i~~iNK~D~~  163 (843)
T PLN00116         97 EYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQ-ALG---ERIRPVLTVNKMDRC  163 (843)
T ss_pred             ceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHH-HHH---CCCCEEEEEECCccc
Confidence            5678999999999998888888999999999999998765444333333 332   458999999999987

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=99.17  E-value=2e-09  Score=89.67  Aligned_cols=85  Identities=20%  Similarity=0.222  Sum_probs=66.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCC---------------CcEEEEEEEeCCCCCCC-
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPD---------------GAQLTLDILDTSGAYQF-  111 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~---------------~~~~~~~l~D~~g~~~~-  111 (253)
                      .++|+|+|.||||||||.|+++.... ..+|+.+|.+...+.+.+++               -.+..++|+|++|.-.- 
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GA   81 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGA   81 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCc
Confidence            47999999999999999999998775 58999999888888877764               12467899999984432 


Q ss_pred             ---hhh---HHHhcccCCEEEEEEECCC
Q psy549          112 ---PAM---RELSISTADAFVLVYAVDD  133 (253)
Q Consensus       112 ---~~~---~~~~~~~~d~~i~v~d~~~  133 (253)
                         ..+   -..-++.+|+++.|+++.+
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f~  109 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCFG  109 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEecC
Confidence               222   2335788999999999873

>PTZ00416 elongation factor 2; Provisional

Probab=99.16  E-value=1.6e-10  Score=108.29  Aligned_cols=117  Identities=14%  Similarity=0.179  Sum_probs=79.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccc---------------eeeeeeeEEcC-------CCcEEEEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETV---------------EELHRGEYELP-------DGAQLTLDI  102 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~---------------~~~~~~~~~~~-------~~~~~~~~l  102 (253)
                      ....+|+|+|+.++|||||+++|+...  .......++               .......+.+.       ++....+.|
T Consensus        17 ~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~l   96 (836)
T PTZ00416         17 DQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINL   96 (836)
T ss_pred             cCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEEE
Confidence            345699999999999999999999632  111000000               00001112221       123567899


Q ss_pred             EeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCC
Q psy549          103 LDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE  167 (253)
Q Consensus       103 ~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  167 (253)
                      +||||+.+|.......++.+|++|+|+|+.++....... .+..+..   .++|+++++||+|+.
T Consensus        97 iDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~-~~~~~~~---~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         97 IDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTET-VLRQALQ---ERIRPVLFINKVDRA  157 (836)
T ss_pred             EcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHH-HHHHHHH---cCCCEEEEEEChhhh
Confidence            999999999888888999999999999999875544333 3333333   458999999999987

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.16  E-value=2.3e-10  Score=92.81  Aligned_cols=164  Identities=15%  Similarity=0.112  Sum_probs=103.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC---CCC----------Cccccce----eee-----eeeEEcC--C---CcEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR---FIS----------RYKETVE----ELH-----RGEYELP--D---GAQLT   99 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~---~~~----------~~~~t~~----~~~-----~~~~~~~--~---~~~~~   99 (253)
                      +..++|.++|+..-|||||..+|.+--   +..          .|..+..    +.+     ...-..+  +   .-.-.
T Consensus         8 Qp~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~   87 (415)
T COG5257           8 QPEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRR   87 (415)
T ss_pred             CcceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEE
Confidence            578999999999999999999988411   100          0100000    111     0000010  0   11235


Q ss_pred             EEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHH---H
Q psy549          100 LDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREI---A  176 (253)
Q Consensus       100 ~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~---~  176 (253)
                      +.|+|.||++-.......-..-.|++++|..++.+-.-......+..+.-.  .-..+++|-||+|+...+...+-   +
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi--gik~iiIvQNKIDlV~~E~AlE~y~qI  165 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEII--GIKNIIIVQNKIDLVSRERALENYEQI  165 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh--ccceEEEEecccceecHHHHHHHHHHH
Confidence            789999999887766666666689999999998753322222222222221  22578999999999877333333   3


Q ss_pred             HHHHHh--cCCCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          177 ETIALY--DWQCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       177 ~~~~~~--~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      +.|-+-  ..+.|++++||..+.||+-+++.|.+.+..
T Consensus       166 k~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~Ipt  203 (415)
T COG5257         166 KEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPT  203 (415)
T ss_pred             HHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCC
Confidence            333331  235799999999999999999999998843

>smart00275 G_alpha G protein alpha subunit

Probab=99.15  E-value=5.4e-10  Score=94.54  Aligned_cols=116  Identities=16%  Similarity=0.101  Sum_probs=79.3

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCCh----------hhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCC
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDA----------STWDVVKDLREQIVN-KRGLMVPIVVVGNKCEL  166 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl  166 (253)
                      +.+.+||++|+...+..|..++.+++++|+|+|+++-          ..+......+..+.. ..-.++|+++++||.|+
T Consensus       184 ~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~  263 (342)
T smart00275      184 LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDL  263 (342)
T ss_pred             eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHh
Confidence            5678999999999999999999999999999999973          223332333333333 22256899999999996


Q ss_pred             CCcc----------------cc-----HHHHHHHHHhc-----CCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          167 EFKD----------------VR-----REIAETIALYD-----WQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       167 ~~~~----------------~~-----~~~~~~~~~~~-----~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ....                ..     .-+...+....     ..+.++.|+|.+-.++..+|+.+.+.+...
T Consensus       264 ~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~  336 (342)
T smart00275      264 FEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQR  336 (342)
T ss_pred             HHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHH
Confidence            5320                01     11222222211     224456788999999999999988887665

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG1707|consensus

Probab=99.15  E-value=7.5e-10  Score=96.18  Aligned_cols=163  Identities=15%  Similarity=0.192  Sum_probs=110.3

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      ...+.+.|.++|+.++|||.|++.|+++.+...+..++. .+....+.. .++.-.+.+-|.+-. ....+...- ..+|
T Consensus       421 ~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~-~g~~k~LiL~ei~~~-~~~~l~~ke-~~cD  497 (625)
T KOG1707|consen  421 TDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEV-KGQQKYLILREIGED-DQDFLTSKE-AACD  497 (625)
T ss_pred             ccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeee-ccccceEEEeecCcc-ccccccCcc-ceee
Confidence            356788999999999999999999999888665544444 333333344 355555667776543 222222111 6699


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc--ccHHHHHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD--VRREIAETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      ++.++||.+++.+|..+...++.....  ..+|+++|++|+|+....  ...+. ..++....-.+.+.+|.+.... .+
T Consensus       498 v~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqp-de~~~~~~i~~P~~~S~~~~~s-~~  573 (625)
T KOG1707|consen  498 VACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQP-DEFCRQLGLPPPIHISSKTLSS-NE  573 (625)
T ss_pred             eEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCCh-HHHHHhcCCCCCeeeccCCCCC-ch
Confidence            999999999999998877765543332  679999999999998762  22233 5566533334456666664223 89


Q ss_pred             HHHHHHHHHHHhc
Q psy549          202 VFKELLAQAKVQY  214 (253)
Q Consensus       202 l~~~l~~~~~~~~  214 (253)
                      +|..|+..+..-+
T Consensus       574 lf~kL~~~A~~Ph  586 (625)
T KOG1707|consen  574 LFIKLATMAQYPH  586 (625)
T ss_pred             HHHHHHHhhhCCC
Confidence            9999888875443

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=99.15  E-value=1.2e-09  Score=86.66  Aligned_cols=159  Identities=18%  Similarity=0.219  Sum_probs=90.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCC--ccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh----h---HH---
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISR--YKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA----M---RE---  116 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~--~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----~---~~---  116 (253)
                      ++|+++|..|+||||++|.+++... ...  ..+.+.........+ ++  ..+.++||||-.+...    .   ..   
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~-~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l   77 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEV-DG--RQVTVIDTPGLFDSDGSDEEIIREIKRCL   77 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEE-TT--EEEEEEE--SSEETTEEHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeee-cc--eEEEEEeCCCCCCCcccHHHHHHHHHHHH
Confidence            4899999999999999999999774 322  122333444444555 55  4678999999443211    1   11   


Q ss_pred             -HhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCC--CCCEEEEEecCCCCCccccH--------HHHHHHHHhcCC
Q psy549          117 -LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL--MVPIVVVGNKCELEFKDVRR--------EIAETIALYDWQ  185 (253)
Q Consensus       117 -~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~piilv~nK~Dl~~~~~~~--------~~~~~~~~~~~~  185 (253)
                       ....+.+++|+|+.+. +-+-.. ...+..+....++  -..++||.|..|.......+        ...+.+.. .++
T Consensus        78 ~~~~~g~ha~llVi~~~-r~t~~~-~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~-~c~  154 (212)
T PF04548_consen   78 SLCSPGPHAFLLVIPLG-RFTEED-REVLELLQEIFGEEIWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIE-KCG  154 (212)
T ss_dssp             HHTTT-ESEEEEEEETT-B-SHHH-HHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHH-HTT
T ss_pred             HhccCCCeEEEEEEecC-cchHHH-HHHHHHHHHHccHHHHhHhhHHhhhccccccccHHHHHhccCchhHhHHhh-hcC
Confidence             1235689999999988 323222 2222223332222  14678888888865542211        12233333 455


Q ss_pred             CcEEEeccC------CCCCHHHHHHHHHHHHHHhc
Q psy549          186 CGFVECSAK------ENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       186 ~~~~~~Sa~------~~~~i~~l~~~l~~~~~~~~  214 (253)
                      -.+...+.+      ....+.+||+.+-+.+.+..
T Consensus       155 ~R~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~  189 (212)
T PF04548_consen  155 GRYHVFNNKTKDKEKDESQVSELLEKIEEMVQENG  189 (212)
T ss_dssp             TCEEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             CEEEEEeccccchhhhHHHHHHHHHHHHHHHHHcC
Confidence            567776665      33468888888887776653

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 ....

>KOG1144|consensus

Probab=99.14  E-value=5.5e-10  Score=99.21  Aligned_cols=165  Identities=18%  Similarity=0.157  Sum_probs=107.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCC-CCccccce----eeeeee--------EEcCCCc----EEEEEEEeCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVE----ELHRGE--------YELPDGA----QLTLDILDTSGA  108 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~----~~~~~~--------~~~~~~~----~~~~~l~D~~g~  108 (253)
                      .-..+-|+|+|+..+|||-|+..+.+.+.. ..+...+.    .++...        +.- ++.    ---+.++||||+
T Consensus       472 ~lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~-~~K~~~kvPg~lvIdtpgh  550 (1064)
T KOG1144|consen  472 NLRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKK-DAKKRLKVPGLLVIDTPGH  550 (1064)
T ss_pred             hcCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHh-hhhhhcCCCeeEEecCCCc
Confidence            445678999999999999999999875432 22211111    111110        000 110    013678999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc------------------c
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK------------------D  170 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------------~  170 (253)
                      +.|..++......+|++|+|.|+.++---+.    ++.+...+..+.|+|+.+||+|-.-.                  .
T Consensus       551 EsFtnlRsrgsslC~~aIlvvdImhGlepqt----iESi~lLR~rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k~  626 (1064)
T KOG1144|consen  551 ESFTNLRSRGSSLCDLAILVVDIMHGLEPQT----IESINLLRMRKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKKD  626 (1064)
T ss_pred             hhhhhhhhccccccceEEEEeehhccCCcch----hHHHHHHHhcCCCeEEeehhhhhhcccccCCCchHHHHHHHhhHH
Confidence            9999999999999999999999987532222    22233333356899999999994311                  0


Q ss_pred             -------ccHHHHHHHHHhcCC-------------CcEEEeccCCCCCHHHHHHHHHHHHHHhcc
Q psy549          171 -------VRREIAETIALYDWQ-------------CGFVECSAKENYNIVQVFKELLAQAKVQYN  215 (253)
Q Consensus       171 -------~~~~~~~~~~~~~~~-------------~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~  215 (253)
                             ....+...|+..+.+             +.+++|||.+|.||.+|+-+|+......+.
T Consensus       627 v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~  691 (1064)
T KOG1144|consen  627 VQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMV  691 (1064)
T ss_pred             HHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHH
Confidence                   112233334432222             456899999999999999999988766644

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.13  E-value=3.5e-09  Score=92.54  Aligned_cols=162  Identities=18%  Similarity=0.238  Sum_probs=110.0

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCC-CcEEEEEEEeCCCCCCChhhHHHhccc---
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPD-GAQLTLDILDTSGAYQFPAMRELSIST---  121 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~-~~~~~~~l~D~~g~~~~~~~~~~~~~~---  121 (253)
                      ...-.|+|+|..++|||||+.+|.+.+-   +..+.. .+.+..+.-.+ ....++.+|-..|...+..+....+..   
T Consensus        23 ~~~k~vlvlG~~~~GKttli~~L~~~e~---~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l   99 (472)
T PF05783_consen   23 PSEKSVLVLGDKGSGKTTLIARLQGIED---PKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENL   99 (472)
T ss_pred             CCCceEEEEeCCCCchHHHHHHhhccCC---CCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccc
Confidence            3457999999999999999999876442   222222 33333333211 223568999998877777777665543   


Q ss_pred             -CCEEEEEEECCChhhHH-HHHHHHHHHHHh-------------------------------------------------
Q psy549          122 -ADAFVLVYAVDDASTWD-VVKDLREQIVNK-------------------------------------------------  150 (253)
Q Consensus       122 -~d~~i~v~d~~~~~s~~-~~~~~~~~~~~~-------------------------------------------------  150 (253)
                       --++|+|.|.+.|..+- .+..|+..+...                                                 
T Consensus       100 ~~t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~  179 (472)
T PF05783_consen  100 PNTLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDD  179 (472)
T ss_pred             cceEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCccccccccccccc
Confidence             24788899999986644 355554333322                                                 


Q ss_pred             -------------cCCCCCEEEEEecCCCCCc------------cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          151 -------------RGLMVPIVVVGNKCELEFK------------DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       151 -------------~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                                   ...++|++||++|+|....            +...+..+.++. ..+..+|+||++...+++-++.+
T Consensus       180 ~~~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL-~yGAsL~yts~~~~~n~~~L~~y  258 (472)
T PF05783_consen  180 ESVLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCL-KYGASLIYTSVKEEKNLDLLYKY  258 (472)
T ss_pred             ccccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHH-hcCCeEEEeeccccccHHHHHHH
Confidence                         0124799999999996432            233455666776 67888999999999999999999


Q ss_pred             HHHHHHH
Q psy549          206 LLAQAKV  212 (253)
Q Consensus       206 l~~~~~~  212 (253)
                      |...+..
T Consensus       259 i~h~l~~  265 (472)
T PF05783_consen  259 ILHRLYG  265 (472)
T ss_pred             HHHHhcc
Confidence            8887754

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 [].

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.13  E-value=1.8e-10  Score=96.98  Aligned_cols=129  Identities=19%  Similarity=0.256  Sum_probs=89.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh--CCC--------------CCCcccc-----ceeeeeeeEEcCCCcEEEEEEEeC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY--DRF--------------ISRYKET-----VEELHRGEYELPDGAQLTLDILDT  105 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~--~~~--------------~~~~~~t-----~~~~~~~~~~~~~~~~~~~~l~D~  105 (253)
                      ..+-..+||-+|.+|||||.+.|+-  +.+              .......     ........+.+ +...+.+.|.||
T Consensus        10 ~rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF-~Y~~~~iNLLDT   88 (528)
T COG4108          10 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQF-DYADCLVNLLDT   88 (528)
T ss_pred             hhhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEe-ccCCeEEeccCC
Confidence            3456789999999999999999881  111              1110001     12566667777 666788999999


Q ss_pred             CCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc---cccHHHHHHHH
Q psy549          106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK---DVRREIAETIA  180 (253)
Q Consensus       106 ~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~---~~~~~~~~~~~  180 (253)
                      ||++.|..-++..+..+|.+++|.|+..+..-+.+. +.+ +-+.  -++||+-++||.|-...   ++..++.+.+.
T Consensus        89 PGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~K-Lfe-Vcrl--R~iPI~TFiNKlDR~~rdP~ELLdEiE~~L~  162 (528)
T COG4108          89 PGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTLK-LFE-VCRL--RDIPIFTFINKLDREGRDPLELLDEIEEELG  162 (528)
T ss_pred             CCccccchhHHHHHHhhheeeEEEecccCccHHHHH-HHH-HHhh--cCCceEEEeeccccccCChHHHHHHHHHHhC
Confidence            999999999999999999999999998764333222 111 1222  45999999999997664   34444444444

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=99.08  E-value=9.4e-10  Score=83.87  Aligned_cols=63  Identities=21%  Similarity=0.229  Sum_probs=42.8

Q ss_pred             EEEEEeCCCCCC----ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecC
Q psy549           99 TLDILDTSGAYQ----FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC  164 (253)
Q Consensus        99 ~~~l~D~~g~~~----~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~  164 (253)
                      .+.|+|+||...    ....+..++..+|++|+|.+++....-.....+......   ....+++|.||+
T Consensus       102 ~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~---~~~~~i~V~nk~  168 (168)
T PF00350_consen  102 NLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDP---DKSRTIFVLNKA  168 (168)
T ss_dssp             SEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTT---TCSSEEEEEE-G
T ss_pred             ceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcC---CCCeEEEEEcCC
Confidence            367999999543    335666788999999999999986554444444443333   234588888984

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 ....

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.06  E-value=3e-09  Score=89.96  Aligned_cols=154  Identities=17%  Similarity=0.107  Sum_probs=108.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC----CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF----ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~----~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      .|+..|+-.-|||||+..+.+..-    ......++.+........+|+   .+.|+|+||++++-......+...|.++
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d~---~~~fIDvpgh~~~i~~miag~~~~d~al   78 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLEDG---VMGFIDVPGHPDFISNLLAGLGGIDYAL   78 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCCC---ceEEeeCCCcHHHHHHHHhhhcCCceEE
Confidence            578899999999999999997553    223334555665556655443   6889999999998887777788899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCC-CEEEEEecCCCCCccccHHHHHHHHHh--cCCCcEEEeccCCCCCHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMV-PIVVVGNKCELEFKDVRREIAETIALY--DWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl~~~~~~~~~~~~~~~~--~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|++.++.-.-+..+... .+..   .++ ..++|+||+|..+....++..+.+...  ....+++.+|+++|.||+++-
T Consensus        79 LvV~~deGl~~qtgEhL~-iLdl---lgi~~giivltk~D~~d~~r~e~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk  154 (447)
T COG3276          79 LVVAADEGLMAQTGEHLL-ILDL---LGIKNGIIVLTKADRVDEARIEQKIKQILADLSLANAKIFKTSAKTGRGIEELK  154 (447)
T ss_pred             EEEeCccCcchhhHHHHH-HHHh---cCCCceEEEEeccccccHHHHHHHHHHHHhhcccccccccccccccCCCHHHHH
Confidence            999998764433333321 1222   233 459999999988763222222222221  235678999999999999999


Q ss_pred             HHHHHHHH
Q psy549          204 KELLAQAK  211 (253)
Q Consensus       204 ~~l~~~~~  211 (253)
                      +.|.+...
T Consensus       155 ~~l~~L~~  162 (447)
T COG3276         155 NELIDLLE  162 (447)
T ss_pred             HHHHHhhh
Confidence            99999884

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.06  E-value=1.1e-09  Score=89.44  Aligned_cols=55  Identities=15%  Similarity=-0.047  Sum_probs=43.6

Q ss_pred             CCEEEEEecCCCCCc--cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHH
Q psy549          155 VPIVVVGNKCELEFK--DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       155 ~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  209 (253)
                      .+-++|+||+|+...  ...+...+.+.......+++++|+++|.|++++++||..+
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            567999999999753  2234455566665678899999999999999999999774

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.06  E-value=1.3e-09  Score=92.11  Aligned_cols=154  Identities=16%  Similarity=0.096  Sum_probs=76.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC---CCCc---cccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHH----
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF---ISRY---KETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMREL----  117 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~---~~~~---~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~----  117 (253)
                      ..++|+|+|.+|+|||||||+|.+-..   ....   ..|+....  .+..+.-.  .+.+||.||.....-....    
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~--~Y~~p~~p--nv~lWDlPG~gt~~f~~~~Yl~~  109 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPT--PYPHPKFP--NVTLWDLPGIGTPNFPPEEYLKE  109 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-E--EEE-SS-T--TEEEEEE--GGGSS--HHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCe--eCCCCCCC--CCeEEeCCCCCCCCCCHHHHHHH
Confidence            458999999999999999999976221   1111   12222222  22222221  4689999995432222222    


Q ss_pred             -hcccCCEEEEEEECCChhhHHHHHHH-HHHHHHhcCCCCCEEEEEecCCCC--Cc-----------cccHHH----HHH
Q psy549          118 -SISTADAFVLVYAVDDASTWDVVKDL-REQIVNKRGLMVPIVVVGNKCELE--FK-----------DVRREI----AET  178 (253)
Q Consensus       118 -~~~~~d~~i~v~d~~~~~s~~~~~~~-~~~~~~~~~~~~piilv~nK~Dl~--~~-----------~~~~~~----~~~  178 (253)
                       -+..-|.+|++.+-.    |....-+ ...+..   .++|+.+|-+|+|..  +.           +..+++    .+.
T Consensus       110 ~~~~~yD~fiii~s~r----f~~ndv~La~~i~~---~gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~  182 (376)
T PF05049_consen  110 VKFYRYDFFIIISSER----FTENDVQLAKEIQR---MGKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLEN  182 (376)
T ss_dssp             TTGGG-SEEEEEESSS------HHHHHHHHHHHH---TT-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHH
T ss_pred             ccccccCEEEEEeCCC----CchhhHHHHHHHHH---cCCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHH
Confidence             345678888877532    3332333 233333   458999999999951  10           222222    333


Q ss_pred             HHHhcC-CCcEEEeccCCCC--CHHHHHHHHHHHHHH
Q psy549          179 IALYDW-QCGFVECSAKENY--NIVQVFKELLAQAKV  212 (253)
Q Consensus       179 ~~~~~~-~~~~~~~Sa~~~~--~i~~l~~~l~~~~~~  212 (253)
                      +.+.+. ..++|.+|..+-.  +...+.+.|.+.+..
T Consensus       183 L~k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~  219 (376)
T PF05049_consen  183 LQKAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPA  219 (376)
T ss_dssp             HHCTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-G
T ss_pred             HHHcCCCcCceEEEeCCCcccCChHHHHHHHHHHhHH
Confidence            333222 2468889997744  577777777766543

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.

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.01  E-value=4.1e-09  Score=95.95  Aligned_cols=119  Identities=16%  Similarity=0.171  Sum_probs=84.2

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCC--C-c-----cccc------e-eeeeeeEEcCCCc-EEEEEEEeCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FIS--R-Y-----KETV------E-ELHRGEYELPDGA-QLTLDILDTSG  107 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~--~-~-----~~t~------~-~~~~~~~~~~~~~-~~~~~l~D~~g  107 (253)
                      .....+|+|+|+..+|||||..+++-..  +..  . .     ....      . .......+. ... .+.+.|+||||
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~-~~~~~~~iNlIDTPG   85 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTL-FWKGDYRINLIDTPG   85 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEE-EEcCceEEEEeCCCC
Confidence            4466799999999999999999999321  110  0 0     0000      0 222222222 222 47899999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      +-+|.......++-.|++++|+|+......+...-|.... .   .++|.++++||.|....
T Consensus        86 HVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~-~---~~vp~i~fiNKmDR~~a  143 (697)
T COG0480          86 HVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQAD-K---YGVPRILFVNKMDRLGA  143 (697)
T ss_pred             ccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHh-h---cCCCeEEEEECcccccc
Confidence            9999999999999999999999999876655544454433 2   45899999999997665

>KOG0468|consensus

Probab=98.96  E-value=4.3e-09  Score=92.68  Aligned_cols=116  Identities=22%  Similarity=0.287  Sum_probs=84.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCc---------cccce-----------eeeeeeEEcCCCcEEEEEEEeCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRY---------KETVE-----------ELHRGEYELPDGAQLTLDILDTS  106 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~---------~~t~~-----------~~~~~~~~~~~~~~~~~~l~D~~  106 (253)
                      ....+|+++|+-+.|||+|+..|..+..+...         ..+..           ....-.+.-..++.+-+++.|||
T Consensus       126 ~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDTP  205 (971)
T KOG0468|consen  126 ERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDTP  205 (971)
T ss_pred             ceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecCC
Confidence            45678999999999999999999865543221         11110           11111111124667788999999


Q ss_pred             CCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCC
Q psy549          107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL  166 (253)
Q Consensus       107 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  166 (253)
                      |+-.|.......++.+|++++|+|+.++..+.. ++.+.....   .+.|+++|+||.|.
T Consensus       206 GHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlnt-Er~ikhaiq---~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  206 GHVNFSDETTASLRLSDGVVLVVDVAEGVMLNT-ERIIKHAIQ---NRLPIVVVINKVDR  261 (971)
T ss_pred             CcccchHHHHHHhhhcceEEEEEEcccCceeeH-HHHHHHHHh---ccCcEEEEEehhHH
Confidence            999999999999999999999999999887755 444433333   45899999999994

>smart00053 DYNc Dynamin, GTPase

Probab=98.94  E-value=2.5e-08  Score=79.95  Aligned_cols=69  Identities=17%  Similarity=0.075  Sum_probs=43.1

Q ss_pred             EEEEEEeCCCCCCC-------------hhhHHHhcc-cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEec
Q psy549           98 LTLDILDTSGAYQF-------------PAMRELSIS-TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK  163 (253)
Q Consensus        98 ~~~~l~D~~g~~~~-------------~~~~~~~~~-~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK  163 (253)
                      ..|.++|+||....             ..+...+++ ..+++++|.|+.....-.....+...+.   ....|+++|+||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld---~~~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVD---PQGERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHH---HcCCcEEEEEEC
Confidence            46789999997521             123344666 4569999998865332222222222222   256899999999


Q ss_pred             CCCCCc
Q psy549          164 CELEFK  169 (253)
Q Consensus       164 ~Dl~~~  169 (253)
                      +|....
T Consensus       202 ~D~~~~  207 (240)
T smart00053      202 LDLMDE  207 (240)
T ss_pred             CCCCCc
Confidence            998753

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>KOG1487|consensus

Probab=98.93  E-value=4.2e-09  Score=83.14  Aligned_cols=172  Identities=20%  Similarity=0.204  Sum_probs=116.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh-------hhHHHhc
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP-------AMRELSI  119 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-------~~~~~~~  119 (253)
                      ...+|.++|.|.+|||||+..+.+... +..+..|+-....+...+ .+  -++++.|.||.-+-.       .......
T Consensus        58 g~a~vg~vgFPSvGksTl~~~l~g~~s~vasyefttl~~vpG~~~y-~g--aKiqlldlpgiiegakdgkgrg~qviava  134 (358)
T KOG1487|consen   58 GDARVGFVGFPSVGKSTLLSKLTGTFSEVAAYEFTTLTTVPGVIRY-KG--AKIQLLDLPGIIEGAKDGKGRGKQVIAVA  134 (358)
T ss_pred             cceeeeEEecCccchhhhhhhhcCCCCccccccceeEEEecceEec-cc--cceeeecCcchhcccccCCCCccEEEEEe
Confidence            345999999999999999999887553 677778888888888877 54  378999999965532       1122345


Q ss_pred             ccCCEEEEEEECCChhhHHHH-HHHHH-------------------------------------HHHHh-----------
Q psy549          120 STADAFVLVYAVDDASTWDVV-KDLRE-------------------------------------QIVNK-----------  150 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~~-~~~~~-------------------------------------~~~~~-----------  150 (253)
                      +-+..+++|.|+..+-+-..+ +..++                                     .+..+           
T Consensus       135 rtcnli~~vld~~kp~~hk~~ie~eleg~girlnk~pp~i~~kkKdkgGInlt~~~LdlD~~rsil~eyR~hsAdi~Lr~  214 (358)
T KOG1487|consen  135 RTCNLIFIVLDVLKPLSHKKIIEKELEGFGIRLNKQPPNIGTKKKDKGGINLTGTHLDLDLQRSILSEYRIHSADIALRF  214 (358)
T ss_pred             ecccEEEEEeeccCcccHHHHHHHhhhcceeeccCCCCCccccccccCceeeecchhhHHHHHHHHHHhhhcchheeeec
Confidence            678999999998764332211 11000                                     00000           


Q ss_pred             -----------cCC--CCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHHhcccC
Q psy549          151 -----------RGL--MVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLS  217 (253)
Q Consensus       151 -----------~~~--~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~~~  217 (253)
                                 ...  .+|.+.+.||+|..    ..+....+-   .....+++||.++.|++++++.|++.+    ++.
T Consensus       215 DaT~DdLIdvVegnr~yVp~iyvLNkIdsI----SiEELdii~---~iphavpISA~~~wn~d~lL~~mweyL----~Lv  283 (358)
T KOG1487|consen  215 DATADDLIDVVEGNRIYVPCIYVLNKIDSI----SIEELDIIY---TIPHAVPISAHTGWNFDKLLEKMWEYL----KLV  283 (358)
T ss_pred             CcchhhhhhhhccCceeeeeeeeeccccee----eeeccceee---eccceeecccccccchHHHHHHHhhcc----hhe
Confidence                       001  36788888888843    222222222   233468899999999999999999887    445


Q ss_pred             hhhccccccCCCCcCC
Q psy549          218 PAVRRRRQSLPNYIGT  233 (253)
Q Consensus       218 ~~~~~~~~~~~~~~~~  233 (253)
                      ....+++.+.|++...
T Consensus       284 riYtkPKgq~PDy~~p  299 (358)
T KOG1487|consen  284 RIYTKPKGQPPDYTSP  299 (358)
T ss_pred             EEecCCCCCCCCCCCC
Confidence            6778889999988743

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=98.88  E-value=2.2e-08  Score=82.42  Aligned_cols=150  Identities=24%  Similarity=0.193  Sum_probs=92.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCC--------c--cccc-----------------eeee--eeeEEcCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISR--------Y--KETV-----------------EELH--RGEYELPDG   95 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~--------~--~~t~-----------------~~~~--~~~~~~~~~   95 (253)
                      +..++.+.+|...=||||||-||+.+.-  ..+        .  ..+.                 +...  -..+.+...
T Consensus         4 k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT   83 (431)
T COG2895           4 KSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFST   83 (431)
T ss_pred             ccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeeccc
Confidence            4568999999999999999999995431  100        0  0111                 0000  011111123


Q ss_pred             cEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc--ccc
Q psy549           96 AQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK--DVR  172 (253)
Q Consensus        96 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~  172 (253)
                      ..-+|.+-||||++.|-.....-..-||++|+++|+-..-.-+.-. .++..+.    .-..+++.+||+||.+.  +..
T Consensus        84 ~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~I~sLL----GIrhvvvAVNKmDLvdy~e~~F  159 (431)
T COG2895          84 EKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQTRRHSFIASLL----GIRHVVVAVNKMDLVDYSEEVF  159 (431)
T ss_pred             ccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhhHHHhHHHHHHHHHh----CCcEEEEEEeeecccccCHHHH
Confidence            3456789999999999777666667799999999996653322211 1222222    12467888899999876  222


Q ss_pred             HH---HHHHHHHhcC--CCcEEEeccCCCCCHH
Q psy549          173 RE---IAETIALYDW--QCGFVECSAKENYNIV  200 (253)
Q Consensus       173 ~~---~~~~~~~~~~--~~~~~~~Sa~~~~~i~  200 (253)
                      ++   ....|+....  ...++++||..|.|+-
T Consensus       160 ~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         160 EAIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             HHHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            22   2333444221  2468999999999874

>KOG0410|consensus

Probab=98.87  E-value=2.7e-08  Score=81.07  Aligned_cols=158  Identities=16%  Similarity=0.146  Sum_probs=107.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC--ChhhHHH------h
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ--FPAMREL------S  118 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~--~~~~~~~------~  118 (253)
                      ...-|+++|-.|+|||||+++|++... +.+....+-+........+.|..+  .+.||.|.-.  ...+...      -
T Consensus       177 s~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg~~v--lltDTvGFisdLP~~LvaAF~ATLee  254 (410)
T KOG0410|consen  177 SSPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSGNFV--LLTDTVGFISDLPIQLVAAFQATLEE  254 (410)
T ss_pred             CCceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCCcEE--EEeechhhhhhCcHHHHHHHHHHHHH
Confidence            446899999999999999999997554 566666677888888888787654  6779988322  2222222      2


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC----EEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccC
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP----IVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p----iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      +..+|.++.|.|+++|.........+.-+....-+..|    ++=|-||+|.....+..+        ..+  .+.+|++
T Consensus       255 VaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~e~E--------~n~--~v~isal  324 (410)
T KOG0410|consen  255 VAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEVEEE--------KNL--DVGISAL  324 (410)
T ss_pred             HhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccCccc--------cCC--ccccccc
Confidence            45689999999999987644433333333332222222    355668888655433321        111  5789999


Q ss_pred             CCCCHHHHHHHHHHHHHHhcccC
Q psy549          195 ENYNIVQVFKELLAQAKVQYNLS  217 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~~~~~~~~  217 (253)
                      +|.|++++++.+-..+.......
T Consensus       325 tgdgl~el~~a~~~kv~~~t~~~  347 (410)
T KOG0410|consen  325 TGDGLEELLKAEETKVASETTVD  347 (410)
T ss_pred             cCccHHHHHHHHHHHhhhhheee
Confidence            99999999999888877665543

>KOG0458|consensus

Probab=98.87  E-value=1.8e-08  Score=87.75  Aligned_cols=154  Identities=22%  Similarity=0.257  Sum_probs=95.4

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CC----------------------CCccccce------eeeeeeEEcCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FI----------------------SRYKETVE------ELHRGEYELPDG   95 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~----------------------~~~~~t~~------~~~~~~~~~~~~   95 (253)
                      .+..+.++++|+.++|||||+.+++..-  +.                      .-...|.+      .-..+...+ +.
T Consensus       174 ~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~f-es  252 (603)
T KOG0458|consen  174 PKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWF-ES  252 (603)
T ss_pred             CccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEE-ec
Confidence            4578999999999999999999998311  10                      00000100      222223333 45


Q ss_pred             cEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChh---hHHH--HHHHHHHHHHhcCCCCCEEEEEecCCCCCc-
Q psy549           96 AQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAS---TWDV--VKDLREQIVNKRGLMVPIVVVGNKCELEFK-  169 (253)
Q Consensus        96 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~--~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-  169 (253)
                      ....++|.|.||+..|-...-.-...+|++++|.|++-.+   .|+.  ..+.+..+.+.. .-..+++++||.|+.+= 
T Consensus       253 ~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~L-gi~qlivaiNKmD~V~Ws  331 (603)
T KOG0458|consen  253 KSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSL-GISQLIVAINKMDLVSWS  331 (603)
T ss_pred             CceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHc-CcceEEEEeecccccCcc
Confidence            5667899999999888877777778899999999998643   1221  111222222221 13567888999998764 


Q ss_pred             -cccHHHH---HHHH-H----hcCCCcEEEeccCCCCCHHH
Q psy549          170 -DVRREIA---ETIA-L----YDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       170 -~~~~~~~---~~~~-~----~~~~~~~~~~Sa~~~~~i~~  201 (253)
                       +..+++.   ..+. +    ....+.|++||+..|.|+..
T Consensus       332 q~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k  372 (603)
T KOG0458|consen  332 QDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIK  372 (603)
T ss_pred             HHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCcccc
Confidence             1112222   2222 1    11235799999999998754

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=98.86  E-value=1.6e-08  Score=81.29  Aligned_cols=145  Identities=20%  Similarity=0.206  Sum_probs=88.2

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHh---CC-------CC--CCccccc---eeeeeeeEEcCCCcEEEEEEEeCCCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLY---DR-------FI--SRYKETV---EELHRGEYELPDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~---~~-------~~--~~~~~t~---~~~~~~~~~~~~~~~~~~~l~D~~g~~~  110 (253)
                      .++.++|..+|+.+-|||||.-++..   ..       +.  ...+...   .......+.+ +...-.+-.+|+||+.+
T Consensus         9 ~kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahvey-et~~rhyahVDcPGHaD   87 (394)
T COG0050           9 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEY-ETANRHYAHVDCPGHAD   87 (394)
T ss_pred             CCCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEE-ecCCceEEeccCCChHH
Confidence            46789999999999999999988773   11       10  0011000   0222333333 22233567899999998


Q ss_pred             ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCc-----cccHHHHHHHHHhc-
Q psy549          111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFK-----DVRREIAETIALYD-  183 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~-----~~~~~~~~~~~~~~-  183 (253)
                      |-.....-..+.|++|+|++++|..--+..++.+    .-+.-+.| +++++||+|+.++     .+..+..+.+.... 
T Consensus        88 YvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiL----larqvGvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f  163 (394)
T COG0050          88 YVKNMITGAAQMDGAILVVAATDGPMPQTREHIL----LARQVGVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGF  163 (394)
T ss_pred             HHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhh----hhhhcCCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCC
Confidence            8766666667889999999999865433333322    11113454 4666799999875     23333444444422 


Q ss_pred             --CCCcEEEeccCC
Q psy549          184 --WQCGFVECSAKE  195 (253)
Q Consensus       184 --~~~~~~~~Sa~~  195 (253)
                        ...|++.-|+..
T Consensus       164 ~gd~~Pii~gSal~  177 (394)
T COG0050         164 PGDDTPIIRGSALK  177 (394)
T ss_pred             CCCCcceeechhhh
Confidence              245777777754

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=98.86  E-value=2.7e-08  Score=81.95  Aligned_cols=115  Identities=20%  Similarity=0.218  Sum_probs=65.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCc----------cccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhh---
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRY----------KETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAM---  114 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~----------~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~---  114 (253)
                      .++|+++|.+|+|||||||.|++.......          ..+.. ......+.- ++..+.++++||||-......   
T Consensus         4 ~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e-~~~~l~LtiiDTpGfGd~i~n~~~   82 (281)
T PF00735_consen    4 NFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEE-NGVKLNLTIIDTPGFGDNIDNSDC   82 (281)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEE-TCEEEEEEEEEEC-CSSSSTHCHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEecc-CCcceEEEEEeCCCccccccchhh
Confidence            589999999999999999999986642221          01111 222223333 677889999999994331100   


Q ss_pred             H-----------HHh-------------cccCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          115 R-----------ELS-------------ISTADAFVLVYAVDDAS-TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       115 ~-----------~~~-------------~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      +           ..+             -..+|++||+.+++... .-.++. .+..+    ...+++|-|+.|+|....
T Consensus        83 ~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di~-~mk~L----s~~vNvIPvIaKaD~lt~  157 (281)
T PF00735_consen   83 WEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDIE-FMKRL----SKRVNVIPVIAKADTLTP  157 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHHH-HHHHH----TTTSEEEEEESTGGGS-H
T ss_pred             hHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHHH-HHHHh----cccccEEeEEecccccCH
Confidence            0           000             01368999999876421 112222 12222    245789999999997765

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.

>cd01855 YqeH YqeH

Probab=98.84  E-value=2.5e-08  Score=77.66  Aligned_cols=95  Identities=19%  Similarity=0.119  Sum_probs=65.8

Q ss_pred             ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHH----HhcCC-
Q psy549          111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA----LYDWQ-  185 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~----~~~~~-  185 (253)
                      +...+..+++.+|++++|+|+.+....     |...+... ..++|+++|+||+|+............+.    ..... 
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~~-----~~~~l~~~-~~~~~~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   97 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPGS-----LIPRLRLF-GGNNPVILVGNKIDLLPKDKNLVRIKNWLRAKAAAGLGL   97 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCCc-----cchhHHHh-cCCCcEEEEEEchhcCCCCCCHHHHHHHHHHHHHhhcCC
Confidence            567778889999999999999875421     22222221 24589999999999875543333333332    11122 


Q ss_pred             --CcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          186 --CGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       186 --~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                        .+++++||+++.|++++++.|.+.+.
T Consensus        98 ~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          98 KPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             CcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence              36899999999999999999998764

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.

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=98.83  E-value=9.2e-08  Score=85.52  Aligned_cols=119  Identities=18%  Similarity=0.189  Sum_probs=72.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC-CC-CCc-cccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh-------hh-
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR-FI-SRY-KETVEELHRGEYELPDGAQLTLDILDTSGAYQFP-------AM-  114 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~-~~-~~~-~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-------~~-  114 (253)
                      ....++|+++|.+|+||||++|.|++.. +. ... ..|+. ........ ++  ..+.++||||.....       .. 
T Consensus       115 LdfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr-~~ei~~~i-dG--~~L~VIDTPGL~dt~~dq~~neeIL  190 (763)
T TIGR00993       115 LDFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTS-VQEIEGLV-QG--VKIRVIDTPGLKSSASDQSKNEKIL  190 (763)
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceE-EEEEEEEE-CC--ceEEEEECCCCCccccchHHHHHHH
Confidence            4456899999999999999999999976 32 222 33333 22222333 44  467899999977532       11 


Q ss_pred             --HHHhcc--cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCC--CCEEEEEecCCCCC
Q psy549          115 --RELSIS--TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVVVGNKCELEF  168 (253)
Q Consensus       115 --~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~  168 (253)
                        ...++.  ..|++|+|..++.......-..++..+.......  .-+|||.|+.|...
T Consensus       191 k~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       191 SSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             HHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence              111223  4799999988764322111123444444433322  46788899998764

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.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.81  E-value=2.6e-08  Score=84.40  Aligned_cols=93  Identities=14%  Similarity=0.208  Sum_probs=67.6

Q ss_pred             hhHHHhcccCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEe
Q psy549          113 AMRELSISTADAFVLVYAVDDAS-TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVEC  191 (253)
Q Consensus       113 ~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  191 (253)
                      .+....+.++|.+++|+|+.++. .+..+..|+.....   .++|+++|+||+|+..........+.+.  .++.+++.+
T Consensus        81 ~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv~~~~~~~~~~~~~--~~g~~v~~i  155 (352)
T PRK12289         81 ELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLVSPTEQQQWQDRLQ--QWGYQPLFI  155 (352)
T ss_pred             ceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcCChHHHHHHHHHHH--hcCCeEEEE
Confidence            33344688999999999998775 44456777765533   5689999999999865422222333332  466789999


Q ss_pred             ccCCCCCHHHHHHHHHHHH
Q psy549          192 SAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       192 Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ||+++.|++++++.+...+
T Consensus       156 SA~tg~GI~eL~~~L~~ki  174 (352)
T PRK12289        156 SVETGIGLEALLEQLRNKI  174 (352)
T ss_pred             EcCCCCCHHHHhhhhccce
Confidence            9999999999999987643

>cd01859 MJ1464 MJ1464

Probab=98.77  E-value=5.1e-08  Score=73.46  Aligned_cols=95  Identities=21%  Similarity=0.176  Sum_probs=64.5

Q ss_pred             hhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEe
Q psy549          112 PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVEC  191 (253)
Q Consensus       112 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  191 (253)
                      +.+....++++|++++|+|+.++..... ..+...+.   ..++|+++|+||+|+........ ...+.. ..+.+++.+
T Consensus         3 ~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~---~~~~p~iiv~NK~Dl~~~~~~~~-~~~~~~-~~~~~~~~i   76 (156)
T cd01859           3 KRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVL---ELGKKLLIVLNKADLVPKEVLEK-WKSIKE-SEGIPVVYV   76 (156)
T ss_pred             HHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHH---hCCCcEEEEEEhHHhCCHHHHHH-HHHHHH-hCCCcEEEE
Confidence            4556677888999999999987643222 12222221   23589999999999864321111 112333 345689999


Q ss_pred             ccCCCCCHHHHHHHHHHHHHH
Q psy549          192 SAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       192 Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      |++++.|++++++.+.+.+..
T Consensus        77 Sa~~~~gi~~L~~~l~~~~~~   97 (156)
T cd01859          77 SAKERLGTKILRRTIKELAKI   97 (156)
T ss_pred             EccccccHHHHHHHHHHHHhh
Confidence            999999999999999887754

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=98.76  E-value=5.9e-08  Score=80.42  Aligned_cols=87  Identities=16%  Similarity=0.130  Sum_probs=66.6

Q ss_pred             HhcccCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          117 LSISTADAFVLVYAVDDAS-TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       117 ~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      ..+.++|.+++|+|+.++. ++..+..|+..+..   .++|+++|+||+|+.+.. .......... ..+.+++.+|+++
T Consensus        74 ~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~~~~-~~~~~~~~~~-~~g~~v~~vSA~~  148 (287)
T cd01854          74 VIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLLDDE-EEELELVEAL-ALGYPVLAVSAKT  148 (287)
T ss_pred             eEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCCChH-HHHHHHHHHH-hCCCeEEEEECCC
Confidence            3588999999999999987 77788888876654   458999999999997542 1111222222 4678999999999


Q ss_pred             CCCHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLA  208 (253)
Q Consensus       196 ~~~i~~l~~~l~~  208 (253)
                      +.|+++++..+..
T Consensus       149 g~gi~~L~~~L~~  161 (287)
T cd01854         149 GEGLDELREYLKG  161 (287)
T ss_pred             CccHHHHHhhhcc
Confidence            9999999988764

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.

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.75  E-value=1.3e-07  Score=78.80  Aligned_cols=158  Identities=20%  Similarity=0.168  Sum_probs=100.3

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCcccc---------------ceeeeeeeEEcCCCcEE------------
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKET---------------VEELHRGEYELPDGAQL------------   98 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t---------------~~~~~~~~~~~~~~~~~------------   98 (253)
                      ....+.|+..|+-+.|||||+-.|..+........+               +.+.....+-+.|++.+            
T Consensus       114 ~~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~~  193 (527)
T COG5258         114 APEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEKA  193 (527)
T ss_pred             CCceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHHh
Confidence            457899999999999999999998866543221111               11333334444333322            


Q ss_pred             --------EEEEEeCCCCCCChhhHHH--hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549           99 --------TLDILDTSGAYQFPAMREL--SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus        99 --------~~~l~D~~g~~~~~~~~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                              -+.|+|+.|++.|-..+..  +-+..|..+++..+++..+--. ...+-.+..   ..+|+++|+||+|+..
T Consensus       194 ~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~t-kEHLgi~~a---~~lPviVvvTK~D~~~  269 (527)
T COG5258         194 AVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMT-KEHLGIALA---MELPVIVVVTKIDMVP  269 (527)
T ss_pred             HhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhh-hHhhhhhhh---hcCCEEEEEEecccCc
Confidence                    2479999999998654433  4567899999999999765332 222222222   4589999999999977


Q ss_pred             cccc----HHH-----------------------HHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          169 KDVR----REI-----------------------AETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       169 ~~~~----~~~-----------------------~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ++..    +++                       +........-+|+|.+|+.+|.|++-+.+.+.
T Consensus       270 ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~f~  335 (527)
T COG5258         270 DDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEFFL  335 (527)
T ss_pred             HHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHHHH
Confidence            6211    111                       11111112246899999999999875554443

>KOG0082|consensus

Probab=98.74  E-value=9.7e-08  Score=79.80  Aligned_cols=116  Identities=15%  Similarity=0.095  Sum_probs=76.8

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhh-------HHHHHH---HHHHHHHh-cCCCCCEEEEEecCCC
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAST-------WDVVKD---LREQIVNK-RGLMVPIVVVGNKCEL  166 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s-------~~~~~~---~~~~~~~~-~~~~~piilv~nK~Dl  166 (253)
                      ..+.++|++||..-+..|...+.+++++|+|.++++-.-       -..+..   +.+.+... .=.+.++++++||.|+
T Consensus       195 ~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DL  274 (354)
T KOG0082|consen  195 LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKDL  274 (354)
T ss_pred             CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHHH
Confidence            578899999999999999999999999999999986321       111111   22222221 1145899999999997


Q ss_pred             CCc----------------c-ccHHH----HHHHHHh---c-CCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          167 EFK----------------D-VRREI----AETIALY---D-WQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       167 ~~~----------------~-~~~~~----~~~~~~~---~-~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ...                . -.++.    ...+...   . ..+-+..++|.+-.+|..+|+.+.+.+...
T Consensus       275 FeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~~  346 (354)
T KOG0082|consen  275 FEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQN  346 (354)
T ss_pred             HHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHHH
Confidence            543                0 11111    1122211   1 234456789999999999999999888655

>PRK00098 GTPase RsgA; Reviewed

Probab=98.71  E-value=6.8e-08  Score=80.48  Aligned_cols=86  Identities=20%  Similarity=0.122  Sum_probs=62.6

Q ss_pred             hcccCCEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          118 SISTADAFVLVYAVDDASTWDV-VKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      ...++|.+++|+|+.++.++.. +..|+..+..   .++|+++|+||+|+.+. .........+ . ..+.+++++||++
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~~~~~~~~~~~~~-~-~~g~~v~~vSA~~  151 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLDDLEEARELLALY-R-AIGYDVLELSAKE  151 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCCCHHHHHHHHHHH-H-HCCCeEEEEeCCC
Confidence            4689999999999988765444 4667665543   56899999999999633 2112222222 2 3567899999999


Q ss_pred             CCCHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLA  208 (253)
Q Consensus       196 ~~~i~~l~~~l~~  208 (253)
                      +.|++++++.+..
T Consensus       152 g~gi~~L~~~l~g  164 (298)
T PRK00098        152 GEGLDELKPLLAG  164 (298)
T ss_pred             CccHHHHHhhccC
Confidence            9999999988754

>KOG1491|consensus

Probab=98.70  E-value=8.8e-08  Score=78.57  Aligned_cols=88  Identities=17%  Similarity=0.260  Sum_probs=68.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCC--------------cEEEEEEEeCCCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDG--------------AQLTLDILDTSGAYQ  110 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~--------------~~~~~~l~D~~g~~~  110 (253)
                      ..+.++|+|||.|+||||||+|.|++... +.+++.+|.+.....+.+++.              .+..++++|++|.-.
T Consensus        17 ~~~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvk   96 (391)
T KOG1491|consen   17 DGNNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVK   96 (391)
T ss_pred             CCCcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeeccccc
Confidence            44678999999999999999999998765 788999998888888887652              257789999998544


Q ss_pred             Ch----hhHHH---hcccCCEEEEEEECCC
Q psy549          111 FP----AMREL---SISTADAFVLVYAVDD  133 (253)
Q Consensus       111 ~~----~~~~~---~~~~~d~~i~v~d~~~  133 (253)
                      -.    .+.+.   -++.+|+++-|+++.+
T Consensus        97 GAs~G~GLGN~FLs~iR~vDaifhVVr~f~  126 (391)
T KOG1491|consen   97 GASAGEGLGNKFLSHIRHVDAIFHVVRAFE  126 (391)
T ss_pred             CcccCcCchHHHHHhhhhccceeEEEEecC
Confidence            22    22222   4678999999988754

>PRK12288 GTPase RsgA; Reviewed

Probab=98.68  E-value=1.9e-07  Score=79.14  Aligned_cols=87  Identities=15%  Similarity=0.105  Sum_probs=66.8

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc---cHHHHHHHHHhcCCCcEEEeccC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV---RREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~---~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      ...++|.+++|+++....++..+..|+.....   .++|+++|+||+|+.....   .......+.  ..+.+++++||+
T Consensus       117 iaANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~--~~g~~v~~vSA~  191 (347)
T PRK12288        117 IAANIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLDDEGRAFVNEQLDIYR--NIGYRVLMVSSH  191 (347)
T ss_pred             EEEEccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCcHHHHHHHHHHHHHH--hCCCeEEEEeCC
Confidence            35779999999999988889889999875543   5689999999999975421   122222222  356789999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy549          195 ENYNIVQVFKELLAQ  209 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~  209 (253)
                      ++.|++++++.+...
T Consensus       192 tg~GideL~~~L~~k  206 (347)
T PRK12288        192 TGEGLEELEAALTGR  206 (347)
T ss_pred             CCcCHHHHHHHHhhC
Confidence            999999999998764

>TIGR00092 GTP-binding protein YchF

Probab=98.64  E-value=1.7e-07  Score=79.27  Aligned_cols=83  Identities=18%  Similarity=0.032  Sum_probs=65.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCc--------------EEEEEEEeCCCCCCCh-
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGA--------------QLTLDILDTSGAYQFP-  112 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~--------------~~~~~l~D~~g~~~~~-  112 (253)
                      ++++|+|.|++|||||++.+++...  ..+|+.+|.....+.+.++|..              +..+.+.|.||...-. 
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs   82 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGAS   82 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchh
Confidence            7999999999999999999998765  4678888888888888886632              2457899999965422 


Q ss_pred             ------hhHHHhcccCCEEEEEEECC
Q psy549          113 ------AMRELSISTADAFVLVYAVD  132 (253)
Q Consensus       113 ------~~~~~~~~~~d~~i~v~d~~  132 (253)
                            ......++.+|++++|.+..
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCC
Confidence                  23334678899999999985

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>KOG3887|consensus

Probab=98.63  E-value=2.7e-07  Score=72.33  Aligned_cols=159  Identities=19%  Similarity=0.240  Sum_probs=96.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCcc--ccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh---HHHhcccCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYK--ETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM---RELSISTAD  123 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~---~~~~~~~~d  123 (253)
                      ..+|+++|...+||||+-....+...+.+..  ..+......  .+ .+..+.+++||.||+-.+-.-   ....++++.
T Consensus        27 kp~ilLMG~rRsGKsSI~KVVFhkMsPneTlflESTski~~d--~i-s~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~g  103 (347)
T KOG3887|consen   27 KPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTSKITRD--HI-SNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVG  103 (347)
T ss_pred             CceEEEEeecccCcchhhheeeeccCCCceeEeeccCcccHh--hh-hhhhcceEEeecCCccccCCCccCHHHHHhccC
Confidence            3569999999999999887766654432211  011111111  11 123578999999998765322   245788999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHH--hcCCCCCEEEEEecCCCCCcc--------ccHHHHHHHHHh---cCCCcEEE
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVN--KRGLMVPIVVVGNKCELEFKD--------VRREIAETIALY---DWQCGFVE  190 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~--~~~~~~piilv~nK~Dl~~~~--------~~~~~~~~~~~~---~~~~~~~~  190 (253)
                      +.++|.|+-+.- .+.+..+...+.+  +..+++.+=+++.|.|...++        +.+...+.++..   ...+.++.
T Consensus       104 ALifvIDaQddy-~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~L  182 (347)
T KOG3887|consen  104 ALIFVIDAQDDY-MEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQRTNDELADAGLEKVQVSFYL  182 (347)
T ss_pred             eEEEEEechHHH-HHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHHHhhHHHHhhhhccceEEEEE
Confidence            999999987642 2333433333333  345788999999999976652        112222333332   23345666


Q ss_pred             eccCCCCCHHHHHHHHHHHHHH
Q psy549          191 CSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      ||..+ ..|.|.|..+.+.+--
T Consensus       183 TSIyD-HSIfEAFSkvVQkLip  203 (347)
T KOG3887|consen  183 TSIYD-HSIFEAFSKVVQKLIP  203 (347)
T ss_pred             eeecc-hHHHHHHHHHHHHHhh
Confidence            66654 4688888887776543

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.62  E-value=9e-08  Score=70.88  Aligned_cols=52  Identities=23%  Similarity=0.285  Sum_probs=37.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCC--CCccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFI--SRYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      +++|+|.+|+|||||+|++.+....  .....++..  ...+.+ ++   .+.+|||||.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~~~~--~~~~~~-~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSVSATPGKTKH--FQTIFL-TP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCCcccc--eEEEEe-CC---CEEEEECCCc
Confidence            8999999999999999999987753  222333332  333444 33   4689999995

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.61  E-value=9.6e-08  Score=73.02  Aligned_cols=56  Identities=29%  Similarity=0.394  Sum_probs=40.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      ...++|+++|.||+|||||+|++.+...  ....+++|......  .+ +.   .+.++||||.
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~pg~T~~~~~~--~~-~~---~~~l~DtPGi  172 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRACNVGATPGVTKSMQEV--HL-DK---KVKLLDSPGI  172 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCcccceecCCCCeEcceEEE--Ee-CC---CEEEEECcCC
Confidence            4458999999999999999999998664  44555555543332  23 22   4789999983

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

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.58  E-value=5.6e-07  Score=74.86  Aligned_cols=117  Identities=16%  Similarity=0.176  Sum_probs=68.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCc----------cccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh-----
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRY----------KETVEELHRGEYELPDGAQLTLDILDTSGAYQFP-----  112 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~----------~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-----  112 (253)
                      -.++|+++|++|.|||||+|.|++.....+.          .++..-.........++..+.+++.||||-.++-     
T Consensus        22 i~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~  101 (373)
T COG5019          22 IDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKC  101 (373)
T ss_pred             CceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCcccccccccc
Confidence            4689999999999999999999987543221          1122222222222336778899999999943321     


Q ss_pred             ---------hhHHHhc-------c-------cCCEEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549          113 ---------AMRELSI-------S-------TADAFVLVYAVDDA-STWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus       113 ---------~~~~~~~-------~-------~~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                               .....++       +       .+++++|...++.- -+-.++..+. .+    ...+-+|=|+.|+|...
T Consensus       102 we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~l~~~DIe~Mk-~l----s~~vNlIPVI~KaD~lT  176 (373)
T COG5019         102 WEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHGLKPLDIEAMK-RL----SKRVNLIPVIAKADTLT  176 (373)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCCCCHHHHHHHH-HH----hcccCeeeeeeccccCC
Confidence                     1111111       1       25788887765432 1112222221 11    23467777888999876


Q ss_pred             c
Q psy549          169 K  169 (253)
Q Consensus       169 ~  169 (253)
                      .
T Consensus       177 ~  177 (373)
T COG5019         177 D  177 (373)
T ss_pred             H
Confidence            5

>cd01858 NGP_1 NGP-1

Probab=98.57  E-value=1.3e-07  Score=71.38  Aligned_cols=55  Identities=22%  Similarity=0.286  Sum_probs=38.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      ..++|+|+|.||+|||||+|++.+...  ....+.++....  .+.. +.   .+.++||||.
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~~~~~~g~T~~~~--~~~~-~~---~~~liDtPGi  157 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCKVAPIPGETKVWQ--YITL-MK---RIYLIDCPGV  157 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCceeeCCCCCeeEeEE--EEEc-CC---CEEEEECcCC
Confidence            457899999999999999999998664  344455554332  2233 22   2569999983

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.

>cd01858 NGP_1 NGP-1

Probab=98.57  E-value=4.3e-07  Score=68.47  Aligned_cols=91  Identities=16%  Similarity=0.174  Sum_probs=59.7

Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          117 LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       117 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      ..+.++|.+++|.|+.++..... ..+...+ .....++|+++|+||+|+............+.+ .....++.+||+.+
T Consensus         4 ~~l~~aD~il~VvD~~~p~~~~~-~~i~~~l-~~~~~~~p~ilVlNKiDl~~~~~~~~~~~~~~~-~~~~~~~~iSa~~~   80 (157)
T cd01858           4 KVIDSSDVVIQVLDARDPMGTRC-KHVEEYL-KKEKPHKHLIFVLNKCDLVPTWVTARWVKILSK-EYPTIAFHASINNP   80 (157)
T ss_pred             HhhhhCCEEEEEEECCCCccccC-HHHHHHH-HhccCCCCEEEEEEchhcCCHHHHHHHHHHHhc-CCcEEEEEeecccc
Confidence            45678999999999988643111 1222222 222345899999999998654322333444443 23233578999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy549          197 YNIVQVFKELLAQA  210 (253)
Q Consensus       197 ~~i~~l~~~l~~~~  210 (253)
                      .|++++++.+.+.+
T Consensus        81 ~~~~~L~~~l~~~~   94 (157)
T cd01858          81 FGKGSLIQLLRQFS   94 (157)
T ss_pred             ccHHHHHHHHHHHH
Confidence            99999999987765

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.

>KOG2486|consensus

Probab=98.56  E-value=1.1e-07  Score=76.02  Aligned_cols=157  Identities=12%  Similarity=0.100  Sum_probs=91.6

Q ss_pred             CCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccc-cceeeeeee-EEcCCCcEEEEEEEeCCC----------CCC
Q psy549           43 VGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKE-TVEELHRGE-YELPDGAQLTLDILDTSG----------AYQ  110 (253)
Q Consensus        43 ~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~-t~~~~~~~~-~~~~~~~~~~~~l~D~~g----------~~~  110 (253)
                      ..+....++++++|.+|+|||+|+|-++.......... ..+...... +.+ +   -.+.++|.||          ..+
T Consensus       130 D~Pk~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v-~---~~~~~vDlPG~~~a~y~~~~~~d  205 (320)
T KOG2486|consen  130 DCPKDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHV-G---KSWYEVDLPGYGRAGYGFELPAD  205 (320)
T ss_pred             cCCCCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeec-c---ceEEEEecCCcccccCCccCcch
Confidence            44556789999999999999999999998665332222 223233322 233 2   2567999999          222


Q ss_pred             ChhhHHHhcccCC---EEEEEEECCChh-hHHH-HHHHHHHHHHhcCCCCCEEEEEecCCCCCc------cccHHHHHHH
Q psy549          111 FPAMRELSISTAD---AFVLVYAVDDAS-TWDV-VKDLREQIVNKRGLMVPIVVVGNKCELEFK------DVRREIAETI  179 (253)
Q Consensus       111 ~~~~~~~~~~~~d---~~i~v~d~~~~~-s~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------~~~~~~~~~~  179 (253)
                      +..+...++.+.+   -++++.|++-+. ..+. ...|+.   +   .++|+.+|.||+|....      .....+...+
T Consensus       206 ~~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~g---e---~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f  279 (320)
T KOG2486|consen  206 WDKFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLG---E---NNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINF  279 (320)
T ss_pred             HhHhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHh---h---cCCCeEEeeehhhhhhhccccccCccccceeeh
Confidence            3444444544333   333444544332 1111 122322   2   56999999999996533      1111121212


Q ss_pred             HHh-----cCCCcEEEeccCCCCCHHHHHHHHHHH
Q psy549          180 ALY-----DWQCGFVECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       180 ~~~-----~~~~~~~~~Sa~~~~~i~~l~~~l~~~  209 (253)
                      ...     ....|++.+|+.++.|+++++-.|...
T Consensus       280 ~~l~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q~  314 (320)
T KOG2486|consen  280 QGLIRGVFLVDLPWIYVSSVTSLGRDLLLLHIAQL  314 (320)
T ss_pred             hhccccceeccCCceeeecccccCceeeeeehhhh
Confidence            111     224577889999999999988666554

>KOG1954|consensus

Probab=98.56  E-value=1e-06  Score=73.20  Aligned_cols=122  Identities=19%  Similarity=0.203  Sum_probs=74.8

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce--eeeeeeEEcC------------C----------------
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE--ELHRGEYELP------------D----------------   94 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~--~~~~~~~~~~------------~----------------   94 (253)
                      ......-|+++|+-..||||||++|+.+.++..-+....  +.+...+.=+            |                
T Consensus        54 dfd~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~afl  133 (532)
T KOG1954|consen   54 DFDAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFL  133 (532)
T ss_pred             ccccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHH
Confidence            345667899999999999999999999888643222211  2222222110            1                


Q ss_pred             ----------CcEEEEEEEeCCCCCC-----------ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCC
Q psy549           95 ----------GAQLTLDILDTSGAYQ-----------FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL  153 (253)
Q Consensus        95 ----------~~~~~~~l~D~~g~~~-----------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~  153 (253)
                                ..--.++++||||.-.           |.....-+...+|.++++||+..-+--+.....+..+   ...
T Consensus       134 nRf~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aL---kG~  210 (532)
T KOG1954|consen  134 NRFMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDAL---KGH  210 (532)
T ss_pred             HHHHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHh---hCC
Confidence                      0012468999999432           2333334778899999999987543222333333333   333


Q ss_pred             CCCEEEEEecCCCCCc
Q psy549          154 MVPIVVVGNKCELEFK  169 (253)
Q Consensus       154 ~~piilv~nK~Dl~~~  169 (253)
                      .--+-+|+||+|..+.
T Consensus       211 EdkiRVVLNKADqVdt  226 (532)
T KOG1954|consen  211 EDKIRVVLNKADQVDT  226 (532)
T ss_pred             cceeEEEeccccccCH
Confidence            3466788999997654

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.55  E-value=1.6e-06  Score=75.72  Aligned_cols=139  Identities=15%  Similarity=0.112  Sum_probs=90.2

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ..+.+-++++|+||+||||||+.+.....     ..+.+...+.+++..|..-+++|.++|.  ....+ .....-+|.+
T Consensus        66 ~PPPfIvavvGPpGtGKsTLirSlVrr~t-----k~ti~~i~GPiTvvsgK~RRiTflEcp~--Dl~~m-iDvaKIaDLV  137 (1077)
T COG5192          66 LPPPFIVAVVGPPGTGKSTLIRSLVRRFT-----KQTIDEIRGPITVVSGKTRRITFLECPS--DLHQM-IDVAKIADLV  137 (1077)
T ss_pred             CCCCeEEEeecCCCCChhHHHHHHHHHHH-----HhhhhccCCceEEeecceeEEEEEeChH--HHHHH-HhHHHhhhee
Confidence            45678899999999999999999886432     1222344455555578888999999983  22222 2345669999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccH-HHHHH-----HHHhcCCCcEEEeccCC
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRR-EIAET-----IALYDWQCGFVECSAKE  195 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~-~~~~~-----~~~~~~~~~~~~~Sa~~  195 (253)
                      ++++|.+-+-..+. ..+++.+..+.  -..++.|++..|+....... ...+.     +.....+..+|.+|...
T Consensus       138 lLlIdgnfGfEMET-mEFLnil~~HG--mPrvlgV~ThlDlfk~~stLr~~KKrlkhRfWtEiyqGaKlFylsgV~  210 (1077)
T COG5192         138 LLLIDGNFGFEMET-MEFLNILISHG--MPRVLGVVTHLDLFKNPSTLRSIKKRLKHRFWTEIYQGAKLFYLSGVE  210 (1077)
T ss_pred             EEEeccccCceehH-HHHHHHHhhcC--CCceEEEEeecccccChHHHHHHHHHHhhhHHHHHcCCceEEEecccc
Confidence            99999987644333 44555544432  24567888999997763222 22222     33334567788887743

>KOG2655|consensus

Probab=98.52  E-value=2e-06  Score=72.15  Aligned_cols=141  Identities=16%  Similarity=0.205  Sum_probs=78.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCC--------ccccceeeeee-eEEcCCCcEEEEEEEeCCCCCCC-------
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISR--------YKETVEELHRG-EYELPDGAQLTLDILDTSGAYQF-------  111 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~--------~~~t~~~~~~~-~~~~~~~~~~~~~l~D~~g~~~~-------  111 (253)
                      -.+.++++|++|.|||||+|.|+...+..+        .+..+...... ....++|..+.++++||||-.+.       
T Consensus        20 ~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w   99 (366)
T KOG2655|consen   20 FDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCW   99 (366)
T ss_pred             CceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccc
Confidence            358999999999999999999997654322        11111222222 22333678899999999993321       


Q ss_pred             h-------hhHHH-----------hcc--cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc-
Q psy549          112 P-------AMREL-----------SIS--TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-  170 (253)
Q Consensus       112 ~-------~~~~~-----------~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-  170 (253)
                      .       +....           .+.  .+++++|...++.- .+..+.-   .+.......+.+|-|+.|+|....+ 
T Consensus       100 ~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~gh-gL~p~Di---~~Mk~l~~~vNiIPVI~KaD~lT~~E  175 (366)
T KOG2655|consen  100 RPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGH-GLKPLDI---EFMKKLSKKVNLIPVIAKADTLTKDE  175 (366)
T ss_pred             hhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCC-CCcHhhH---HHHHHHhccccccceeeccccCCHHH
Confidence            1       11111           112  36788887776532 1111111   1111122446778888999987762 


Q ss_pred             ---ccHHHHHHHHHhcCCCcEEEeccC
Q psy549          171 ---VRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       171 ---~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                         ....+.+.+.  ...++++.....
T Consensus       176 l~~~K~~I~~~i~--~~nI~vf~fp~~  200 (366)
T KOG2655|consen  176 LNQFKKRIRQDIE--EHNIKVFDFPTD  200 (366)
T ss_pred             HHHHHHHHHHHHH--HcCcceecCCCC
Confidence               2233333333  355665555443

>KOG1143|consensus

Probab=98.50  E-value=4e-07  Score=75.67  Aligned_cols=152  Identities=16%  Similarity=0.218  Sum_probs=93.9

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCcccc-----------------------ce-eeeeeeEEcC---------
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKET-----------------------VE-ELHRGEYELP---------   93 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t-----------------------~~-~~~~~~~~~~---------   93 (253)
                      --+++++++|...+|||||+-.|..+.........                       .. +...+.+.+.         
T Consensus       165 fievRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~  244 (591)
T KOG1143|consen  165 FIEVRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIV  244 (591)
T ss_pred             ceEEEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHH
Confidence            34789999999999999999888754442111000                       00 1111111111         


Q ss_pred             CCcEEEEEEEeCCCCCCChhhHHHhcc--cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc
Q psy549           94 DGAQLTLDILDTSGAYQFPAMRELSIS--TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV  171 (253)
Q Consensus        94 ~~~~~~~~l~D~~g~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  171 (253)
                      +...--++|+|.+|+.+|...+-..+.  -.|.+.+|.+++..-.... ...+-.+..   .++|++++++|+|+...+-
T Consensus       245 e~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tT-rEHLgl~~A---L~iPfFvlvtK~Dl~~~~~  320 (591)
T KOG1143|consen  245 EKSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTT-REHLGLIAA---LNIPFFVLVTKMDLVDRQG  320 (591)
T ss_pred             hhhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcccc-HHHHHHHHH---hCCCeEEEEEeeccccchh
Confidence            111234689999999998766654333  2688899999887644222 333333333   5689999999999876521


Q ss_pred             cH-----------------------------HHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          172 RR-----------------------------EIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       172 ~~-----------------------------~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      ..                             ..++.++. ....|+|.+|+.+|.|++-+-
T Consensus       321 ~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s-~nivPif~vSsVsGegl~ll~  380 (591)
T KOG1143|consen  321 LKKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCS-GNIVPIFAVSSVSGEGLRLLR  380 (591)
T ss_pred             HHHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhcc-CCceeEEEEeecCccchhHHH
Confidence            11                             12233333 455789999999999976443

>KOG0463|consensus

Probab=98.48  E-value=7.7e-07  Score=74.11  Aligned_cols=153  Identities=17%  Similarity=0.270  Sum_probs=90.2

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCC------------------ccccce------eeeeeeEEcCC-------
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISR------------------YKETVE------ELHRGEYELPD-------   94 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~------------------~~~t~~------~~~~~~~~~~~-------   94 (253)
                      +--+++|+++|+..+|||||+..|.++.....                  -.+...      +.....+.-+|       
T Consensus       130 DF~E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~~Ld  209 (641)
T KOG0463|consen  130 DFIEARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGHNLD  209 (641)
T ss_pred             cceeEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCCCCCccc
Confidence            44578999999999999999988775443210                  000000      11111111111       


Q ss_pred             ------CcEEEEEEEeCCCCCCChhhHHHhc--ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCC
Q psy549           95 ------GAQLTLDILDTSGAYQFPAMRELSI--STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL  166 (253)
Q Consensus        95 ------~~~~~~~l~D~~g~~~~~~~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  166 (253)
                            ...-.++|+|.+|+++|-..+-.-+  +-.|...+++-++...- .-....+-....   ..+|+++|++|+|+
T Consensus       210 WvkIce~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGIi-GmTKEHLgLALa---L~VPVfvVVTKIDM  285 (641)
T KOG0463|consen  210 WVKICEDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGII-GMTKEHLGLALA---LHVPVFVVVTKIDM  285 (641)
T ss_pred             ceeeccccceeEEEEeccchhhhhheeeeccccCCCCceEEEecccccce-eccHHhhhhhhh---hcCcEEEEEEeecc
Confidence                  1122378999999999865443222  23577777776665421 111222222222   44899999999999


Q ss_pred             CCccccHHHHHHHHHh----------------------------cCCCcEEEeccCCCCCHHHH
Q psy549          167 EFKDVRREIAETIALY----------------------------DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       167 ~~~~~~~~~~~~~~~~----------------------------~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      ....+.++-.+.+...                            ..-+|+|.+|..+|.|+.-+
T Consensus       286 CPANiLqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LL  349 (641)
T KOG0463|consen  286 CPANILQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLL  349 (641)
T ss_pred             CcHHHHHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHH
Confidence            8875555544443321                            12267899999999998644

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.47  E-value=7.6e-07  Score=76.15  Aligned_cols=95  Identities=19%  Similarity=0.144  Sum_probs=66.7

Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHH----HHHhc
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAET----IALYD  183 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~----~~~~~  183 (253)
                      .++|..+...++..++++++|+|+.+..     ..|...+.... .+.|+++|+||+|+.......+....    +.. .
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~-~~~piilV~NK~DLl~k~~~~~~~~~~l~~~~k-~  122 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFV-GGNPVLLVGNKIDLLPKSVNLSKIKEWMKKRAK-E  122 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHh-CCCCEEEEEEchhhCCCCCCHHHHHHHHHHHHH-H
Confidence            4567777777888999999999997643     22444444432 35799999999999765433333332    233 2


Q ss_pred             CCC---cEEEeccCCCCCHHHHHHHHHHH
Q psy549          184 WQC---GFVECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       184 ~~~---~~~~~Sa~~~~~i~~l~~~l~~~  209 (253)
                      .++   .++.+||+++.|++++++.|.+.
T Consensus       123 ~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       123 LGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             cCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            333   48999999999999999998664

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.45  E-value=1.5e-06  Score=65.41  Aligned_cols=84  Identities=19%  Similarity=0.085  Sum_probs=56.2

Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      |++++|+|+.++.+...  .++.. ......++|+++|+||+|+............+.. .....++.+|++++.|++++
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~-~~~~~~~~p~IiVlNK~Dl~~~~~~~~~~~~~~~-~~~~~ii~vSa~~~~gi~~L   76 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIER-VLIKEKGKKLILVLNKADLVPKEVLRKWLAYLRH-SYPTIPFKISATNGQGIEKK   76 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHH-HHHhcCCCCEEEEEechhcCCHHHHHHHHHHHHh-hCCceEEEEeccCCcChhhH
Confidence            78999999988755432  22221 1112256899999999998643221222223333 34567899999999999999


Q ss_pred             HHHHHHHH
Q psy549          203 FKELLAQA  210 (253)
Q Consensus       203 ~~~l~~~~  210 (253)
                      ++.+.+..
T Consensus        77 ~~~i~~~~   84 (155)
T cd01849          77 ESAFTKQT   84 (155)
T ss_pred             HHHHHHHh
Confidence            99987764

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.

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.43  E-value=7.7e-06  Score=65.35  Aligned_cols=88  Identities=16%  Similarity=0.160  Sum_probs=58.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC--CC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh------hHH
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD--RF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA------MRE  116 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~--~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~------~~~  116 (253)
                      .+..-|+|+|++++|||+|+|+|++.  .+  ......+|.........+..+....+.++||+|......      ...
T Consensus         5 ~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~   84 (224)
T cd01851           5 FPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARL   84 (224)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhHH
Confidence            45567899999999999999999998  65  233445655555555554333446789999999664322      111


Q ss_pred             Hhcc--cCCEEEEEEECCCh
Q psy549          117 LSIS--TADAFVLVYAVDDA  134 (253)
Q Consensus       117 ~~~~--~~d~~i~v~d~~~~  134 (253)
                      ..+.  -++++|+..+.+..
T Consensus        85 ~~l~~llss~~i~n~~~~~~  104 (224)
T cd01851          85 FALATLLSSVLIYNSWETIL  104 (224)
T ss_pred             HHHHHHHhCEEEEeccCccc
Confidence            1222  37888887776543

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>cd01855 YqeH YqeH

Probab=98.42  E-value=3.5e-07  Score=71.23  Aligned_cols=55  Identities=27%  Similarity=0.325  Sum_probs=37.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC----------CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF----------ISRYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~----------~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      ....|+|+|.+|+|||||+|+|.+...          .+..++||.+.....+   +.   .+.++||||.
T Consensus       126 ~~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~---~~---~~~~~DtPG~  190 (190)
T cd01855         126 KGGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPL---GN---GKKLYDTPGI  190 (190)
T ss_pred             cCCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEec---CC---CCEEEeCcCC
Confidence            346899999999999999999997442          2334445554433333   21   3689999983

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.41  E-value=6.4e-07  Score=73.93  Aligned_cols=56  Identities=23%  Similarity=0.386  Sum_probs=40.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      ...++|+|+|.||+|||||+|+|.+...  +...+.++....  .+.+ +.   .+.++||||.
T Consensus       116 ~~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~~~g~T~~~~--~~~~-~~---~~~l~DtPG~  173 (276)
T TIGR03596       116 NRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVTKGQQ--WIKL-SD---GLELLDTPGI  173 (276)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeecceE--EEEe-CC---CEEEEECCCc
Confidence            3568999999999999999999998663  344455554433  3333 22   4689999997

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.41  E-value=7.8e-07  Score=73.81  Aligned_cols=58  Identities=22%  Similarity=0.335  Sum_probs=42.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~  110 (253)
                      ...++|+|+|.||||||||+|+|.+...  +...+++|....  .+.. +.   .+.++||||...
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~g~T~~~~--~~~~-~~---~~~l~DtPGi~~  178 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKAQQ--WIKL-GK---GLELLDTPGILW  178 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccccCCCCCeEEEEE--EEEe-CC---cEEEEECCCcCC
Confidence            4568999999999999999999998664  344555555443  3333 32   367999999643

>cd01856 YlqF YlqF

Probab=98.37  E-value=1.1e-06  Score=67.34  Aligned_cols=55  Identities=22%  Similarity=0.337  Sum_probs=38.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCC--CCccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFI--SRYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      ..++|+++|.+|+|||||+|++.+..+.  ...+.++.....  +.+ +   ..+.+|||||.
T Consensus       114 ~~~~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~T~~~~~--~~~-~---~~~~~iDtpG~  170 (171)
T cd01856         114 RGIRAMVVGIPNVGKSTLINRLRGKKVAKVGNKPGVTKGIQW--IKI-S---PGIYLLDTPGI  170 (171)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCceeecCCCCEEeeeEE--EEe-c---CCEEEEECCCC
Confidence            4479999999999999999999987752  233334433322  333 2   24789999995

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.

>KOG1547|consensus

Probab=98.37  E-value=3.5e-06  Score=66.20  Aligned_cols=61  Identities=23%  Similarity=0.316  Sum_probs=41.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCC---------CCccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFI---------SRYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~---------~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      -.++|+++|.+|.|||||+|.++.....         ..++.|++-.....+...++...+++++||||-
T Consensus        45 F~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGf  114 (336)
T KOG1547|consen   45 FDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGF  114 (336)
T ss_pred             CceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCc
Confidence            4689999999999999999999864431         123333332222222223677889999999993

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.36  E-value=1.1e-06  Score=66.02  Aligned_cols=56  Identities=32%  Similarity=0.417  Sum_probs=40.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      ....+|+++|.+|+|||||+|++.+...  ....+.++......  .+ +.   .+.++||||.
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~~~--~~-~~---~~~liDtPG~  155 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQEV--KL-DN---KIKLLDTPGI  155 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceEEE--Ee-cC---CEEEEECCCC
Confidence            3568899999999999999999998653  34445566554433  23 21   4789999983

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.

>KOG0460|consensus

Probab=98.36  E-value=1.3e-06  Score=71.87  Aligned_cols=146  Identities=20%  Similarity=0.153  Sum_probs=88.1

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHh-------CCC------CCCccccce--eeeeeeEEcCCCcEEEEEEEeCCCCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLY-------DRF------ISRYKETVE--ELHRGEYELPDGAQLTLDILDTSGAY  109 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~-------~~~------~~~~~~t~~--~~~~~~~~~~~~~~~~~~l~D~~g~~  109 (253)
                      ..++.++|.-||+..-|||||--++..       .++      ......-.+  ......+.+ ....-.+-=.|+||+.
T Consensus        50 R~KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveY-eTa~RhYaH~DCPGHA  128 (449)
T KOG0460|consen   50 RDKPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEY-ETAKRHYAHTDCPGHA  128 (449)
T ss_pred             cCCCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeee-eccccccccCCCCchH
Confidence            357889999999999999999988772       111      010000001  222223333 2222345567999998


Q ss_pred             CChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-----cccHHHHHHHHHh--
Q psy549          110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-----DVRREIAETIALY--  182 (253)
Q Consensus       110 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-----~~~~~~~~~~~~~--  182 (253)
                      +|-...-.-..+.|++|+|+.++|..--+.-++++. ..+.  --..+++++||.|+.++     -+.-++.+.+...  
T Consensus       129 DYIKNMItGaaqMDGaILVVaatDG~MPQTrEHlLL-ArQV--GV~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf  205 (449)
T KOG0460|consen  129 DYIKNMITGAAQMDGAILVVAATDGPMPQTREHLLL-ARQV--GVKHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGF  205 (449)
T ss_pred             HHHHHhhcCccccCceEEEEEcCCCCCcchHHHHHH-HHHc--CCceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCC
Confidence            886665555667899999999999865444333322 1221  22467888899999855     2233344444442  


Q ss_pred             -cCCCcEEEeccC
Q psy549          183 -DWQCGFVECSAK  194 (253)
Q Consensus       183 -~~~~~~~~~Sa~  194 (253)
                       +...|++.-||+
T Consensus       206 ~Gd~~PvI~GSAL  218 (449)
T KOG0460|consen  206 DGDNTPVIRGSAL  218 (449)
T ss_pred             CCCCCCeeecchh
Confidence             235688876654

>KOG0464|consensus

Probab=98.36  E-value=3.2e-07  Score=77.22  Aligned_cols=126  Identities=15%  Similarity=0.174  Sum_probs=94.6

Q ss_pred             CCCCCCCCCCcceEEEECCCCCCHHHHHHHHHh--CCC------C-----CCcc----ccceeeeeeeEEcCCCcEEEEE
Q psy549           39 SGTGVGLQKDKRRVVVMGGARVGKSSIISQFLY--DRF------I-----SRYK----ETVEELHRGEYELPDGAQLTLD  101 (253)
Q Consensus        39 ~~~~~~~~~~~~~I~iiG~~~~GKSsLi~~l~~--~~~------~-----~~~~----~t~~~~~~~~~~~~~~~~~~~~  101 (253)
                      ++...++.....+|+|+.+..+||||...+++.  +..      .     .+..    ..........+.+ |.+..++.
T Consensus        27 hs~~~p~~akirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~f-dwkg~rin  105 (753)
T KOG0464|consen   27 HSIINPAIAKIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNF-DWKGHRIN  105 (753)
T ss_pred             cCCCCCchhhhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeec-ccccceEe
Confidence            344455666777999999999999999999882  111      0     0000    0011555666777 88889999


Q ss_pred             EEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          102 ILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       102 l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      ++||||+-.|.-..+..++--|+++.|||.+.+..-+.+.-|.+.-    ..++|-..++||.|....
T Consensus       106 lidtpghvdf~leverclrvldgavav~dasagve~qtltvwrqad----k~~ip~~~finkmdk~~a  169 (753)
T KOG0464|consen  106 LIDTPGHVDFRLEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQAD----KFKIPAHCFINKMDKLAA  169 (753)
T ss_pred             eecCCCcceEEEEHHHHHHHhcCeEEEEeccCCcccceeeeehhcc----ccCCchhhhhhhhhhhhh
Confidence            9999999999999999999999999999999876656666676532    256899999999997654

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=98.33  E-value=3.8e-05  Score=65.48  Aligned_cols=153  Identities=20%  Similarity=0.311  Sum_probs=89.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh-----------------CCCCCC----ccccce----eeeeeeEEcCCCcEEEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY-----------------DRFISR----YKETVE----ELHRGEYELPDGAQLTLDI  102 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~-----------------~~~~~~----~~~t~~----~~~~~~~~~~~~~~~~~~l  102 (253)
                      ..+-|+++||..+||||||.+|+.                 ++.+..    .+.|++    ......+.+.++..+++.+
T Consensus        16 GdIYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRL   95 (492)
T PF09547_consen   16 GDIYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRL   95 (492)
T ss_pred             CceEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEE
Confidence            468899999999999999999992                 222211    122232    2333456666788999999


Q ss_pred             EeCCC--------CCC-----------C---hhhHHH-------hccc--CCEEEEEEECCC----hhhHHH-HHHHHHH
Q psy549          103 LDTSG--------AYQ-----------F---PAMREL-------SIST--ADAFVLVYAVDD----ASTWDV-VKDLREQ  146 (253)
Q Consensus       103 ~D~~g--------~~~-----------~---~~~~~~-------~~~~--~d~~i~v~d~~~----~~s~~~-~~~~~~~  146 (253)
                      +|+.|        ..+           |   -.+..+       .++.  .=++++.-|.+-    ++++.. -++...+
T Consensus        96 iDCVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~E  175 (492)
T PF09547_consen   96 IDCVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEE  175 (492)
T ss_pred             EeecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHH
Confidence            99988        100           0   011111       1111  124444444331    223322 2233444


Q ss_pred             HHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCC--CCCHHHHHHH
Q psy549          147 IVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKE--NYNIVQVFKE  205 (253)
Q Consensus       147 ~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~--~~~i~~l~~~  205 (253)
                      +..   -++|+++++|-.+ +......+.+..+.. ..+++++++++..  ...|..+|+.
T Consensus       176 Lk~---igKPFvillNs~~-P~s~et~~L~~eL~e-kY~vpVlpvnc~~l~~~DI~~Il~~  231 (492)
T PF09547_consen  176 LKE---IGKPFVILLNSTK-PYSEETQELAEELEE-KYDVPVLPVNCEQLREEDITRILEE  231 (492)
T ss_pred             HHH---hCCCEEEEEeCCC-CCCHHHHHHHHHHHH-HhCCcEEEeehHHcCHHHHHHHHHH
Confidence            444   5689999999886 334566667777777 7789998887743  2344444443

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.28  E-value=4.6e-05  Score=56.50  Aligned_cols=148  Identities=15%  Similarity=0.166  Sum_probs=83.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCC-C--------------CCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTS-G--------------AYQF  111 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~-g--------------~~~~  111 (253)
                      ...++|+|.|+||||||||+.++...--...  .+..-++...+.- +|..+-|.+.|.. |              ..+|
T Consensus         3 ~~~mki~ITG~PGvGKtTl~~ki~e~L~~~g--~kvgGf~t~EVR~-gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY   79 (179)
T COG1618           3 KMAMKIFITGRPGVGKTTLVLKIAEKLREKG--YKVGGFITPEVRE-GGKRIGFKIVDLATGEEGILARVGFSRPRVGKY   79 (179)
T ss_pred             CcceEEEEeCCCCccHHHHHHHHHHHHHhcC--ceeeeEEeeeeec-CCeEeeeEEEEccCCceEEEEEcCCCCcccceE
Confidence            3468999999999999999998874211110  1233455555555 6666667777766 2              1112


Q ss_pred             h-----------hhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHH
Q psy549          112 P-----------AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA  180 (253)
Q Consensus       112 ~-----------~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~  180 (253)
                      .           .....+++.||++|+  |---+-.+. ...+...+........|++.++.+-+-      ....+.+.
T Consensus        80 ~V~v~~le~i~~~al~rA~~~aDvIII--DEIGpMElk-s~~f~~~ve~vl~~~kpliatlHrrsr------~P~v~~ik  150 (179)
T COG1618          80 GVNVEGLEEIAIPALRRALEEADVIII--DEIGPMELK-SKKFREAVEEVLKSGKPLIATLHRRSR------HPLVQRIK  150 (179)
T ss_pred             EeeHHHHHHHhHHHHHHHhhcCCEEEE--ecccchhhc-cHHHHHHHHHHhcCCCcEEEEEecccC------ChHHHHhh
Confidence            1           111123445666655  433332222 244555555544467898888887653      12334444


Q ss_pred             HhcCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       181 ~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      . ...+.+|    .+..|=+.++..+...+.
T Consensus       151 ~-~~~v~v~----lt~~NR~~i~~~Il~~L~  176 (179)
T COG1618         151 K-LGGVYVF----LTPENRNRILNEILSVLK  176 (179)
T ss_pred             h-cCCEEEE----EccchhhHHHHHHHHHhc
Confidence            4 3444343    455555688888777664

>cd01859 MJ1464 MJ1464

Probab=98.28  E-value=3.1e-06  Score=63.66  Aligned_cols=55  Identities=27%  Similarity=0.294  Sum_probs=36.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCC--CCccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFI--SRYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      ...+|+++|.+|+|||||+|++.+....  .....++..  ...+.. +.   .+.+|||||.
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~~~~~~~~~~t~~--~~~~~~-~~---~~~~~DtpGi  156 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHSASTSPSPGYTKG--EQLVKI-TS---KIYLLDTPGV  156 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeeee--eEEEEc-CC---CEEEEECcCC
Confidence            4578999999999999999999975532  112222211  112223 32   5789999983

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.

>KOG0448|consensus

Probab=98.27  E-value=2.5e-05  Score=69.86  Aligned_cols=144  Identities=19%  Similarity=0.265  Sum_probs=81.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceee--------eee-----------------------------
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEEL--------HRG-----------------------------   88 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~--------~~~-----------------------------   88 (253)
                      ....||+|.|..++||||++|+++..+. ++...+++.-+        ...                             
T Consensus       107 r~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~  186 (749)
T KOG0448|consen  107 RRHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDL  186 (749)
T ss_pred             hcccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCccccc
Confidence            5678999999999999999999997664 33333332100        000                             


Q ss_pred             ------eEEcCCCc----EEEEEEEeCCCCCC---ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC
Q psy549           89 ------EYELPDGA----QLTLDILDTSGAYQ---FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMV  155 (253)
Q Consensus        89 ------~~~~~~~~----~~~~~l~D~~g~~~---~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~  155 (253)
                            .+.++++.    .-.+.++|.||.+-   ..........++|++|+|.++.+...... .+++...   ...+.
T Consensus       187 ~~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se-k~Ff~~v---s~~Kp  262 (749)
T KOG0448|consen  187 GAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE-KQFFHKV---SEEKP  262 (749)
T ss_pred             CcceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH-HHHHHHh---hccCC
Confidence                  01111110    01346889999553   44445557788999999998876544322 2222222   22345


Q ss_pred             CEEEEEecCCCCCc--cccHHHHHHHHHh------cCCCcEEEeccC
Q psy549          156 PIVVVGNKCELEFK--DVRREIAETIALY------DWQCGFVECSAK  194 (253)
Q Consensus       156 piilv~nK~Dl~~~--~~~~~~~~~~~~~------~~~~~~~~~Sa~  194 (253)
                      -++++.||.|...+  +..+.+.++....      .-.-.++.+|++
T Consensus       263 niFIlnnkwDasase~ec~e~V~~Qi~eL~v~~~~eA~DrvfFVS~~  309 (749)
T KOG0448|consen  263 NIFILNNKWDASASEPECKEDVLKQIHELSVVTEKEAADRVFFVSAK  309 (749)
T ss_pred             cEEEEechhhhhcccHHHHHHHHHHHHhcCcccHhhhcCeeEEEecc
Confidence            67777799997654  2223333332210      123457888865

>PRK01889 GTPase RsgA; Reviewed

Probab=98.27  E-value=9.2e-06  Score=69.38  Aligned_cols=85  Identities=12%  Similarity=0.018  Sum_probs=62.3

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      ...++|.+++|+++..+-....+.+++.....   .+++.++|+||+|+.+.  ..+..+.+.....+.+++.+|++++.
T Consensus       109 iaANvD~vliV~s~~p~~~~~~ldr~L~~a~~---~~i~piIVLNK~DL~~~--~~~~~~~~~~~~~g~~Vi~vSa~~g~  183 (356)
T PRK01889        109 IAANVDTVFIVCSLNHDFNLRRIERYLALAWE---SGAEPVIVLTKADLCED--AEEKIAEVEALAPGVPVLAVSALDGE  183 (356)
T ss_pred             EEEeCCEEEEEEecCCCCChhHHHHHHHHHHH---cCCCEEEEEEChhcCCC--HHHHHHHHHHhCCCCcEEEEECCCCc
Confidence            36789999999999755454456666665555   45788999999999754  11233444443567889999999999


Q ss_pred             CHHHHHHHHH
Q psy549          198 NIVQVFKELL  207 (253)
Q Consensus       198 ~i~~l~~~l~  207 (253)
                      |++++..++.
T Consensus       184 gl~~L~~~L~  193 (356)
T PRK01889        184 GLDVLAAWLS  193 (356)
T ss_pred             cHHHHHHHhh
Confidence            9999888874

>KOG0466|consensus

Probab=98.25  E-value=1.2e-06  Score=71.09  Aligned_cols=110  Identities=19%  Similarity=0.176  Sum_probs=69.8

Q ss_pred             EEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCC--hhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHH
Q psy549           99 TLDILDTSGAYQFPAMRELSISTADAFVLVYAVDD--ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIA  176 (253)
Q Consensus        99 ~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~--~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~  176 (253)
                      .+.|+|+||++-.......-..-.|+++++...+.  ++.-.  ...+..+..+  .-..++++-||+|+.......+..
T Consensus       126 HVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQT--sEHLaaveiM--~LkhiiilQNKiDli~e~~A~eq~  201 (466)
T KOG0466|consen  126 HVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQT--SEHLAAVEIM--KLKHIIILQNKIDLIKESQALEQH  201 (466)
T ss_pred             EEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCch--hhHHHHHHHh--hhceEEEEechhhhhhHHHHHHHH
Confidence            35799999998766555443344577777776654  32211  1112222211  115788899999998763333333


Q ss_pred             HHHHHh-----cCCCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          177 ETIALY-----DWQCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       177 ~~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      +.+.+.     ..+.|++++||.-..||+-+.++|.+.+..
T Consensus       202 e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPv  242 (466)
T KOG0466|consen  202 EQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPV  242 (466)
T ss_pred             HHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCC
Confidence            333321     236799999999999999999999998843

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.24  E-value=2e-06  Score=72.37  Aligned_cols=57  Identities=33%  Similarity=0.437  Sum_probs=40.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY  109 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~  109 (253)
                      ...++++|+|-||||||||||+|.+...  ++..+++|.......+.  +    .+.++||||.-
T Consensus       130 ~~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~PG~Tk~~q~i~~~--~----~i~LlDtPGii  188 (322)
T COG1161         130 KRKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRPGTTKGIQWIKLD--D----GIYLLDTPGII  188 (322)
T ss_pred             ccceEEEEEcCCCCcHHHHHHHHhcccceeeCCCCceecceEEEEcC--C----CeEEecCCCcC
Confidence            4558899999999999999999999775  34444444433333332  2    26899999954

>cd01856 YlqF YlqF

Probab=98.18  E-value=4.4e-06  Score=63.91  Aligned_cols=91  Identities=13%  Similarity=0.011  Sum_probs=60.5

Q ss_pred             hhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEec
Q psy549          113 AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECS  192 (253)
Q Consensus       113 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  192 (253)
                      ......+.++|.+++|+|+.++...... .+...+     .+.|+++|+||+|+.+........+.+..  ....++.+|
T Consensus        11 ~~~~~~i~~aD~il~v~D~~~~~~~~~~-~i~~~~-----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~--~~~~vi~iS   82 (171)
T cd01856          11 RQIKEKLKLVDLVIEVRDARIPLSSRNP-LLEKIL-----GNKPRIIVLNKADLADPKKTKKWLKYFES--KGEKVLFVN   82 (171)
T ss_pred             HHHHHHHhhCCEEEEEeeccCccCcCCh-hhHhHh-----cCCCEEEEEehhhcCChHHHHHHHHHHHh--cCCeEEEEE
Confidence            4445578899999999999876432221 111111     24799999999998643211122222222  245689999


Q ss_pred             cCCCCCHHHHHHHHHHHHH
Q psy549          193 AKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       193 a~~~~~i~~l~~~l~~~~~  211 (253)
                      ++++.|++++.+.+...+.
T Consensus        83 a~~~~gi~~L~~~l~~~l~  101 (171)
T cd01856          83 AKSGKGVKKLLKAAKKLLK  101 (171)
T ss_pred             CCCcccHHHHHHHHHHHHH
Confidence            9999999999999988764

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.18  E-value=1.5e-05  Score=65.88  Aligned_cols=91  Identities=14%  Similarity=0.070  Sum_probs=61.7

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccC
Q psy549          115 RELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       115 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      ....+..+|++++|.|+.++.+...  .++..+.    .+.|+++|+||+|+.+........+.+..  .+.+++.+|++
T Consensus        15 ~~~~l~~aDvVl~V~Dar~p~~~~~--~~i~~~l----~~kp~IiVlNK~DL~~~~~~~~~~~~~~~--~~~~vi~iSa~   86 (276)
T TIGR03596        15 IKEKLKLVDVVIEVLDARIPLSSRN--PMIDEIR----GNKPRLIVLNKADLADPAVTKQWLKYFEE--KGIKALAINAK   86 (276)
T ss_pred             HHHHHhhCCEEEEEEeCCCCCCCCC--hhHHHHH----CCCCEEEEEEccccCCHHHHHHHHHHHHH--cCCeEEEEECC
Confidence            3456888999999999987644322  1111111    24799999999998643212222223322  34578999999


Q ss_pred             CCCCHHHHHHHHHHHHHHh
Q psy549          195 ENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~~~~  213 (253)
                      ++.|+.++.+.+.+.+...
T Consensus        87 ~~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        87 KGKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             CcccHHHHHHHHHHHHHHh
Confidence            9999999999998887554

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.17  E-value=8.2e-06  Score=60.33  Aligned_cols=77  Identities=14%  Similarity=0.048  Sum_probs=50.4

Q ss_pred             HHhcccCCEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEecc
Q psy549          116 ELSISTADAFVLVYAVDDASTWD--VVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSA  193 (253)
Q Consensus       116 ~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  193 (253)
                      ...+..+|++++|+|+.++.+..  .+..|+..   . ..++|+++|+||+|+..........+.+..  .+..++++|+
T Consensus         6 ~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~---~-~~~k~~iivlNK~DL~~~~~~~~~~~~~~~--~~~~ii~iSa   79 (141)
T cd01857           6 WRVVERSDIVVQIVDARNPLLFRPPDLERYVKE---V-DPRKKNILLLNKADLLTEEQRKAWAEYFKK--EGIVVVFFSA   79 (141)
T ss_pred             HHHHhhCCEEEEEEEccCCcccCCHHHHHHHHh---c-cCCCcEEEEEechhcCCHHHHHHHHHHHHh--cCCeEEEEEe
Confidence            34578899999999998876543  23333332   1 146899999999998654322222333333  3467899999


Q ss_pred             CCCCC
Q psy549          194 KENYN  198 (253)
Q Consensus       194 ~~~~~  198 (253)
                      .++.+
T Consensus        80 ~~~~~   84 (141)
T cd01857          80 LKENA   84 (141)
T ss_pred             cCCCc
Confidence            98764

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.

>KOG0467|consensus

Probab=98.17  E-value=9.6e-06  Score=73.12  Aligned_cols=114  Identities=15%  Similarity=0.223  Sum_probs=76.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccce------ee-------eeeeEEcCCCcEEEEEEEeCCCCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVE------EL-------HRGEYELPDGAQLTLDILDTSGAYQF  111 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~------~~-------~~~~~~~~~~~~~~~~l~D~~g~~~~  111 (253)
                      ...-+|+++-+..-|||||+..|+...  +.+...+..+      +-       ....+.. --..+.+.++|+||+-+|
T Consensus         7 ~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~-~~~~~~~nlidspghvdf   85 (887)
T KOG0467|consen    7 EGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISL-LHKDYLINLIDSPGHVDF   85 (887)
T ss_pred             CceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeecccccc-ccCceEEEEecCCCccch
Confidence            345689999999999999999998543  2111111111      11       1111112 223567899999999999


Q ss_pred             hhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCC
Q psy549          112 PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE  165 (253)
Q Consensus       112 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  165 (253)
                      .+......+.+|+++++.|+..+.--+...-.++...    .+...++|+||+|
T Consensus        86 ~sevssas~l~d~alvlvdvvegv~~qt~~vlrq~~~----~~~~~~lvinkid  135 (887)
T KOG0467|consen   86 SSEVSSASRLSDGALVLVDVVEGVCSQTYAVLRQAWI----EGLKPILVINKID  135 (887)
T ss_pred             hhhhhhhhhhcCCcEEEEeeccccchhHHHHHHHHHH----ccCceEEEEehhh
Confidence            9999999999999999999987654333222222221    3456788999999

>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=98.16  E-value=3.5e-06  Score=73.00  Aligned_cols=70  Identities=19%  Similarity=0.175  Sum_probs=49.1

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChh----------hHHHHHHHHHHHHH-hcCCCCCEEEEEecCCC
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAS----------TWDVVKDLREQIVN-KRGLMVPIVVVGNKCEL  166 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~----------s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl  166 (253)
                      ..+.++|++|+...+..|..++.+++++|+|+++++-.          .+..-...+..+.. ..-.+.|++|++||.|+
T Consensus       236 ~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~  315 (389)
T PF00503_consen  236 RKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDL  315 (389)
T ss_dssp             EEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHH
T ss_pred             cccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHH
Confidence            46799999999989999999999999999999986411          12221222333332 12246899999999995


Q ss_pred             C
Q psy549          167 E  167 (253)
Q Consensus       167 ~  167 (253)
                      .
T Consensus       316 f  316 (389)
T PF00503_consen  316 F  316 (389)
T ss_dssp             H
T ss_pred             H
Confidence            3

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 ....

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.16  E-value=3.4e-05  Score=75.60  Aligned_cols=114  Identities=16%  Similarity=0.203  Sum_probs=67.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCc----ccc--ceeeeeeeEEcCCCcEEEEEEEeCCCCC--------CChhhH
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRY----KET--VEELHRGEYELPDGAQLTLDILDTSGAY--------QFPAMR  115 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~----~~t--~~~~~~~~~~~~~~~~~~~~l~D~~g~~--------~~~~~~  115 (253)
                      .=.+|||++|+||||+++.- +-.++-..    ..+  ......-...+ ..+   -.++||+|..        .....|
T Consensus       112 PWYlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~c~wwf-~~~---avliDtaG~y~~~~~~~~~~~~~W  186 (1169)
T TIGR03348       112 PWYLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRNCDWWF-TDE---AVLIDTAGRYTTQDSDPEEDAAAW  186 (1169)
T ss_pred             CCEEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcccceEe-cCC---EEEEcCCCccccCCCcccccHHHH
Confidence            45689999999999999875 44442111    000  00011111112 222   2488999932        233345


Q ss_pred             HHhc---------ccCCEEEEEEECCChh-----hH----HHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549          116 ELSI---------STADAFVLVYAVDDAS-----TW----DVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus       116 ~~~~---------~~~d~~i~v~d~~~~~-----s~----~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      ..++         +..+++|+++|+.+--     ..    ..+...+.++.....-..||.+|+||+|+..
T Consensus       187 ~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~  257 (1169)
T TIGR03348       187 LGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLA  257 (1169)
T ss_pred             HHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhc
Confidence            4433         3479999999987532     11    1233345555555567899999999999764

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.13  E-value=3.4e-06  Score=71.55  Aligned_cols=56  Identities=29%  Similarity=0.510  Sum_probs=35.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC--CCCccc-------cceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF--ISRYKE-------TVEELHRGEYELPDGAQLTLDILDTSGAYQFP  112 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~-------t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~  112 (253)
                      .++|+|.+|||||||||+|++...  +.....       ||..  ..-+.++.+    ..++||||..++.
T Consensus       207 i~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~--~~l~~l~~~----~~liDTPGir~~~  271 (347)
T PRK12288        207 ISIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTA--ARLYHFPHG----GDLIDSPGVREFG  271 (347)
T ss_pred             CEEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceee--EEEEEecCC----CEEEECCCCCccc
Confidence            479999999999999999997653  111111       2222  222333222    1489999987754

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.09  E-value=4.4e-05  Score=57.56  Aligned_cols=22  Identities=23%  Similarity=0.428  Sum_probs=19.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -++++|..|+|||||+++++..
T Consensus         2 ~~~l~G~~GsGKTtl~~~l~~~   23 (158)
T cd03112           2 VTVLTGFLGAGKTTLLNHILTE   23 (158)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc
Confidence            3679999999999999998865

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.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=98.07  E-value=3.9e-06  Score=62.94  Aligned_cols=24  Identities=38%  Similarity=0.630  Sum_probs=21.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      -.++|+|++|||||||+|.|.+..
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhc
Confidence            578999999999999999999864

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=98.02  E-value=2.4e-05  Score=65.99  Aligned_cols=95  Identities=11%  Similarity=-0.002  Sum_probs=53.7

Q ss_pred             EEEEEEeCCCCCCChhhH-H---Hh--cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc
Q psy549           98 LTLDILDTSGAYQFPAMR-E---LS--ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV  171 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~-~---~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  171 (253)
                      +.+.|+||+|........ .   .+  ....|.+++|.|+.....-  + .....+....   -.-.+|+||.|.... .
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~--~-~~a~~f~~~~---~~~giIlTKlD~~~~-~  295 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDA--V-EQAREFNEAV---GIDGVILTKVDADAK-G  295 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhH--H-HHHHHHHhcC---CCCEEEEeeecCCCC-c
Confidence            467899999976532221 1   12  2257889999998765321  1 1122222111   235788999997543 1


Q ss_pred             cHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          172 RREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      - .+.....  ..+.|+.+++  +|.+++++..
T Consensus       296 G-~~ls~~~--~~~~Pi~~i~--~Gq~v~Dl~~  323 (336)
T PRK14974        296 G-AALSIAY--VIGKPILFLG--VGQGYDDLIP  323 (336)
T ss_pred             c-HHHHHHH--HHCcCEEEEe--CCCChhhccc
Confidence            1 1222222  2467887876  6888877653

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=98.01  E-value=0.00033  Score=58.84  Aligned_cols=101  Identities=14%  Similarity=0.119  Sum_probs=61.7

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcc--------cCCEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549           98 LTLDILDTSGAYQFPAMRELSIS--------TADAFVLVYAVDDASTWDV-VKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~--------~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      +...++++.|.-.-......+..        ..|+++-|+|+..-..... +......-...     .=++|+||+|+.+
T Consensus        85 ~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~-----AD~ivlNK~Dlv~  159 (323)
T COG0523          85 PDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAF-----ADVIVLNKTDLVD  159 (323)
T ss_pred             CCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHh-----CcEEEEecccCCC
Confidence            45568888887776555544333        2477888998875433221 22222222222     3388999999988


Q ss_pred             ccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ..........+.+.+...+++.++. .+.+..+++.
T Consensus       160 ~~~l~~l~~~l~~lnp~A~i~~~~~-~~~~~~~ll~  194 (323)
T COG0523         160 AEELEALEARLRKLNPRARIIETSY-GDVDLAELLD  194 (323)
T ss_pred             HHHHHHHHHHHHHhCCCCeEEEccc-cCCCHHHhhc
Confidence            7545555566666677888888887 4445554443

>PRK12289 GTPase RsgA; Reviewed

Probab=98.00  E-value=1e-05  Score=68.70  Aligned_cols=55  Identities=35%  Similarity=0.477  Sum_probs=35.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC--CCCccc-------cceeeeeeeEEcCCCcEEEEEEEeCCCCCCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF--ISRYKE-------TVEELHRGEYELPDGAQLTLDILDTSGAYQF  111 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~-------t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~  111 (253)
                      .++|+|++|||||||||+|++..-  +.....       ||...  ..+.++++.    .++||||...+
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~--~l~~l~~g~----~liDTPG~~~~  237 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHV--ELFELPNGG----LLADTPGFNQP  237 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCcee--EEEECCCCc----EEEeCCCcccc
Confidence            489999999999999999997543  222222       33333  333342332    58999997554

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=97.99  E-value=1.7e-05  Score=61.07  Aligned_cols=87  Identities=17%  Similarity=0.119  Sum_probs=48.2

Q ss_pred             EEEEEEeCCCCCCChhhHHH-----hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc-c
Q psy549           98 LTLDILDTSGAYQFPAMREL-----SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-V  171 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~-----~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~  171 (253)
                      ....|+++.|......+...     ..-..+.+|.|.|+..-.........+......     .=++|+||+|+.+.. .
T Consensus        85 ~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~-----ADvIvlnK~D~~~~~~~  159 (178)
T PF02492_consen   85 PDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQIAF-----ADVIVLNKIDLVSDEQK  159 (178)
T ss_dssp             -SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHHCT------SEEEEE-GGGHHHH--
T ss_pred             cCEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhhhhhcchh-----cCEEEEeccccCChhhH
Confidence            46677888886665555100     122358899999986643223333333333332     228889999987765 2


Q ss_pred             cHHHHHHHHHhcCCCcEE
Q psy549          172 RREIAETIALYDWQCGFV  189 (253)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~  189 (253)
                      .+...+.+...+...+++
T Consensus       160 i~~~~~~ir~lnp~a~Iv  177 (178)
T PF02492_consen  160 IERVREMIRELNPKAPIV  177 (178)
T ss_dssp             HHHHHHHHHHH-TTSEEE
T ss_pred             HHHHHHHHHHHCCCCEEe
Confidence            255556666656666654

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.99  E-value=1.1e-05  Score=69.17  Aligned_cols=56  Identities=32%  Similarity=0.402  Sum_probs=39.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC-------CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR-------FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF  111 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~-------~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~  111 (253)
                      .+|.|+|.+|||||||+|++++..       ..+..+.||......  .+ ++   .+.++||||....
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~--~~-~~---~~~l~DtPG~~~~  217 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEI--PL-DD---GHSLYDTPGIINS  217 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEE--Ee-CC---CCEEEECCCCCCh
Confidence            589999999999999999999743       234555666554432  33 22   2469999997654

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.98  E-value=3.2e-05  Score=64.91  Aligned_cols=95  Identities=9%  Similarity=0.025  Sum_probs=53.6

Q ss_pred             EEEEEEEeCCCCCCChhh----HHHhc--------ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecC
Q psy549           97 QLTLDILDTSGAYQFPAM----RELSI--------STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC  164 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~----~~~~~--------~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~  164 (253)
                      .+.+.++||||.......    ...+.        ...+..++|.|++...  ..+.+. ..+...   --+..+|+||.
T Consensus       196 ~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~--~~~~~a-~~f~~~---~~~~giIlTKl  269 (318)
T PRK10416        196 GIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQ--NALSQA-KAFHEA---VGLTGIILTKL  269 (318)
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCCh--HHHHHH-HHHHhh---CCCCEEEEECC
Confidence            357889999997543222    11111        2367788999998643  233321 222211   13557889999


Q ss_pred             CCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          165 ELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       165 Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      |....  .-.......  ..+.|+..++  +|.+++++-
T Consensus       270 D~t~~--~G~~l~~~~--~~~~Pi~~v~--~Gq~~~Dl~  302 (318)
T PRK10416        270 DGTAK--GGVVFAIAD--ELGIPIKFIG--VGEGIDDLQ  302 (318)
T ss_pred             CCCCC--ccHHHHHHH--HHCCCEEEEe--CCCChhhCc
Confidence            95433  112222233  3478888887  677777654

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.98  E-value=4.9e-05  Score=63.12  Aligned_cols=91  Identities=14%  Similarity=0.122  Sum_probs=61.7

Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccC
Q psy549          115 RELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       115 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      ....+..+|++++|.|+.++.+...  .++....    .+.|+++|+||+|+.+........+.+..  .+.+++.+|++
T Consensus        18 l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~----~~kp~iiVlNK~DL~~~~~~~~~~~~~~~--~~~~vi~vSa~   89 (287)
T PRK09563         18 IKENLKLVDVVIEVLDARIPLSSEN--PMIDKII----GNKPRLLILNKSDLADPEVTKKWIEYFEE--QGIKALAINAK   89 (287)
T ss_pred             HHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh----CCCCEEEEEEchhcCCHHHHHHHHHHHHH--cCCeEEEEECC
Confidence            3456788999999999987654322  1122211    25799999999998643212222233322  24678999999


Q ss_pred             CCCCHHHHHHHHHHHHHHh
Q psy549          195 ENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~~~~  213 (253)
                      ++.|+.++.+.+...+...
T Consensus        90 ~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         90 KGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             CcccHHHHHHHHHHHHHHH
Confidence            9999999999988887554

>PRK13796 GTPase YqeH; Provisional

Probab=97.96  E-value=5.6e-05  Score=64.86  Aligned_cols=84  Identities=21%  Similarity=0.193  Sum_probs=55.8

Q ss_pred             cccCC-EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHH----HHHHhcCCC---cEEE
Q psy549          119 ISTAD-AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAE----TIALYDWQC---GFVE  190 (253)
Q Consensus       119 ~~~~d-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~----~~~~~~~~~---~~~~  190 (253)
                      +..++ .+++|+|+.+..     ..|...+.... .+.|+++|+||+|+.......+...    .+.+ ..++   .++.
T Consensus        66 i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~-~~kpviLViNK~DLl~~~~~~~~i~~~l~~~~k-~~g~~~~~v~~  138 (365)
T PRK13796         66 IGDSDALVVNVVDIFDFN-----GSWIPGLHRFV-GNNPVLLVGNKADLLPKSVKKNKVKNWLRQEAK-ELGLRPVDVVL  138 (365)
T ss_pred             hcccCcEEEEEEECccCC-----CchhHHHHHHh-CCCCEEEEEEchhhCCCccCHHHHHHHHHHHHH-hcCCCcCcEEE
Confidence            34445 889999987743     22334444332 3579999999999976433333222    2233 2233   6899


Q ss_pred             eccCCCCCHHHHHHHHHHH
Q psy549          191 CSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~  209 (253)
                      +||+++.|++++++.|.+.
T Consensus       139 vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        139 ISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            9999999999999999765

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.93  E-value=2.1e-05  Score=63.68  Aligned_cols=55  Identities=31%  Similarity=0.317  Sum_probs=35.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCC--CCc-------cccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFI--SRY-------KETVEELHRGEYELPDGAQLTLDILDTSGAYQF  111 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~--~~~-------~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~  111 (253)
                      -.++|+|.+|||||||+|+|.+....  .+.       ..||......  .+ ++.    .++||||...+
T Consensus       121 ~~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~--~l-~~~----~liDtPG~~~~  184 (245)
T TIGR00157       121 RISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELF--HF-HGG----LIADTPGFNEF  184 (245)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEE--Ec-CCc----EEEeCCCcccc
Confidence            47899999999999999999975431  111       1233333222  22 221    59999997654

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>PRK13796 GTPase YqeH; Provisional

Probab=97.92  E-value=1.4e-05  Score=68.50  Aligned_cols=56  Identities=32%  Similarity=0.453  Sum_probs=38.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC------C-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR------F-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~------~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~  110 (253)
                      ..++.|+|.+|||||||+|+|+...      . .+..+.||.+...  +.+.++    ..++||||...
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~--~~l~~~----~~l~DTPGi~~  222 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIE--IPLDDG----SFLYDTPGIIH  222 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEE--EEcCCC----cEEEECCCccc
Confidence            3589999999999999999998542      1 3455566655433  333222    36999999743

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.90  E-value=1.6e-05  Score=66.05  Aligned_cols=25  Identities=36%  Similarity=0.525  Sum_probs=22.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF   74 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~   74 (253)
                      -.++++|++|+|||||+|.|++...
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~  186 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLD  186 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhh
Confidence            5799999999999999999997553

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.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=97.89  E-value=0.00015  Score=55.15  Aligned_cols=135  Identities=18%  Similarity=0.220  Sum_probs=67.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeC-CC---------------CCCChhh
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT-SG---------------AYQFPAM  114 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~-~g---------------~~~~~~~  114 (253)
                      +|+|.|++|+|||||+.+++..--...  -...-++...+.- ++..+-|.+.|. .|               ...|...
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~~~--~~v~Gf~t~evr~-~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~   77 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKKKG--LPVGGFYTEEVRE-NGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVD   77 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHHTC--GGEEEEEEEEEET-TSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhccC--CccceEEeecccC-CCceEEEEEEECcCCCccccccccccccccCCCEEEc
Confidence            689999999999999999885321000  0112233333333 555555666666 22               1112211


Q ss_pred             HHH-------h----cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecC-CCCCccccHHHHHHHHHh
Q psy549          115 REL-------S----ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC-ELEFKDVRREIAETIALY  182 (253)
Q Consensus       115 ~~~-------~----~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~-Dl~~~~~~~~~~~~~~~~  182 (253)
                      ...       .    +..+|  ++|+|=--+--+ ....|.+.+....+.+.|++.++.+. +.       ...+.+.. 
T Consensus        78 ~e~fe~~~~~~L~~~~~~~~--liviDEIG~mEl-~~~~F~~~v~~~l~s~~~vi~vv~~~~~~-------~~l~~i~~-  146 (168)
T PF03266_consen   78 LESFEEIGLPALRNALSSSD--LIVIDEIGKMEL-KSPGFREAVEKLLDSNKPVIGVVHKRSDN-------PFLEEIKR-  146 (168)
T ss_dssp             HHHHHCCCCCCCHHHHHCCH--EEEE---STTCC-C-CHHHHHHHHHHCTTSEEEEE--SS--S-------CCHHHHHT-
T ss_pred             HHHHHHHHHHHHHhhcCCCC--EEEEeccchhhh-cCHHHHHHHHHHHcCCCcEEEEEecCCCc-------HHHHHHHh-
Confidence            111       1    12344  566653322111 12335555555444778999998777 32       23455665 


Q ss_pred             cCCCcEEEeccCCCCCH
Q psy549          183 DWQCGFVECSAKENYNI  199 (253)
Q Consensus       183 ~~~~~~~~~Sa~~~~~i  199 (253)
                      .+++.+++++..+...+
T Consensus       147 ~~~~~i~~vt~~NRd~l  163 (168)
T PF03266_consen  147 RPDVKIFEVTEENRDAL  163 (168)
T ss_dssp             TTTSEEEE--TTTCCCH
T ss_pred             CCCcEEEEeChhHHhhH
Confidence            67788899887766655

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.86  E-value=9.5e-05  Score=60.80  Aligned_cols=96  Identities=13%  Similarity=0.030  Sum_probs=55.0

Q ss_pred             EEEEEEEeCCCCCCChhhHHH-------hc-----ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecC
Q psy549           97 QLTLDILDTSGAYQFPAMREL-------SI-----STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC  164 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~-------~~-----~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~  164 (253)
                      .+.+.|+||+|..........       ..     ...|..++|.|++...  +.+.. ...+....   -+.-+|+||.
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~--~~~~~-~~~f~~~~---~~~g~IlTKl  227 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQ--NALEQ-AKVFNEAV---GLTGIILTKL  227 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCH--HHHHH-HHHHHhhC---CCCEEEEEcc
Confidence            357889999997654333211       11     1378999999997542  23322 22222211   2558889999


Q ss_pred             CCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          165 ELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       165 Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |....  .-........  .+.|+.+++  +|.+++++-.
T Consensus       228 De~~~--~G~~l~~~~~--~~~Pi~~~~--~Gq~~~dl~~  261 (272)
T TIGR00064       228 DGTAK--GGIILSIAYE--LKLPIKFIG--VGEKIDDLAP  261 (272)
T ss_pred             CCCCC--ccHHHHHHHH--HCcCEEEEe--CCCChHhCcc
Confidence            97543  1122222222  357877777  6777776543

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.

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.84  E-value=0.00038  Score=58.51  Aligned_cols=97  Identities=9%  Similarity=0.059  Sum_probs=55.6

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcc--------cCCEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549           98 LTLDILDTSGAYQFPAMRELSIS--------TADAFVLVYAVDDASTWDV-VKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~--------~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      ....++++.|..........++.        ..++++.|+|+.+-..... .......+. .     .=++|+||+|+.+
T Consensus        91 ~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~-~-----AD~IvlnK~Dl~~  164 (318)
T PRK11537         91 FDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVG-Y-----ADRILLTKTDVAG  164 (318)
T ss_pred             CCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHHH-h-----CCEEEEeccccCC
Confidence            45568888888776655554422        2478999999865322111 111111121 1     3388899999886


Q ss_pred             ccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      ..  +.....+...+...+++.+.- .......+|
T Consensus       165 ~~--~~~~~~l~~lnp~a~i~~~~~-~~v~~~~l~  196 (318)
T PRK11537        165 EA--EKLRERLARINARAPVYTVVH-GDIDLSLLF  196 (318)
T ss_pred             HH--HHHHHHHHHhCCCCEEEEecc-CCCCHHHHh
Confidence            42  455666666667777776542 223444444

>KOG0469|consensus

Probab=97.83  E-value=0.0001  Score=63.93  Aligned_cols=118  Identities=19%  Similarity=0.327  Sum_probs=78.1

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCC-CC-------CCccccceeeeeeeEEc----------------------CC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDR-FI-------SRYKETVEELHRGEYEL----------------------PD   94 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~-~~-------~~~~~t~~~~~~~~~~~----------------------~~   94 (253)
                      ...+..++.+|.+..-|||||...|.... +.       ..+..|..+.+..-+++                      .|
T Consensus        15 k~~NiRNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d   94 (842)
T KOG0469|consen   15 KKKNIRNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGD   94 (842)
T ss_pred             cccccccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCC
Confidence            34566789999999999999999988321 11       11111111222111111                      14


Q ss_pred             CcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCC
Q psy549           95 GAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL  166 (253)
Q Consensus        95 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  166 (253)
                      +..+-+.++|.||+-.|.+.....++-.|++++|.|..+..-.+.-.-+.+.+..    ++--++|.||.|-
T Consensus        95 ~~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~E----RIkPvlv~NK~DR  162 (842)
T KOG0469|consen   95 GNGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAE----RIKPVLVMNKMDR  162 (842)
T ss_pred             CcceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHh----hccceEEeehhhH
Confidence            5567889999999999999999999999999999998876443332223333333    2444677999994

>cd03114 ArgK-like The function of this protein family is unkown

Probab=97.82  E-value=0.00017  Score=53.78  Aligned_cols=58  Identities=26%  Similarity=0.252  Sum_probs=36.1

Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCC
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE  165 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  165 (253)
                      .+.+.|+||+|...   ....++..+|-+++|..+.-.+...- .  ...+..     ..-++++||+|
T Consensus        91 ~~D~iiIDtaG~~~---~~~~~~~~Ad~~ivv~tpe~~D~y~~-~--k~~~~~-----~~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQ---SEVDIASMADTTVVVMAPGAGDDIQA-I--KAGIME-----IADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccCh---hhhhHHHhCCEEEEEECCCchhHHHH-h--hhhHhh-----hcCEEEEeCCC
Confidence            46788999988642   22347888999999998773322111 1  111222     23488899987

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.

>KOG1424|consensus

Probab=97.79  E-value=3.6e-05  Score=66.78  Aligned_cols=57  Identities=23%  Similarity=0.212  Sum_probs=41.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY  109 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~  109 (253)
                      ...+.|++||-|||||||+||.|++.+-  ++..++-|..++...+.-      .+.+.|+||.-
T Consensus       312 ~~~vtVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKHFQTi~ls~------~v~LCDCPGLV  370 (562)
T KOG1424|consen  312 KDVVTVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKHFQTIFLSP------SVCLCDCPGLV  370 (562)
T ss_pred             CceeEEEeecCCCCchhHHHHHHhcCceeeeecCCCCcceeEEEEcCC------CceecCCCCcc
Confidence            3479999999999999999999999885  344444444444443332      35789999943

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.78  E-value=4e-05  Score=62.84  Aligned_cols=58  Identities=29%  Similarity=0.406  Sum_probs=35.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC--CCCcccc-----ceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF--ISRYKET-----VEELHRGEYELPDGAQLTLDILDTSGAYQFP  112 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t-----~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~  112 (253)
                      ..+|+|++|||||||+|+|..+.-  +.+....     .-.....-+.++.| .   .+.||||..++.
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~g-G---~iiDTPGf~~~~  230 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGG-G---WIIDTPGFRSLG  230 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCC-C---EEEeCCCCCccC
Confidence            678999999999999999996332  1111111     11233334445322 2   388999987654

>PRK13695 putative NTPase; Provisional

Probab=97.77  E-value=0.0012  Score=50.52  Aligned_cols=22  Identities=18%  Similarity=0.398  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++|+|+|.+|+|||||+..+.+
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998754

>PRK00098 GTPase RsgA; Reviewed

Probab=97.77  E-value=3.9e-05  Score=64.03  Aligned_cols=25  Identities=28%  Similarity=0.444  Sum_probs=22.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ...++|+|++|+|||||+|.|++..
T Consensus       164 gk~~~~~G~sgvGKStlin~l~~~~  188 (298)
T PRK00098        164 GKVTVLAGQSGVGKSTLLNALAPDL  188 (298)
T ss_pred             CceEEEECCCCCCHHHHHHHHhCCc
Confidence            3478999999999999999999755

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.65  E-value=0.00059  Score=59.35  Aligned_cols=66  Identities=14%  Similarity=0.029  Sum_probs=38.4

Q ss_pred             EEEEEEEeCCCCCCChhhHHH----h--cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549           97 QLTLDILDTSGAYQFPAMREL----S--ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~----~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      .+.+.|+||+|..........    +  ....+-+++|.|+.-+..-....   ..+...   -.+-.+|+||.|...
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~a---~~F~~~---~~~~g~IlTKlD~~a  253 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQA---KAFKDS---VDVGSVIITKLDGHA  253 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHHHH---HHHHhc---cCCcEEEEECccCCC
Confidence            467889999996654322211    1  22467899999987654322211   222221   135678899999643

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.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=97.59  E-value=0.00091  Score=52.81  Aligned_cols=49  Identities=20%  Similarity=0.190  Sum_probs=31.5

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCC
Q psy549          116 ELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE  167 (253)
Q Consensus       116 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  167 (253)
                      +...+++|.+|+|.|++-. ++...++..+......  -.++.+|+||.|..
T Consensus       150 Rg~~~~vD~vivVvDpS~~-sl~taeri~~L~~elg--~k~i~~V~NKv~e~  198 (255)
T COG3640         150 RGTIEGVDLVIVVVDPSYK-SLRTAERIKELAEELG--IKRIFVVLNKVDEE  198 (255)
T ss_pred             cccccCCCEEEEEeCCcHH-HHHHHHHHHHHHHHhC--CceEEEEEeeccch
Confidence            3356779999999999754 4444333333222211  27999999999943

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.58  E-value=0.00063  Score=55.97  Aligned_cols=94  Identities=14%  Similarity=0.035  Sum_probs=64.0

Q ss_pred             hhHHHhcccCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHH-HHHHHHHhcCCCcEEE
Q psy549          113 AMRELSISTADAFVLVYAVDDAS-TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRRE-IAETIALYDWQCGFVE  190 (253)
Q Consensus       113 ~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~  190 (253)
                      .+....+.+.|-+++|+.+.+++ +..-+.+++-....   .++..++|+||+|+.+.+.... ....... ..+.+++.
T Consensus        71 ~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~---~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~-~~gy~v~~  146 (301)
T COG1162          71 VLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA---GGIEPVIVLNKIDLLDDEEAAVKELLREYE-DIGYPVLF  146 (301)
T ss_pred             ceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHH---cCCcEEEEEEccccCcchHHHHHHHHHHHH-hCCeeEEE
Confidence            33334455577777777777765 34445665554444   4577788899999988744442 2222332 57889999


Q ss_pred             eccCCCCCHHHHHHHHHHHH
Q psy549          191 CSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      +|++++.++.++...+...+
T Consensus       147 ~s~~~~~~~~~l~~~l~~~~  166 (301)
T COG1162         147 VSAKNGDGLEELAELLAGKI  166 (301)
T ss_pred             ecCcCcccHHHHHHHhcCCe
Confidence            99999999999998887654

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.56  E-value=0.0034  Score=53.44  Aligned_cols=102  Identities=18%  Similarity=0.076  Sum_probs=58.6

Q ss_pred             EEEEEEeCCCCCCChhhHHHhc-------ccCCEEEEEEECCChhh--H--------------------HHHHHHHHHHH
Q psy549           98 LTLDILDTSGAYQFPAMRELSI-------STADAFVLVYAVDDAST--W--------------------DVVKDLREQIV  148 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~-------~~~d~~i~v~d~~~~~s--~--------------------~~~~~~~~~~~  148 (253)
                      ....++++.|......+...+.       -..|++|.|.|+..-..  +                    ..+..++....
T Consensus        93 ~d~IvIEtsG~a~P~~i~~~~~~~~l~~~~~l~~vvtvVDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qi  172 (341)
T TIGR02475        93 PDHILIETSGLALPKPLVQAFQWPEIRSRVTVDGVVTVVDGPAVAAGRFAADPDALDAQRAADDNLDHETPLEELFEDQL  172 (341)
T ss_pred             CCEEEEeCCCCCCHHHHHHHhcCccccceEEeeeEEEEEECchhhhhccccchhhhhhhccccccccccchHHHHHHHHH
Confidence            4566889999887666665542       13578999999864211  0                    00111111111


Q ss_pred             HhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCC-CcEEEeccCCCCCHHHHHHH
Q psy549          149 NKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQ-CGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       149 ~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      ..     .=++|+||+|+.+..........+...... .+++++. ........+|+.
T Consensus       173 ~~-----AD~IvlnK~Dl~~~~~l~~~~~~l~~~~~~~a~i~~~~-~~~v~~~~ll~~  224 (341)
T TIGR02475       173 AC-----ADLVILNKADLLDAAGLARVRAEIAAELPRAVKIVEAS-HGEVDARVLLGL  224 (341)
T ss_pred             Hh-----CCEEEEeccccCCHHHHHHHHHHHHHhCCCCCEEEEcc-cCCCCHHHHhCC
Confidence            12     338899999988765555556666553343 3566654 334566666653

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.55  E-value=0.0017  Score=57.79  Aligned_cols=137  Identities=12%  Similarity=0.063  Sum_probs=68.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--------C--CC-C-cccc-------ceeeeeeeEEc-CC----------Cc
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--------F--IS-R-YKET-------VEELHRGEYEL-PD----------GA   96 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--------~--~~-~-~~~t-------~~~~~~~~~~~-~~----------~~   96 (253)
                      ...-.|+|+|+.|+||||++..|...-        .  .. + +...       ........+.. .+          -.
T Consensus       348 ~~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~  427 (559)
T PRK12727        348 ERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLR  427 (559)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhc
Confidence            345789999999999999998887421        1  11 0 0000       00000001111 00          12


Q ss_pred             EEEEEEEeCCCCCCChhhHHH---hcc--cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc
Q psy549           97 QLTLDILDTSGAYQFPAMREL---SIS--TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV  171 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~---~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  171 (253)
                      .+.+.|+||+|..........   .+.  .....++|++.+..  ...+...+..+..    ..+..+|+||.|....  
T Consensus       428 ~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAtss--~~Dl~eii~~f~~----~~~~gvILTKlDEt~~--  499 (559)
T PRK12727        428 DYKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANAH--FSDLDEVVRRFAH----AKPQGVVLTKLDETGR--  499 (559)
T ss_pred             cCCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCCC--hhHHHHHHHHHHh----hCCeEEEEecCcCccc--
Confidence            357889999996543322111   111  12345666666542  3333333333322    2467899999997442  


Q ss_pred             cHHHHHHHHHhcCCCcEEEecc
Q psy549          172 RREIAETIALYDWQCGFVECSA  193 (253)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~Sa  193 (253)
                      .-.....+..  .+.|+.+++.
T Consensus       500 lG~aLsv~~~--~~LPI~yvt~  519 (559)
T PRK12727        500 FGSALSVVVD--HQMPITWVTD  519 (559)
T ss_pred             hhHHHHHHHH--hCCCEEEEeC
Confidence            2333444443  4556655543

>KOG0465|consensus

Probab=97.54  E-value=0.0002  Score=63.53  Aligned_cols=118  Identities=17%  Similarity=0.179  Sum_probs=80.2

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC-----C--CCCccccc-----------eeeeeeeEEcCCCcEEEEEEEeCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR-----F--ISRYKETV-----------EELHRGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~-----~--~~~~~~t~-----------~~~~~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      ....-+|.|+-+-.+||||+-++.+...     +  +..- .++           .........+ ....+.+.++||||
T Consensus        36 ~~k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~-~a~md~m~~er~rgITiqSAAt~~-~w~~~~iNiIDTPG  113 (721)
T KOG0465|consen   36 LNKIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGG-GATMDSMELERQRGITIQSAATYF-TWRDYRINIIDTPG  113 (721)
T ss_pred             hhhhcccceEEEEecCCceeeheeeeecceeeeccccccC-ceeeehHHHHHhcCceeeeceeee-eeccceeEEecCCC
Confidence            3466789999999999999999987311     0  0000 000           0112221222 23357889999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      +-.|.-..+..++--|++++|++...+.--+...-|.+. .+   .++|-+.++||.|--..
T Consensus       114 HvDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ~-~r---y~vP~i~FiNKmDRmGa  171 (721)
T KOG0465|consen  114 HVDFTFEVERALRVLDGAVLVLDAVAGVESQTETVWRQM-KR---YNVPRICFINKMDRMGA  171 (721)
T ss_pred             ceeEEEEehhhhhhccCeEEEEEcccceehhhHHHHHHH-Hh---cCCCeEEEEehhhhcCC
Confidence            999988888899999999999998876543444445443 33   45899999999996554

>KOG0085|consensus

Probab=97.54  E-value=0.00018  Score=56.48  Aligned_cols=118  Identities=13%  Similarity=0.057  Sum_probs=67.6

Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChh----------hHHHHHHHHHHHHH-hcCCCCCEEEEEecCC
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAS----------TWDVVKDLREQIVN-KRGLMVPIVVVGNKCE  165 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~----------s~~~~~~~~~~~~~-~~~~~~piilv~nK~D  165 (253)
                      .+.|.++|++|+..-+..|-..++++-.++++..++.-+          -.+.-..++.-+.. .-=.+.++++++||-|
T Consensus       198 ~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLNKkD  277 (359)
T KOG0085|consen  198 KIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKD  277 (359)
T ss_pred             hheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEechhh
Confidence            455678888888877777777777766665555443211          01110111111111 0013579999999999


Q ss_pred             CCCcc-----------------ccHHHHHHHH-----HhcCC----CcEEEeccCCCCCHHHHHHHHHHHHHHhc
Q psy549          166 LEFKD-----------------VRREIAETIA-----LYDWQ----CGFVECSAKENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       166 l~~~~-----------------~~~~~~~~~~-----~~~~~----~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  214 (253)
                      +....                 ...+.++.+-     ..+..    +.-..++|.+-.||.-+|..+.+.++..+
T Consensus       278 lLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq~~  352 (359)
T KOG0085|consen  278 LLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLN  352 (359)
T ss_pred             hhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHHhh
Confidence            86541                 1222233222     21211    22356889999999999999998887653

>KOG3859|consensus

Probab=97.51  E-value=0.0002  Score=57.74  Aligned_cols=60  Identities=20%  Similarity=0.313  Sum_probs=41.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEc---CCCcEEEEEEEeCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYEL---PDGAQLTLDILDTSG  107 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~---~~~~~~~~~l~D~~g  107 (253)
                      -.++|+-||..|.|||||+..|++-.+.....+... .......++   ..+..++++++||.|
T Consensus        41 F~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvG  104 (406)
T KOG3859|consen   41 FCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVG  104 (406)
T ss_pred             ceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecc
Confidence            468999999999999999999999887543332221 222222222   034567899999998

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.51  E-value=0.0016  Score=55.84  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=21.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-.|+|+|++|+||||++..|..
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~  159 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAA  159 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            345888999999999999999875

>KOG0459|consensus

Probab=97.51  E-value=0.00018  Score=60.76  Aligned_cols=157  Identities=18%  Similarity=0.164  Sum_probs=92.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC----------------------C--CC--Cccccce----eeeeeeEEcCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR----------------------F--IS--RYKETVE----ELHRGEYELPDG   95 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~----------------------~--~~--~~~~t~~----~~~~~~~~~~~~   95 (253)
                      .+..++++|+|...+||||+-..++...                      +  ..  +.....+    +...+...+ ..
T Consensus        76 pk~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~F-Et  154 (501)
T KOG0459|consen   76 PKEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYF-ET  154 (501)
T ss_pred             CCCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEE-Ee
Confidence            4678999999999999999887776211                      0  00  0000000    111122222 33


Q ss_pred             cEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChh---hHHH--HHHHHHHHHHhcCCCCCEEEEEecCCCCCcc
Q psy549           96 AQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAS---TWDV--VKDLREQIVNKRGLMVPIVVVGNKCELEFKD  170 (253)
Q Consensus        96 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~--~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  170 (253)
                      ..-++++.|.||+..|....-.-..+||..++|.++--.+   -|+.  ..+-...+... ..-...++++||.|-+..+
T Consensus       155 e~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt-~gv~~lVv~vNKMddPtvn  233 (501)
T KOG0459|consen  155 ENKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT-AGVKHLIVLINKMDDPTVN  233 (501)
T ss_pred             cceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHh-hccceEEEEEEeccCCccC
Confidence            3457899999999988776666677889999998875432   1222  11122222222 1335778999999987763


Q ss_pred             ccHHHHHH--------HHHh----cCCCcEEEeccCCCCCHHHHHH
Q psy549          171 VRREIAET--------IALY----DWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       171 ~~~~~~~~--------~~~~----~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      -..+..+.        +...    .....++++|..+|.++.+..+
T Consensus       234 Ws~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~  279 (501)
T KOG0459|consen  234 WSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD  279 (501)
T ss_pred             cchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc
Confidence            22222222        1111    1235689999999999987654

>KOG1534|consensus

Probab=97.49  E-value=0.00087  Score=52.00  Aligned_cols=119  Identities=13%  Similarity=0.121  Sum_probs=63.9

Q ss_pred             EEEEEeCCCCCCCh---hhHHHhccc------CCEEEEEEECCC-hhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549           99 TLDILDTSGAYQFP---AMRELSIST------ADAFVLVYAVDD-ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus        99 ~~~l~D~~g~~~~~---~~~~~~~~~------~d~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      .+-++|+||+.+.-   ...+..++.      -=+++++.+..= -++...+..-+..+.......+|.+-|++|.|+..
T Consensus        99 dylifDcPGQIELytH~pVm~~iv~hl~~~~F~~c~Vylldsqf~vD~~KfiSG~lsAlsAMi~lE~P~INvlsKMDLlk  178 (273)
T KOG1534|consen   99 DYLIFDCPGQIELYTHLPVMPQIVEHLKQWNFNVCVVYLLDSQFLVDSTKFISGCLSALSAMISLEVPHINVLSKMDLLK  178 (273)
T ss_pred             CEEEEeCCCeeEEeecChhHHHHHHHHhcccCceeEEEEeccchhhhHHHHHHHHHHHHHHHHHhcCcchhhhhHHHHhh
Confidence            45699999987631   111222221      123444444321 11222233344445555556789999999999865


Q ss_pred             cccc-------------------------------HHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHHhcccC
Q psy549          169 KDVR-------------------------------REIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLS  217 (253)
Q Consensus       169 ~~~~-------------------------------~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~~~  217 (253)
                      ....                               ..++..+.. ..-+.+++....+.+.|..++..|-..+.--...+
T Consensus       179 ~~~k~~l~~Fl~~d~~~l~~~~~~~~~s~Kf~~L~~~i~~~v~d-~~Mv~FlPl~~~~eeSi~~iL~~ID~aiQy~Ed~E  257 (273)
T KOG1534|consen  179 DKNKKELERFLNPDEYLLLEDSEINLRSPKFKKLTKCIAQLVDD-YSMVNFLPLDSSDEESINIILSYIDDAIQYGEDLE  257 (273)
T ss_pred             hhhHHHHHHhcCCchhhhhcccccccccHHHHHHHHHHHHHhcc-ccceeeeecCCCCHHHHHHHHHHHHHHHHhccccC
Confidence            4100                               011111111 33456777877777888888888777775543333


Q ss_pred             h
Q psy549          218 P  218 (253)
Q Consensus       218 ~  218 (253)
                      +
T Consensus       258 ~  258 (273)
T KOG1534|consen  258 P  258 (273)
T ss_pred             c
Confidence            3

>KOG0099|consensus

Probab=97.47  E-value=0.00053  Score=54.85  Aligned_cols=71  Identities=17%  Similarity=0.206  Sum_probs=48.2

Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChh-------h---HHHHHHHHHHHHHhc-CCCCCEEEEEecCC
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAS-------T---WDVVKDLREQIVNKR-GLMVPIVVVGNKCE  165 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~-------s---~~~~~~~~~~~~~~~-~~~~piilv~nK~D  165 (253)
                      .++|+.+|++|+..-+..|-..+.++.++|+|...+.-.       +   +.....+...+..++ -..+.+++++||.|
T Consensus       201 kv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKqD  280 (379)
T KOG0099|consen  201 KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQD  280 (379)
T ss_pred             ccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHHH
Confidence            367899999999999999999999999999999876411       0   111111122222211 12368899999999


Q ss_pred             CC
Q psy549          166 LE  167 (253)
Q Consensus       166 l~  167 (253)
                      +.
T Consensus       281 ll  282 (379)
T KOG0099|consen  281 LL  282 (379)
T ss_pred             HH
Confidence            74

>KOG2484|consensus

Probab=97.42  E-value=0.00018  Score=60.65  Aligned_cols=59  Identities=27%  Similarity=0.298  Sum_probs=41.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      .+..++++|+|-|++||||+||+|.......--...........+.. |.   .+.|.|.||.
T Consensus       249 lk~sIrvGViG~PNVGKSSvINsL~~~k~C~vg~~pGvT~smqeV~L-dk---~i~llDsPgi  307 (435)
T KOG2484|consen  249 LKTSIRVGIIGYPNVGKSSVINSLKRRKACNVGNVPGVTRSMQEVKL-DK---KIRLLDSPGI  307 (435)
T ss_pred             cCcceEeeeecCCCCChhHHHHHHHHhccccCCCCccchhhhhheec-cC---CceeccCCce
Confidence            47789999999999999999999998775322212222344445555 32   4679999994

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.39  E-value=0.0018  Score=49.39  Aligned_cols=66  Identities=17%  Similarity=0.123  Sum_probs=37.7

Q ss_pred             EEEEEEeCCCCCCChhhHH----Hh--cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549           98 LTLDILDTSGAYQFPAMRE----LS--ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~----~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      +.+.++|++|...+.....    .+  ....+.+++|++......  .+ .+...+....  + ...+|.||.|....
T Consensus        83 ~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~--~~-~~~~~~~~~~--~-~~~viltk~D~~~~  154 (173)
T cd03115          83 FDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD--AV-NQAKAFNEAL--G-ITGVILTKLDGDAR  154 (173)
T ss_pred             CCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH--HH-HHHHHHHhhC--C-CCEEEEECCcCCCC
Confidence            4567899999753321111    11  124899999999865432  22 3333333222  2 35677899997653

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.

>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=97.37  E-value=0.0017  Score=39.50  Aligned_cols=47  Identities=21%  Similarity=0.199  Sum_probs=30.3

Q ss_pred             hcccCCEEEEEEECCC--hhhHHHHHHHHHHHHHhcCCCCCEEEEEecCC
Q psy549          118 SISTADAFVLVYAVDD--ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE  165 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~--~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  165 (253)
                      .-...++++|++|++.  +-+.+.....+..+.... .+.|+++|+||+|
T Consensus        10 L~hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F-~~~P~i~V~nK~D   58 (58)
T PF06858_consen   10 LAHLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF-PNKPVIVVLNKID   58 (58)
T ss_dssp             GGGT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT-TTS-EEEEE--TT
T ss_pred             HHhhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc-CCCCEEEEEeccC
Confidence            3456899999999986  346666666777777654 4789999999998

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.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.36  E-value=0.0028  Score=54.25  Aligned_cols=113  Identities=19%  Similarity=0.253  Sum_probs=60.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccc-------------------eeeeeeeEEcC-----------CCcEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETV-------------------EELHRGEYELP-----------DGAQL   98 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~-------------------~~~~~~~~~~~-----------~~~~~   98 (253)
                      .-.|++|||.||||||-+-.|.............                   .+...-.+...           .-..+
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~  282 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDC  282 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcC
Confidence            6789999999999999887766433200000000                   00111111110           12235


Q ss_pred             EEEEEeCCCCCCChhhHHH----hccc--CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCE-EEEEecCCCCC
Q psy549           99 TLDILDTSGAYQFPAMREL----SIST--ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI-VVVGNKCELEF  168 (253)
Q Consensus        99 ~~~l~D~~g~~~~~~~~~~----~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~  168 (253)
                      ++.|+||.|...++.....    ++..  ..-+.+|++++..  ..++...+..+..     +|+ -+++||.|-..
T Consensus       283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K--~~dlkei~~~f~~-----~~i~~~I~TKlDET~  352 (407)
T COG1419         283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTK--YEDLKEIIKQFSL-----FPIDGLIFTKLDETT  352 (407)
T ss_pred             CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcc--hHHHHHHHHHhcc-----CCcceeEEEcccccC
Confidence            7789999998776544432    2222  2344556666653  2344444443322     233 66789999654

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.33  E-value=0.0015  Score=56.87  Aligned_cols=24  Identities=17%  Similarity=0.292  Sum_probs=21.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-.|+|+|++|+||||++..|.+
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~  213 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAA  213 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998765

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.32  E-value=0.0023  Score=61.97  Aligned_cols=113  Identities=17%  Similarity=0.142  Sum_probs=60.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCC--CCccccc-eeeeeee--EEcCCCcEEEEEEEeCCCCCC--------ChhhHHH
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFI--SRYKETV-EELHRGE--YELPDGAQLTLDILDTSGAYQ--------FPAMREL  117 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~--~~~~~t~-~~~~~~~--~~~~~~~~~~~~l~D~~g~~~--------~~~~~~~  117 (253)
                      =-+|||++|+||||++.. .+..|+  ....... .......  -.+ ...   -.++||+|...        -...|..
T Consensus       127 Wy~viG~pgsGKTtal~~-sgl~Fpl~~~~~~~~~~~~gT~~cdwwf-~de---aVlIDtaGry~~q~s~~~~~~~~W~~  201 (1188)
T COG3523         127 WYMVIGPPGSGKTTALLN-SGLQFPLAEQMGALGLAGPGTRNCDWWF-TDE---AVLIDTAGRYITQDSADEVDRAEWLG  201 (1188)
T ss_pred             ceEEecCCCCCcchHHhc-ccccCcchhhhccccccCCCCcccCccc-ccc---eEEEcCCcceecccCcchhhHHHHHH
Confidence            357889999999999854 333332  1000000 0110111  112 222   23788888332        2233333


Q ss_pred             h---------cccCCEEEEEEECCChhhHH-----H----HHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549          118 S---------ISTADAFVLVYAVDDASTWD-----V----VKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus       118 ~---------~~~~d~~i~v~d~~~~~s~~-----~----~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      +         .+..+++|+..|+.+--.-.     .    +..=+.++...-.-..||.+++||.|+..
T Consensus       202 fL~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~  270 (1188)
T COG3523         202 FLGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLP  270 (1188)
T ss_pred             HHHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEecccccc
Confidence            2         34479999999987532111     1    11123334444446799999999999875

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.31  E-value=0.0026  Score=54.67  Aligned_cols=22  Identities=18%  Similarity=0.502  Sum_probs=20.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHH
Q psy549           49 KRRVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~   70 (253)
                      ...|+|+|+.|+||||++..|.
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA  262 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMA  262 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHH
Confidence            3689999999999999999986

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.29  E-value=0.0025  Score=52.59  Aligned_cols=63  Identities=16%  Similarity=0.113  Sum_probs=42.9

Q ss_pred             chhhhhhcccccccccccccccccccCCCCCCCCCCCCCCCCCCCcceEEEECCCCCCHHHHHHHHHhCCC
Q psy549            4 KKQDLDKGLQTDYRKMPGACERLRLHSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRF   74 (253)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~   74 (253)
                      .+++...+....|..++.+.+-+....--.        ..+......+++|+|++|.|||+++++|.....
T Consensus        24 ~~eRI~~i~~~rWIgY~~A~~~L~~L~~Ll--------~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp   86 (302)
T PF05621_consen   24 DEERIAYIRADRWIGYPRAKEALDRLEELL--------EYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHP   86 (302)
T ss_pred             HHHHHHHHhcCCeecCHHHHHHHHHHHHHH--------hCCcccCCCceEEecCCCCcHHHHHHHHHHHCC
Confidence            456667777888888887764442211000        112234557899999999999999999998654

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.26  E-value=0.00025  Score=50.70  Aligned_cols=22  Identities=18%  Similarity=0.370  Sum_probs=20.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .|+|.|++||||||+++.|...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999875

...

>KOG0447|consensus

Probab=97.26  E-value=0.0092  Score=52.77  Aligned_cols=68  Identities=13%  Similarity=0.184  Sum_probs=41.6

Q ss_pred             EEEEEeCCCCCC-------------ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHH-HhcCCCCCEEEEEecC
Q psy549           99 TLDILDTSGAYQ-------------FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV-NKRGLMVPIVVVGNKC  164 (253)
Q Consensus        99 ~~~l~D~~g~~~-------------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~piilv~nK~  164 (253)
                      ++.++|.||...             ...+...++.+..++|+|+--..-+.   -......+- .....+...|+|++|.
T Consensus       413 RMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDA---ERSnVTDLVsq~DP~GrRTIfVLTKV  489 (980)
T KOG0447|consen  413 RMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDA---ERSIVTDLVSQMDPHGRRTIFVLTKV  489 (980)
T ss_pred             eeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcch---hhhhHHHHHHhcCCCCCeeEEEEeec
Confidence            356889999321             23445567889999999874332211   111222222 2333567889999999


Q ss_pred             CCCCc
Q psy549          165 ELEFK  169 (253)
Q Consensus       165 Dl~~~  169 (253)
                      |+...
T Consensus       490 DlAEk  494 (980)
T KOG0447|consen  490 DLAEK  494 (980)
T ss_pred             chhhh
Confidence            99876

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.26  E-value=0.004  Score=42.05  Aligned_cols=69  Identities=19%  Similarity=0.265  Sum_probs=44.9

Q ss_pred             EEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh-HHHhcccCCEEEEEEE
Q psy549           52 VVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM-RELSISTADAFVLVYA  130 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~-~~~~~~~~d~~i~v~d  130 (253)
                      |++.|..|+||||+...+...--..         ......+ +    .+.++|+++....... .......+|.++++.+
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~---------g~~v~~~-~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~   67 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKR---------GKRVLLI-D----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTT   67 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC---------CCeEEEE-C----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecC
Confidence            6788999999999998877532110         1122223 2    5679999876543321 1345667899999998


Q ss_pred             CCCh
Q psy549          131 VDDA  134 (253)
Q Consensus       131 ~~~~  134 (253)
                      ....
T Consensus        68 ~~~~   71 (99)
T cd01983          68 PEAL   71 (99)
T ss_pred             Cchh
Confidence            7654

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.25  E-value=0.0023  Score=46.60  Aligned_cols=26  Identities=15%  Similarity=0.414  Sum_probs=22.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF   74 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~   74 (253)
                      ...++|.|++|+|||+|++.+...-.
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~~   44 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANELF   44 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhh
Confidence            35799999999999999999987653

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>TIGR00959 ffh signal recognition particle protein

Probab=97.19  E-value=0.0017  Score=56.73  Aligned_cols=65  Identities=18%  Similarity=0.106  Sum_probs=37.9

Q ss_pred             EEEEEEeCCCCCCChhhHHH------hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549           98 LTLDILDTSGAYQFPAMREL------SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~------~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      +.+.|+||+|........-.      ..-..+.+++|.|+....   ....+...+....   ...-+|.||.|...
T Consensus       183 ~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq---~~~~~a~~f~~~v---~i~giIlTKlD~~~  253 (428)
T TIGR00959       183 FDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQ---DAVNTAKTFNERL---GLTGVVLTKLDGDA  253 (428)
T ss_pred             CCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchH---HHHHHHHHHHhhC---CCCEEEEeCccCcc
Confidence            56789999996544222111      123478889999987543   3333333333221   13477799999543

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.

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.18  E-value=0.0046  Score=42.83  Aligned_cols=82  Identities=18%  Similarity=0.169  Sum_probs=48.7

Q ss_pred             EEEEC-CCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           52 VVVMG-GARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        52 I~iiG-~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      |+|.| ..|+||||+...+...--....       ....+.. |. .+.+.++|+|+....  .....+..+|.++++.+
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~~~~~-------~vl~~d~-d~-~~d~viiD~p~~~~~--~~~~~l~~ad~viv~~~   70 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALARRGK-------RVLLIDL-DP-QYDYIIIDTPPSLGL--LTRNALAAADLVLIPVQ   70 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHhCCC-------cEEEEeC-CC-CCCEEEEeCcCCCCH--HHHHHHHHCCEEEEecc
Confidence            56777 6799999988766532110100       0011111 11 156789999886532  23367778999999997


Q ss_pred             CCChhhHHHHHHHHH
Q psy549          131 VDDASTWDVVKDLRE  145 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~  145 (253)
                      .+ ..++..+..+++
T Consensus        71 ~~-~~s~~~~~~~~~   84 (104)
T cd02042          71 PS-PLDLDGLEKLLE   84 (104)
T ss_pred             CC-HHHHHHHHHHHH
Confidence            75 445555555554

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>PRK08118 topology modulation protein; Reviewed

Probab=97.17  E-value=0.00036  Score=53.12  Aligned_cols=23  Identities=22%  Similarity=0.505  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .+|+|+|++|||||||...|...
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999998864

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.17  E-value=0.0053  Score=45.16  Aligned_cols=103  Identities=17%  Similarity=0.150  Sum_probs=61.0

Q ss_pred             EEECCCCCCHHHHHHHHHhCCCCCCccccc-e--eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           53 VVMGGARVGKSSIISQFLYDRFISRYKETV-E--ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        53 ~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~-~--~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      ..-|.+|+|||++.-.+...--.... .+. .  +.....+      .+.+.++|+|+..  .......+..+|.++++.
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~~~~~-~~~~vd~D~~~~~~------~yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~   74 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALAKLGK-RVLLLDADLGLANL------DYDYIIIDTGAGI--SDNVLDFFLAADEVIVVT   74 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHHHCCC-cEEEEECCCCCCCC------CCCEEEEECCCCC--CHHHHHHHHhCCeEEEEc
Confidence            35578999999998766532110000 000 0  1111111      1567899998753  334456788999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCC
Q psy549          130 AVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL  166 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  166 (253)
                      +.+. .++......+..+.... ...++.+|+|+++.
T Consensus        75 ~~~~-~s~~~~~~~l~~l~~~~-~~~~~~lVvN~~~~  109 (139)
T cd02038          75 TPEP-TSITDAYALIKKLAKQL-RVLNFRVVVNRAES  109 (139)
T ss_pred             CCCh-hHHHHHHHHHHHHHHhc-CCCCEEEEEeCCCC
Confidence            8864 34444444444443322 34678899999974

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.13  E-value=0.00041  Score=53.31  Aligned_cols=23  Identities=22%  Similarity=0.501  Sum_probs=21.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .+|+|+|+|||||||+..+|...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999999876

>PRK07261 topology modulation protein; Provisional

Probab=97.11  E-value=0.00044  Score=52.87  Aligned_cols=22  Identities=18%  Similarity=0.434  Sum_probs=19.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      +|+|+|.+|+|||||++.+...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7999999999999999998653

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.11  E-value=0.00057  Score=42.52  Aligned_cols=21  Identities=19%  Similarity=0.349  Sum_probs=19.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..+|.|+.|+|||||+.++..
T Consensus        25 ~tli~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999874

>PRK10867 signal recognition particle protein; Provisional

Probab=97.08  E-value=0.0026  Score=55.64  Aligned_cols=65  Identities=14%  Similarity=0.067  Sum_probs=36.1

Q ss_pred             EEEEEEeCCCCCCChhh-HHH---h--cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549           98 LTLDILDTSGAYQFPAM-REL---S--ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~-~~~---~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      +.+.|+||+|....... ...   +  .-..+.+++|.|+...+   +.......+....   ...-+|+||.|...
T Consensus       184 ~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq---~av~~a~~F~~~~---~i~giIlTKlD~~~  254 (433)
T PRK10867        184 YDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQ---DAVNTAKAFNEAL---GLTGVILTKLDGDA  254 (433)
T ss_pred             CCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHH---HHHHHHHHHHhhC---CCCEEEEeCccCcc
Confidence            56889999996543221 111   1  12467789999987543   2222333333211   13367789999643

>KOG4273|consensus

Probab=97.08  E-value=0.0029  Score=50.39  Aligned_cols=117  Identities=15%  Similarity=0.183  Sum_probs=67.2

Q ss_pred             CcceEEEECCCCC--CHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEE--EEEEEeCCCCCCChhhHHHhcccC
Q psy549           48 DKRRVVVMGGARV--GKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQL--TLDILDTSGAYQFPAMRELSISTA  122 (253)
Q Consensus        48 ~~~~I~iiG~~~~--GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~--~~~l~D~~g~~~~~~~~~~~~~~~  122 (253)
                      ....++++|-+|+  ||-+|+.+|....+.....+... .++..++   +.+.+  .+.+.=.+--+++.--.....+..
T Consensus         3 ~rp~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hgwti---d~kyysadi~lcishicde~~lpn~~~a~pl   79 (418)
T KOG4273|consen    3 GRPCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHGWTI---DNKYYSADINLCISHICDEKFLPNAEIAEPL   79 (418)
T ss_pred             CCceEEEecccccccchHHHHHHhcchhheeeccccCceeeeceEe---cceeeecceeEEeecccchhccCCcccccce
Confidence            3467889999999  99999999998877433322222 2333332   22221  111111111122211112233456


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      .++++|||.+....+..+..|+.-...+. .+ -++.++||.|...+
T Consensus        80 ~a~vmvfdlse~s~l~alqdwl~htdins-fd-illcignkvdrvph  124 (418)
T KOG4273|consen   80 QAFVMVFDLSEKSGLDALQDWLPHTDINS-FD-ILLCIGNKVDRVPH  124 (418)
T ss_pred             eeEEEEEeccchhhhHHHHhhcccccccc-ch-hheecccccccccc
Confidence            79999999999988888888875332211 11 23667899996543

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.03  E-value=0.00052  Score=50.51  Aligned_cols=21  Identities=19%  Similarity=0.412  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+++|+||||||||++.+...
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998843

...

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.03  E-value=0.0023  Score=46.54  Aligned_cols=25  Identities=20%  Similarity=0.361  Sum_probs=21.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .-.|++.|+.|+|||||++.+...-
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3469999999999999999998753

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.02  E-value=0.00054  Score=54.66  Aligned_cols=22  Identities=23%  Similarity=0.311  Sum_probs=19.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -|+|+|++|||||||++.+.+-
T Consensus        31 fvsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999988863

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.02  E-value=0.0017  Score=56.95  Aligned_cols=23  Identities=13%  Similarity=0.351  Sum_probs=20.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~   70 (253)
                      ....|+|+|++|+||||++..|.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA  116 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLA  116 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHH
Confidence            45789999999999999998876

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.02  E-value=0.00074  Score=43.26  Aligned_cols=21  Identities=24%  Similarity=0.547  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |++.|++|+||||+.+.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998865

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>KOG1533|consensus

Probab=97.01  E-value=0.0007  Score=53.37  Aligned_cols=69  Identities=16%  Similarity=0.189  Sum_probs=38.9

Q ss_pred             EEEEEEeCCCCCCC----hhhHHH--hcccCCEEEEEEECC------ChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCC
Q psy549           98 LTLDILDTSGAYQF----PAMREL--SISTADAFVLVYAVD------DASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE  165 (253)
Q Consensus        98 ~~~~l~D~~g~~~~----~~~~~~--~~~~~d~~i~v~d~~------~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  165 (253)
                      -.+-++|+||+-++    ..++..  .++.-+.-+.+..+.      ++..|-.  .++..+.-..--..|-+=|+.|+|
T Consensus        97 ~~Y~lFDcPGQVELft~h~~l~~I~~~Lek~~~rl~~V~LiDs~ycs~p~~~iS--~lL~sl~tMl~melphVNvlSK~D  174 (290)
T KOG1533|consen   97 DHYVLFDCPGQVELFTHHDSLNKIFRKLEKLDYRLVAVNLIDSHYCSDPSKFIS--SLLVSLATMLHMELPHVNVLSKAD  174 (290)
T ss_pred             CcEEEEeCCCcEEEEeccchHHHHHHHHHHcCceEEEEEeeeceeeCChHHHHH--HHHHHHHHHHhhcccchhhhhHhH
Confidence            35679999998763    222222  344456555555544      3444433  222222222224579999999999


Q ss_pred             CCC
Q psy549          166 LEF  168 (253)
Q Consensus       166 l~~  168 (253)
                      +..
T Consensus       175 l~~  177 (290)
T KOG1533|consen  175 LLK  177 (290)
T ss_pred             HHH
Confidence            754

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.97  E-value=0.0027  Score=54.26  Aligned_cols=24  Identities=21%  Similarity=0.519  Sum_probs=20.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-.|+|+|+.|+||||++..+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~  228 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGW  228 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345789999999999999998873

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.96  E-value=0.007  Score=46.49  Aligned_cols=26  Identities=12%  Similarity=0.220  Sum_probs=22.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.++|+|++|+|||||++.+.+-.
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            44589999999999999999888754

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.94  E-value=0.00054  Score=51.85  Aligned_cols=22  Identities=32%  Similarity=0.681  Sum_probs=18.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ||+|+|.+++|||||++.|...
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7999999999999999999866

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.92  E-value=0.0097  Score=53.38  Aligned_cols=22  Identities=14%  Similarity=0.347  Sum_probs=18.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -.++.||+|+||||.++.|...
T Consensus        47 iLlLtGP~G~GKtttv~~La~e   68 (519)
T PF03215_consen   47 ILLLTGPSGCGKTTTVKVLAKE   68 (519)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4567899999999999988854

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.91  E-value=0.00075  Score=53.50  Aligned_cols=23  Identities=22%  Similarity=0.255  Sum_probs=19.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      =-|+|+|++|||||||+|-+-+-
T Consensus        32 e~vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          32 EFVAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            36899999999999999987653

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.91  E-value=0.00078  Score=49.22  Aligned_cols=25  Identities=20%  Similarity=0.234  Sum_probs=21.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .=.++|+|++|+|||||++.+.+..
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEEccCCCccccceeeecccc
Confidence            3478999999999999999888764

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.89  E-value=0.0011  Score=51.81  Aligned_cols=40  Identities=20%  Similarity=0.134  Sum_probs=27.6

Q ss_pred             HHHHHHHHHhcCCCcEE--EeccCCCCCHHHHHHHHHHHHHHh
Q psy549          173 REIAETIALYDWQCGFV--ECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       173 ~~~~~~~~~~~~~~~~~--~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ..+++.++- ...+-.|  +|||.+++-+.|+++.|.+.+.+-
T Consensus       145 VAIARALaM-~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eG  186 (240)
T COG1126         145 VAIARALAM-DPKVMLFDEPTSALDPELVGEVLDVMKDLAEEG  186 (240)
T ss_pred             HHHHHHHcC-CCCEEeecCCcccCCHHHHHHHHHHHHHHHHcC
Confidence            445555554 3333222  389999999999999998887654

>KOG2485|consensus

Probab=96.89  E-value=0.0025  Score=52.34  Aligned_cols=62  Identities=19%  Similarity=0.306  Sum_probs=39.4

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCC-------CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRF-------ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY  109 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~-------~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~  109 (253)
                      ....++++.|+|-||+|||||+|++.....       +...+..+.... ..+.+.+..  .+.+.||||.-
T Consensus       139 t~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~-~~iri~~rp--~vy~iDTPGil  207 (335)
T KOG2485|consen  139 TLNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVS-ERIRISHRP--PVYLIDTPGIL  207 (335)
T ss_pred             ccCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeeh-hheEeccCC--ceEEecCCCcC
Confidence            356789999999999999999999875332       222333333222 223332332  36789999943

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=96.87  E-value=0.003  Score=48.31  Aligned_cols=57  Identities=19%  Similarity=0.184  Sum_probs=35.2

Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHH
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL  181 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~  181 (253)
                      |++++|.|+.++.+..+ ..+...+. ....+.|+++|+||+|+.+........+.+..
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~-l~~~~kp~IlVlNK~DL~~~~~l~~~~~~~~~   57 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVL-QAGGNKKLVLVLNKIDLVPKENVEKWLKYLRR   57 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHH-hccCCCCEEEEEehhhcCCHHHHHHHHHHHHh
Confidence            78999999988643221 22222221 12245899999999999765444445555544

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

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.87  E-value=0.0025  Score=50.22  Aligned_cols=26  Identities=23%  Similarity=0.365  Sum_probs=21.9

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ....-|+|+|++|||||||++.|...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            34567889999999999999999754

>KOG2423|consensus

Probab=96.84  E-value=0.00087  Score=56.73  Aligned_cols=57  Identities=21%  Similarity=0.236  Sum_probs=0.0

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      ..+..+-|+|||-||+||||+||.|-..+.  +...+..+.-.++.++.-      ++-++|+||
T Consensus       303 ~dkkqISVGfiGYPNvGKSSiINTLR~KkVCkvAPIpGETKVWQYItLmk------rIfLIDcPG  361 (572)
T KOG2423|consen  303 SDKKQISVGFIGYPNVGKSSIINTLRKKKVCKVAPIPGETKVWQYITLMK------RIFLIDCPG  361 (572)
T ss_pred             cCccceeeeeecCCCCchHHHHHHHhhcccccccCCCCcchHHHHHHHHh------ceeEecCCC

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.81  E-value=0.022  Score=49.46  Aligned_cols=23  Identities=22%  Similarity=0.413  Sum_probs=20.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|++||||||++..|..
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~  245 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAA  245 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999999874

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.78  E-value=0.017  Score=51.29  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      --|+|+|+.||||||++..|..
T Consensus       257 ~Vi~LvGpnGvGKTTTiaKLA~  278 (484)
T PRK06995        257 GVFALMGPTGVGKTTTTAKLAA  278 (484)
T ss_pred             cEEEEECCCCccHHHHHHHHHH
Confidence            5799999999999999998884

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.78  E-value=0.0015  Score=51.48  Aligned_cols=26  Identities=23%  Similarity=0.400  Sum_probs=23.0

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .....|+|.|++|||||||++.|...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999998864

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=96.77  E-value=0.0013  Score=47.36  Aligned_cols=22  Identities=14%  Similarity=0.277  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHhCC
Q psy549           52 VVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      |++.|++|+|||++++.+...-
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            6899999999999999988753

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=96.77  E-value=0.0022  Score=52.73  Aligned_cols=25  Identities=16%  Similarity=0.500  Sum_probs=22.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..-.|+|.|++|+||||+++.++..
T Consensus       126 ~~~~ili~G~tGSGKTT~l~all~~  150 (270)
T PF00437_consen  126 GRGNILISGPTGSGKTTLLNALLEE  150 (270)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCccccchHHHHHhhh
Confidence            3678999999999999999999863

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>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=96.76  E-value=0.015  Score=40.52  Aligned_cols=99  Identities=15%  Similarity=0.080  Sum_probs=57.0

Q ss_pred             ECCCCCCHHHHHHHHHhCCCCC-CccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCC
Q psy549           55 MGGARVGKSSIISQFLYDRFIS-RYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDD  133 (253)
Q Consensus        55 iG~~~~GKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~  133 (253)
                      =+..|+||||+...|...--.. ...--..+....   .    ...+.++|+|+...  ......+..+|.++++.+.+.
T Consensus         6 ~~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~d~~---~----~~D~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~~~   76 (106)
T cd03111           6 GAKGGVGATTLAANLAVALAKEAGRRVLLVDLDLQ---F----GDDYVVVDLGRSLD--EVSLAALDQADRVFLVTQQDL   76 (106)
T ss_pred             CCCCCCcHHHHHHHHHHHHHhcCCCcEEEEECCCC---C----CCCEEEEeCCCCcC--HHHHHHHHHcCeEEEEecCCh
Confidence            3678999999876665321100 000000000000   0    01567999988653  334456788999999987754


Q ss_pred             hhhHHHHHHHHHHHHHhcCC-CCCEEEEEec
Q psy549          134 ASTWDVVKDLREQIVNKRGL-MVPIVVVGNK  163 (253)
Q Consensus       134 ~~s~~~~~~~~~~~~~~~~~-~~piilv~nK  163 (253)
                       .+......+...+.....+ ...+.+|+|+
T Consensus        77 -~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          77 -PSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             -HHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence             4556667777666664433 4567777775

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.74  E-value=0.012  Score=46.16  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=20.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      -|+|+|++|+||||+++.++...
T Consensus         3 lilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999987644

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.74  E-value=0.0014  Score=48.27  Aligned_cols=22  Identities=27%  Similarity=0.543  Sum_probs=20.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .|+|+|+.|+|||||++.|++.
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~   23 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINE   23 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999864

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.72  E-value=0.0014  Score=52.56  Aligned_cols=27  Identities=37%  Similarity=0.658  Sum_probs=23.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ....++++|+|++|||||+|+-.++..
T Consensus        10 ~~~~fr~viIG~sGSGKT~li~~lL~~   36 (241)
T PF04665_consen   10 LKDPFRMVIIGKSGSGKTTLIKSLLYY   36 (241)
T ss_pred             cCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            456789999999999999999998854

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK06217 hypothetical protein; Validated

Probab=96.72  E-value=0.0014  Score=50.66  Aligned_cols=23  Identities=13%  Similarity=0.284  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .+|+|+|.+|||||||..+|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999998854

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.72  E-value=0.0016  Score=47.05  Aligned_cols=25  Identities=12%  Similarity=0.268  Sum_probs=22.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF   74 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~   74 (253)
                      -.++|+|++|+|||+++..+...-.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~   27 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG   27 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC
Confidence            4789999999999999999987654

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>TIGR00235 udk uridine kinase

Probab=96.71  E-value=0.0017  Score=51.19  Aligned_cols=25  Identities=16%  Similarity=0.294  Sum_probs=21.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...-|+|+|++|||||||++.+.+.
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            4467999999999999999999863

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.70  E-value=0.0016  Score=49.68  Aligned_cols=27  Identities=19%  Similarity=0.238  Sum_probs=22.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF   74 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~   74 (253)
                      ..=.++|+|++|+|||||+|-+.+=..
T Consensus        24 ~ge~vAi~GpSGaGKSTLLnLIAGF~~   50 (231)
T COG3840          24 AGEIVAILGPSGAGKSTLLNLIAGFET   50 (231)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHhccC
Confidence            345789999999999999998886443

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.70  E-value=0.02  Score=50.16  Aligned_cols=86  Identities=14%  Similarity=0.021  Sum_probs=44.7

Q ss_pred             EEEEEEeCCCCCCChh----hHHHhcc---cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc
Q psy549           98 LTLDILDTSGAYQFPA----MRELSIS---TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD  170 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~----~~~~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  170 (253)
                      +.+.|+||+|......    ....++.   ...-+++|.+.+...  ..+...+..+..   . .+--+|+||.|.... 
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~--~~l~~~~~~f~~---~-~~~~vI~TKlDet~~-  372 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKY--EDLKDIYKHFSR---L-PLDGLIFTKLDETSS-  372 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCH--HHHHHHHHHhCC---C-CCCEEEEeccccccc-
Confidence            5778999999765431    1222333   234567777776432  233333332221   1 123688999997432 


Q ss_pred             ccHHHHHHHHHhcCCCcEEEecc
Q psy549          171 VRREIAETIALYDWQCGFVECSA  193 (253)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~~Sa  193 (253)
                       .-.+...+..  .+.|+..++.
T Consensus       373 -~G~i~~~~~~--~~lPv~yit~  392 (424)
T PRK05703        373 -LGSILSLLIE--SGLPISYLTN  392 (424)
T ss_pred             -ccHHHHHHHH--HCCCEEEEeC
Confidence             2234444443  4556555543

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.70  E-value=0.0014  Score=47.00  Aligned_cols=21  Identities=19%  Similarity=0.279  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+|.|.+||||||+++.|...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998865

...

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.67  E-value=0.0016  Score=45.40  Aligned_cols=22  Identities=23%  Similarity=0.542  Sum_probs=19.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHH
Q psy549           49 KRRVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~   70 (253)
                      .-.++|+|++|+|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3568999999999999999876

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.67  E-value=0.0016  Score=51.00  Aligned_cols=21  Identities=19%  Similarity=0.533  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+|.|++|||||||++.|.+.
T Consensus         2 igi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998764

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.67  E-value=0.0016  Score=49.99  Aligned_cols=22  Identities=18%  Similarity=0.292  Sum_probs=19.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .|+|+|++|||||||++.+...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5799999999999999998764

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.67  E-value=0.0017  Score=50.35  Aligned_cols=22  Identities=23%  Similarity=0.385  Sum_probs=20.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .|+|+|++|+|||||++.|...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            6899999999999999999764

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.66  E-value=0.0017  Score=47.65  Aligned_cols=21  Identities=33%  Similarity=0.669  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+|+|++|+|||||++.|...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999864

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.64  E-value=0.0018  Score=49.66  Aligned_cols=25  Identities=36%  Similarity=0.436  Sum_probs=21.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...-.++|+|++|+|||||++.++.
T Consensus        19 ~~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          19 PLNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhh
Confidence            3456899999999999999998863

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK14530 adenylate kinase; Provisional

Probab=96.64  E-value=0.0019  Score=51.27  Aligned_cols=22  Identities=23%  Similarity=0.437  Sum_probs=20.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .+|+|+|+|||||||+.+.|..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999863

>KOG1970|consensus

Probab=96.63  E-value=0.022  Score=50.53  Aligned_cols=86  Identities=10%  Similarity=0.043  Sum_probs=47.3

Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      .+|+|=|+-+..-++..+.+.+.+..+ .....|+|+|++-+-.... .......+.+.. ..++..+..+.....-+..
T Consensus       196 ~liLveDLPn~~~~d~~~~f~evL~~y~s~g~~PlIf~iTd~~~~g~nnq~rlf~~d~q~-~~ri~~IsFNPIa~T~MKK  274 (634)
T KOG1970|consen  196 KLILVEDLPNQFYRDDSETFREVLRLYVSIGRCPLIFIITDSLSNGNNNQDRLFPKDIQE-EPRISNISFNPIAPTIMKK  274 (634)
T ss_pred             eEEEeeccchhhhhhhHHHHHHHHHHHHhcCCCcEEEEEeccccCCCcchhhhchhhhhh-ccCcceEeecCCcHHHHHH
Confidence            457787776654444444444444442 2356899999988766433 122222233333 4555566666655555666


Q ss_pred             HHHHHHHHH
Q psy549          202 VFKELLAQA  210 (253)
Q Consensus       202 l~~~l~~~~  210 (253)
                      .+..|+...
T Consensus       275 ~L~ric~~e  283 (634)
T KOG1970|consen  275 FLKRICRIE  283 (634)
T ss_pred             HHHHHHHHh
Confidence            666555543

>PRK10646 ADP-binding protein; Provisional

Probab=96.63  E-value=0.01  Score=44.18  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      --|++-|+-|+|||||++.+...
T Consensus        29 ~vi~L~GdLGaGKTtf~rgl~~~   51 (153)
T PRK10646         29 TVIYLYGDLGAGKTTFSRGFLQA   51 (153)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999999863

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.61  E-value=0.0027  Score=48.62  Aligned_cols=28  Identities=18%  Similarity=0.258  Sum_probs=23.3

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      +.....-|+|.|.+|+||||+++.+...
T Consensus         3 ~~~~~~~I~i~G~~GsGKst~a~~l~~~   30 (176)
T PRK05541          3 MKPNGYVIWITGLAGSGKTTIAKALYER   30 (176)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            3456679999999999999999988753

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.61  E-value=0.0043  Score=48.07  Aligned_cols=25  Identities=28%  Similarity=0.376  Sum_probs=21.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..-|+|+|++|||||||+++|+...
T Consensus         4 ~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          4 PKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhcC
Confidence            3568999999999999999998753

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.61  E-value=0.0017  Score=52.52  Aligned_cols=22  Identities=18%  Similarity=0.258  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      =-++|+|+.|||||||++.+.+
T Consensus        29 ~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          29 EITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999999885

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.61  E-value=0.0022  Score=48.99  Aligned_cols=26  Identities=31%  Similarity=0.480  Sum_probs=22.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ...-++|.||+|+|||||++.|+...
T Consensus         3 ~G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           3 KGLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhc
Confidence            34568999999999999999999765

>PRK03839 putative kinase; Provisional

Probab=96.58  E-value=0.0021  Score=49.46  Aligned_cols=22  Identities=18%  Similarity=0.345  Sum_probs=19.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      +|+|+|.||+||||+.++|...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998753

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.57  E-value=0.0075  Score=49.48  Aligned_cols=115  Identities=14%  Similarity=0.150  Sum_probs=60.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC----C----C-C-Ccc-------ccceeeeeeeEEc-C-------------CCc
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR----F----I-S-RYK-------ETVEELHRGEYEL-P-------------DGA   96 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~----~----~-~-~~~-------~t~~~~~~~~~~~-~-------------~~~   96 (253)
                      +.-+|+|+|++|+||||++..+...-    .    . . .+.       .+........+.. .             ...
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~  153 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEA  153 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcC
Confidence            44699999999999999998876421    1    0 0 000       0000000001000 0             112


Q ss_pred             EEEEEEEeCCCCCCCh-hhHHH---hc--ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549           97 QLTLDILDTSGAYQFP-AMREL---SI--STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~-~~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      .+.+.++||+|..... .....   ++  ...+-+++|.+++...  .....+...+..    -.+--+|+||.|...
T Consensus       154 ~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~--~d~~~~~~~f~~----~~~~~~I~TKlDet~  225 (270)
T PRK06731        154 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMIEIITNFKD----IHIDGIVFTKFDETA  225 (270)
T ss_pred             CCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCH--HHHHHHHHHhCC----CCCCEEEEEeecCCC
Confidence            3678899999976432 21221   22  2346788899886432  223333333222    234477899999765

>PRK08233 hypothetical protein; Provisional

Probab=96.57  E-value=0.0024  Score=48.97  Aligned_cols=24  Identities=8%  Similarity=0.218  Sum_probs=20.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..-|+|.|.+|||||||.++|...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            367889999999999999998853

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=96.57  E-value=0.11  Score=39.58  Aligned_cols=84  Identities=12%  Similarity=0.081  Sum_probs=49.9

Q ss_pred             EEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHH
Q psy549           99 TLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAET  178 (253)
Q Consensus        99 ~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~  178 (253)
                      .+.++|+|+....  .....+..+|.+|++.+.... ++.....++..+...  ......+|+|+.+.... ...+..+.
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~~~~~--~~~~~~iv~N~~~~~~~-~~~~~~~~  137 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEIS-SLRDADRVKGLLEAL--GIKVVGVIVNRVRPDMV-EGGDMVED  137 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCcc-hHHHHHHHHHHHHHc--CCceEEEEEeCCccccc-chhhHHHH
Confidence            5789999875432  344556889999999987643 445555555555442  22356788999986432 22222344


Q ss_pred             HHHhcCCCcEE
Q psy549          179 IALYDWQCGFV  189 (253)
Q Consensus       179 ~~~~~~~~~~~  189 (253)
                      +.+ ..+.+++
T Consensus       138 ~~~-~~~~~v~  147 (179)
T cd02036         138 IEE-ILGVPLL  147 (179)
T ss_pred             HHH-HhCCCEE
Confidence            444 3344543

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.

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.54  E-value=0.0021  Score=49.32  Aligned_cols=22  Identities=32%  Similarity=0.604  Sum_probs=20.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .|+|+|++|||||||++.|...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            5899999999999999999874

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.54  E-value=0.0018  Score=50.54  Aligned_cols=22  Identities=18%  Similarity=0.363  Sum_probs=18.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      --.+++||+|||||||++.|-.
T Consensus        34 ~VTAlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          34 KVTALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             ceEEEECCCCcCHHHHHHHHHh
Confidence            3468999999999999988764

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.53  E-value=0.0026  Score=49.10  Aligned_cols=23  Identities=17%  Similarity=0.398  Sum_probs=20.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|++||||||+++.+..
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999999873

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK01889 GTPase RsgA; Reviewed

Probab=96.53  E-value=0.0029  Score=54.17  Aligned_cols=25  Identities=28%  Similarity=0.603  Sum_probs=22.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .-+++|+|.+|+|||||+|.+.+..
T Consensus       195 g~~~~lvG~sgvGKStLin~L~g~~  219 (356)
T PRK01889        195 GKTVALLGSSGVGKSTLVNALLGEE  219 (356)
T ss_pred             CCEEEEECCCCccHHHHHHHHHHhc
Confidence            4589999999999999999999754

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.52  E-value=0.0021  Score=51.19  Aligned_cols=21  Identities=24%  Similarity=0.267  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+|.|++|||||||++.|.+.
T Consensus         2 igI~G~sGSGKTTla~~L~~~   22 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQAL   22 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHHH
Confidence            789999999999999998863

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.51  E-value=0.0024  Score=46.86  Aligned_cols=21  Identities=19%  Similarity=0.428  Sum_probs=19.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+++|++|+|||+|++.+..
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~   21 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAA   21 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998885

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.50  E-value=0.015  Score=44.93  Aligned_cols=26  Identities=19%  Similarity=0.511  Sum_probs=22.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..-.++|+|++|+|||||++.+++--
T Consensus        24 ~g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          24 ARKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            34579999999999999999988643

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.50  E-value=0.0021  Score=54.07  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=19.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -++++||+|||||||++.+.+=
T Consensus        31 f~vllGPSGcGKSTlLr~IAGL   52 (338)
T COG3839          31 FVVLLGPSGCGKSTLLRMIAGL   52 (338)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998863

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=96.50  E-value=0.0024  Score=50.71  Aligned_cols=26  Identities=19%  Similarity=0.211  Sum_probs=22.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.++|+|++|+|||||++.+.+-.
T Consensus        29 ~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          29 KGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            34578999999999999999998754

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.50  E-value=0.0023  Score=50.70  Aligned_cols=22  Identities=23%  Similarity=0.412  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      =-|+|+|++|+|||||++.+.+
T Consensus        31 E~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          31 EMVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             cEEEEECCCCCcHHHHHHHHhc
Confidence            3689999999999999998776

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.50  E-value=0.0032  Score=49.45  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=22.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..-.|+|+|++|||||||++.+.+.
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4567999999999999999998874

>PRK04195 replication factor C large subunit; Provisional

Probab=96.49  E-value=0.04  Score=49.31  Aligned_cols=25  Identities=28%  Similarity=0.476  Sum_probs=21.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .-.++|.|++|+||||+++.+...-
T Consensus        39 ~~~lLL~GppG~GKTtla~ala~el   63 (482)
T PRK04195         39 KKALLLYGPPGVGKTSLAHALANDY   63 (482)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            3568999999999999999998753

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.48  E-value=0.0029  Score=48.20  Aligned_cols=24  Identities=8%  Similarity=0.239  Sum_probs=21.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..-++|+|.+|+|||||++++...
T Consensus         6 ~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          6 IPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             ceEEEEECCCCChHHHHHHHHHHH
Confidence            346899999999999999999864

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.48  E-value=0.0025  Score=50.27  Aligned_cols=26  Identities=19%  Similarity=0.198  Sum_probs=22.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.++|+|++|+|||||++.+.+-.
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34578999999999999999988754

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.47  E-value=0.0026  Score=49.39  Aligned_cols=24  Identities=17%  Similarity=0.249  Sum_probs=21.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        19 e~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        19 EVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468999999999999999888754

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.47  E-value=0.0026  Score=50.48  Aligned_cols=26  Identities=23%  Similarity=0.307  Sum_probs=22.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.++|+|++|+|||||++.+.+-.
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        28 KGEMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34578999999999999999988754

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=96.46  E-value=0.021  Score=48.38  Aligned_cols=26  Identities=23%  Similarity=0.543  Sum_probs=22.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ...+|+|.|++|+|||||+++++..-
T Consensus       159 ~~~nili~G~tgSGKTTll~aL~~~i  184 (332)
T PRK13900        159 SKKNIIISGGTSTGKTTFTNAALREI  184 (332)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHhhC
Confidence            46799999999999999999988644

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.45  E-value=0.012  Score=54.75  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -.|+|+|+.||||||.+..|..
T Consensus       186 ~Vi~lVGpnGvGKTTTiaKLA~  207 (767)
T PRK14723        186 GVLALVGPTGVGKTTTTAKLAA  207 (767)
T ss_pred             eEEEEECCCCCcHHHHHHHHHh
Confidence            4789999999999999998874

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.44  E-value=0.0028  Score=50.03  Aligned_cols=24  Identities=13%  Similarity=0.167  Sum_probs=21.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      . .++|+|++|+|||||++.+.+-.
T Consensus        26 g-~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          26 G-MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             C-cEEEECCCCCCHHHHHHHHhCCC
Confidence            5 89999999999999999988743

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13949 shikimate kinase; Provisional

Probab=96.43  E-value=0.003  Score=48.12  Aligned_cols=21  Identities=19%  Similarity=0.355  Sum_probs=19.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +|+|+|.+|+||||+...+..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998775

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.43  E-value=0.0026  Score=51.30  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      =-++|+||.|+|||||+..+++
T Consensus        31 ~~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          31 EITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4679999999999999999997

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.43  E-value=0.0028  Score=50.16  Aligned_cols=26  Identities=12%  Similarity=0.224  Sum_probs=22.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.++|+|++|+|||||++.+.+-.
T Consensus        27 ~G~~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        27 KGEFLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34578999999999999999888753

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.42  E-value=0.0028  Score=49.79  Aligned_cols=26  Identities=12%  Similarity=0.114  Sum_probs=22.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.++|+|++|+|||||++.+.+-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          25 AGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34578999999999999999988754

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.42  E-value=0.022  Score=48.46  Aligned_cols=27  Identities=11%  Similarity=0.253  Sum_probs=23.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ....+|+|.|+.|+|||||++.|++.-
T Consensus       160 ~~~~nilI~G~tGSGKTTll~aLl~~i  186 (344)
T PRK13851        160 VGRLTMLLCGPTGSGKTTMSKTLISAI  186 (344)
T ss_pred             HcCCeEEEECCCCccHHHHHHHHHccc
Confidence            356789999999999999999998654

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.42  E-value=0.0028  Score=50.94  Aligned_cols=25  Identities=16%  Similarity=0.247  Sum_probs=21.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .=.++|+|++|+|||||++.+.+-.
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          26 GEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3478999999999999999998754

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	253
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		8e-24
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		3e-23
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		9e-23
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		1e-22
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		1e-22
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		2e-22
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		1e-20
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		6e-17
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		8e-17
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		8e-17
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		9e-17
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		1e-16
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		1e-16
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		2e-16
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		3e-16
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-16
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		5e-16
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		5e-16
4q21_A	189	Molecular Switch For Signal Transduction: Structura		6e-16
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		6e-16
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		6e-16
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		7e-16
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		8e-16
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		8e-16
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		8e-16
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		9e-16
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-15
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		1e-15
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-15
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		1e-15
6q21_A	171	Molecular Switch For Signal Transduction: Structura		1e-15
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		1e-15
1wq1_R	166	Ras-Rasgap Complex Length = 166		1e-15
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-15
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-15
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		1e-15
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		1e-15
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		1e-15
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-15
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		1e-15
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-15
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		1e-15
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		1e-15
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		1e-15
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		2e-15
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		2e-15
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		2e-15
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		3e-15
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		3e-15
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		3e-15
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		5e-15
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		5e-15
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		5e-15
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		7e-15
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-14
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		2e-14
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		4e-14
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		8e-14
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		1e-13
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		1e-13
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-13
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		6e-13
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		1e-12
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		1e-12
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		2e-12
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		2e-12
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		2e-12
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		5e-12
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		2e-11
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		1e-10
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		3e-09
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		5e-09
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		6e-09
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		6e-09
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		6e-09
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		7e-09
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		7e-09
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		7e-09
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		7e-09
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		8e-09
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		8e-09
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		8e-09
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		8e-09
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		9e-09
1s1c_A	183	Crystal Structure Of The Complex Between The Human		9e-09
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		9e-09
1vg1_A	185	Gdp-bound Rab7 Length = 185		1e-08
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		1e-08
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		1e-08
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		2e-08
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		2e-08
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		2e-08
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		2e-08
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		3e-08
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		4e-08
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		5e-08
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		5e-08
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		6e-08
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		6e-08
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		6e-08
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		6e-08
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		6e-08
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		8e-08
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		9e-08
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		1e-07
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		1e-07
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		2e-07
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		2e-07
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		2e-07
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		2e-07
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		2e-07
4fmc_B	171	Espg-Rab1 Complex Length = 171		3e-07
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		3e-07
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		3e-07
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		3e-07
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		3e-07
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		4e-07
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		4e-07
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		6e-07
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		7e-07
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		7e-07
2efc_B	181	Ara7-GdpATVPS9A Length = 181		8e-07
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		8e-07
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		8e-07
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		1e-06
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		1e-06
3izy_P	537	Mammalian Mitochondrial Translation Initiation Fact		1e-06
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		1e-06
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		2e-06
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		2e-06
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		2e-06
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-06
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		2e-06
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		3e-06
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		3e-06
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		3e-06
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		3e-06
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		3e-06
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		4e-06
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		5e-06
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		5e-06
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		5e-06
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		6e-06
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		6e-06
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		7e-06
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		7e-06
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		8e-06
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		8e-06
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		9e-06
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		9e-06
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		9e-06
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		9e-06
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		9e-06
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		9e-06
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		1e-05
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		1e-05
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		1e-05
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		1e-05
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		1e-05
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		1e-05
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		1e-05
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		1e-05
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		1e-05
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		1e-05
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		1e-05
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		1e-05
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		1e-05
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		2e-05
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		2e-05
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		3e-05
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		4e-05
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		4e-05
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		4e-05
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		4e-05
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		4e-05
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		5e-05
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		5e-05
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		5e-05
2kb0_A	178	Cdc42(T35a) Length = 178		6e-05
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		6e-05
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		7e-05
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		1e-04
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		1e-04
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		1e-04
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		1e-04
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		1e-04
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		1e-04
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		1e-04
3icq_B	171	Karyopherin Nuclear State Length = 171		2e-04
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		2e-04
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		3e-04
1byu_A	216	Canine Gdp-Ran Length = 216		4e-04
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		4e-04
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		4e-04
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		5e-04
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		5e-04
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		5e-04
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		5e-04
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		5e-04
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		6e-04
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		6e-04
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		6e-04
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		7e-04
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		7e-04
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		8e-04

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score =  107 bits (266), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 61/149 (40%), Positives = 95/149 (63%), Gaps = 5/149 (3%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KSS++ +F+   F   Y  TVE+ +R      D +  TL I DT+G++QFPAM+ LSIS 
Sbjct: 16  KSSLVLRFVKGTFRESYIPTVEDTYRQVISC-DKSICTLQITDTTGSHQFPAMQRLSISK 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVVVGNKC-ELEFKDVRREIAET 178
             AF+LVY++    + + +K + EQI   +G +  +PI++VGNKC E   ++V+   AE 
Sbjct: 75  GHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEA 134
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKELL 207
           +A   W+C F+E SAK N+N+ ++F+ELL
Sbjct: 135 LA-RTWKCAFMETSAKLNHNVKELFQELL 162

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score =  105 bits (261), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 56/149 (37%), Positives = 94/149 (63%), Gaps = 4/149 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KSS++ +F+   F   Y  T+E+ +R      D +  TL I DT+G++QFPAM+ LSIS 
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTIEDTYRQVISC-DKSVCTLQITDTTGSHQFPAMQRLSISK 79
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVVVGNKCELEFKDVRREIAETI 179
             AF+LV++V    + + +  + + IV  +G +  +P+++VGNKC+   ++V    A+ +
Sbjct: 80  GHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQREVDTREAQAV 139
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELLA 208
           A  +W+C F+E SAK NYN+ ++F+ELL 
Sbjct: 140 A-QEWKCAFMETSAKMNYNVKELFQELLT 167

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score =  103 bits (257), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 59/150 (39%), Positives = 94/150 (62%), Gaps = 3/150 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+   F+ +Y  T+E+ +R + E+ D  Q  L+ILDT+G  QF AMR+L +  
Sbjct: 16  KSALTVQFVQGIFVEKYDPTIEDSYRKQVEV-DAQQCMLEILDTAGTEQFTAMRDLYMKN 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELE-FKDVRREIAETI 179
              F LVY++   ST++ ++DLREQI+  K    VP+++VGNKC+LE  + V +E  + +
Sbjct: 75  GQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVVGKEQGQNL 134
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           A     C F+E SAK   N+ ++F +L+ Q
Sbjct: 135 ARQWNNCAFLESSAKSKINVNEIFYDLVRQ 164

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score =  103 bits (257), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 59/150 (39%), Positives = 94/150 (62%), Gaps = 3/150 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+   F+ +Y  T+E+ +R + E+ D  Q  L+ILDT+G  QF AMR+L +  
Sbjct: 18  KSALTVQFVQGIFVEKYDPTIEDSYRKQVEV-DAQQCMLEILDTAGTEQFTAMRDLYMKN 76
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELE-FKDVRREIAETI 179
              F LVY++   ST++ ++DLREQI+  K    VP+++VGNKC+LE  + V +E  + +
Sbjct: 77  GQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVVGKEQGQNL 136
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           A     C F+E SAK   N+ ++F +L+ Q
Sbjct: 137 ARQWNNCAFLESSAKSKINVNEIFYDLVRQ 166

>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 =  103 bits (256), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 58/150 (38%), Positives = 94/150 (62%), Gaps = 3/150 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+   F+ +Y  T+E+ +R + E+ D  Q  L+ILDT+G  QF AMR+L +  
Sbjct: 16  KSALTVQFVQGIFVEKYDPTIEDSYRKQVEV-DCQQCMLEILDTAGTEQFTAMRDLYMKN 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELE-FKDVRREIAETI 179
              F LVY++   ST++ ++DLREQI+  +    VP+++VGNKC+LE  + V +E  + +
Sbjct: 75  GQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNL 134
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           A     C F+E SAK   N+ ++F +L+ Q
Sbjct: 135 ARQWCNCAFLESSAKSKINVNEIFYDLVRQ 164

>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 =  102 bits (253), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 58/150 (38%), Positives = 93/150 (62%), Gaps = 3/150 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+   F+  Y  T+E+ +R + E+ D  Q  L+ILDT+G  QF AMR+L +  
Sbjct: 16  KSALTVQFVQGIFVDEYDPTIEDSYRKQVEV-DCQQCMLEILDTAGTEQFTAMRDLYMKN 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELE-FKDVRREIAETI 179
              F LVY++   ST++ ++DLREQI+  +    VP+++VGNKC+LE  + V +E  + +
Sbjct: 75  GQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNL 134
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           A     C F+E SAK   N+ ++F +L+ Q
Sbjct: 135 ARQWCNCAFLESSAKSKINVNEIFYDLVRQ 164

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 96.7 bits (239), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 88/149 (59%), Gaps = 2/149 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+   FI +Y  T+E+ +R E E+ D +   L+ILDT+G  QF +MR+L I  
Sbjct: 16  KSALTVQFVTGTFIEKYDPTIEDFYRKEIEV-DSSPSVLEILDTAGTEQFASMRDLYIKN 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
              F+LVY++ +  ++  +K +R+QI+  KR   VP+++VGNK +LE +           
Sbjct: 75  GQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRAL 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQ 209
             +W C F+E SAK    + ++F E++ Q
Sbjct: 135 AEEWGCPFMETSAKSKTMVDELFAEIVRQ 163

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 84.3 bits (207), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 52/154 (33%), Positives = 89/154 (57%), Gaps = 4/154 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+YD F+  Y+ T  + +R +  L DG ++ +DILDT+G   + A+R+    +
Sbjct: 27  KSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRS 85
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFK-DVRREIAETI 179
            + F+ V+++ +  ++    D REQI+  K    VP ++VGNK +LE K  V  E A+  
Sbjct: 86  GEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNR 145
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           A   W   +VE SAK   N+ +VF +L+ + + +
Sbjct: 146 A-EQWNVNYVETSAKTRANVDKVFFDLMREIRAR 178

>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 = 84.0 bits (206), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 52/154 (33%), Positives = 89/154 (57%), Gaps = 4/154 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+YD F+  Y+ T  + +R +  L DG ++ +DILDT+G   + A+R+    +
Sbjct: 31  KSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRS 89
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFK-DVRREIAETI 179
            + F+ V+++ +  ++    D REQI+  K    VP ++VGNK +LE K  V  E A+  
Sbjct: 90  GEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNR 149
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           A   W   +VE SAK   N+ +VF +L+ + + +
Sbjct: 150 A-EQWNVNYVETSAKTRANVDKVFFDLMREIRAR 182

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 84.0 bits (206), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 52/154 (33%), Positives = 89/154 (57%), Gaps = 4/154 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+YD F+  Y+ T  + +R +  L DG ++ +DILDT+G   + A+R+    +
Sbjct: 19  KSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRS 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFK-DVRREIAETI 179
            + F+ V+++ +  ++    D REQI+  K    VP ++VGNK +LE K  V  E A+  
Sbjct: 78  GEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNR 137
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           A   W   +VE SAK   N+ +VF +L+ + + +
Sbjct: 138 A-EQWNVNYVETSAKTRANVDKVFFDLMREIRAR 170

>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 = 83.6 bits (205), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 52/154 (33%), Positives = 89/154 (57%), Gaps = 4/154 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+YD F+  Y+ T  + +R +  L DG ++ +DILDT+G   + A+R+    +
Sbjct: 19  KSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGLEDYAAIRDNYFRS 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFK-DVRREIAETI 179
            + F+ V+++ +  ++    D REQI+  K    VP ++VGNK +LE K  V  E A+  
Sbjct: 78  GEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNR 137
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           A   W   +VE SAK   N+ +VF +L+ + + +
Sbjct: 138 A-EQWNVNYVETSAKTRANVDKVFFDLMREIRAR 170

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 83.2 bits (204), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 50/155 (32%), Positives = 92/155 (59%), Gaps = 5/155 (3%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+YD F+  Y+ T  + +R +  L DG ++ +DILDT+G   + A+R+    +
Sbjct: 20  KSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGLEDYAAIRDNYFRS 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGL--MVPIVVVGNKCEL-EFKDVRREIAET 178
            + F+LV+++ +  ++    + REQI+  +     +P++VVGNK +L E + V  E A +
Sbjct: 79  GEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQVPVEEARS 138
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
            A  +W   +VE SAK   N+ +VF +L+ + + +
Sbjct: 139 KA-EEWGVQYVETSAKTRANVDKVFFDLMREIRTK 172

>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 = 83.2 bits (204), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 52/154 (33%), Positives = 89/154 (57%), Gaps = 4/154 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+YD F+  Y+ T  + +R +  L DG ++ +DILDT+G   + A+R+    +
Sbjct: 17  KSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRS 75
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFK-DVRREIAETI 179
            + F+ V+++ +  ++    D REQI+  K    VP ++VGNK +LE K  V  E A+  
Sbjct: 76  GEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNR 135
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           A   W   +VE SAK   N+ +VF +L+ + + +
Sbjct: 136 A-DQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>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 = 82.8 bits (203), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/155 (32%), Positives = 92/155 (59%), Gaps = 5/155 (3%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+YD F+  Y+ T  + +R +  L DG ++ +DILDT+G   + A+R+    +
Sbjct: 16  KSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGLEDYAAIRDNYFRS 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGL--MVPIVVVGNKCEL-EFKDVRREIAET 178
            + F+LV+++ +  ++    + REQI+  +     +P++VVGNK +L E + V  E A +
Sbjct: 75  GEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQVPVEEARS 134
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
            A  +W   +VE SAK   N+ +VF +L+ + + +
Sbjct: 135 KA-EEWGVQYVETSAKTRANVDKVFFDLMREIRTK 168

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 48/151 (31%), Positives = 86/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGHEEYSAMRDQYMRT 92
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V  + A+ +A
Sbjct: 93  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLA 152
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   F+E SAK    +   F  L+ + +
Sbjct: 153 R-SYGIPFIETSAKTRQGVDDAFYTLVREIR 182

>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 = 81.3 bits (199), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 48/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+EE +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEESYRKQV-VIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 81.3 bits (199), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 86/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+ +Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDKYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 81.3 bits (199), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 86/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+ +Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVEKYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 80.9 bits (198), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 -RSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 80.9 bits (198), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 48/151 (31%), Positives = 86/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V  + A+ +A
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLA 135
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   F+E SAK    +   F  L+ + +
Sbjct: 136 -RSYGIPFIETSAKTRQGVDDAFYTLVREIR 165

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 80.9 bits (198), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETXLLDILDTAGGEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 80.9 bits (198), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQV-VIDGETCLLDILDTAGGEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 80.5 bits (197), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 23  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 81
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 82  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 141
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 142 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 171

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 80.5 bits (197), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 139
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 140 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 169

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 80.5 bits (197), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 139
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 140 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 169

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 80.5 bits (197), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGVEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTTGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGLEEYSAMRDQYMRT 79
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 139
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 140 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 169

>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 = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGHEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGKEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQV-VIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQV-VIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAGRTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/147 (31%), Positives = 83/147 (56%), Gaps = 3/147 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELL 207
              +   ++E SAK    +   F  L+
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGIEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGLEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQV-VIDGETCLLDILDTAGQEEYSAMRDEYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 50/156 (32%), Positives = 88/156 (56%), Gaps = 4/156 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 92
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A++++ ++  +   REQI   K    VP+V+VGNKC+L  + V  + A  +A
Sbjct: 93  GEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPTRTVDTKQAHELA 152
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNL 216
              +   F+E SAK    +   F  L+ + + QY +
Sbjct: 153 -KSYGIPFIETSAKTRQGVEDAFYTLVREIR-QYRM 186

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 84/151 (55%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTGGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/151 (30%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  ++E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 22  KSALTIQLIQNHFVDEYDPSIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 81  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 140
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 141 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 170

>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 = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/151 (30%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQV-VIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGN+C+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNRCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQV-VIDGEICLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 79.0 bits (193), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 46/151 (30%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KNALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 46/151 (30%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  ++E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPSIEDSYRKQV-VIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 46/151 (30%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  +  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEFDPTIEDSYRKQV-VIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 77.8 bits (190), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 84/151 (55%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  +  AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEASAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNKC+L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 -RSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 77.8 bits (190), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNK +L  + V  + A+ +A
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPSRTVDTKQAQDLA 135
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   F+E SAK    +   F  L+ + +
Sbjct: 136 R-SYGIPFIETSAKTRQGVDDAFYTLVREIR 165

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 77.8 bits (190), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNK +L  + V  + A+ +A
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPSRTVDTKQAQDLA 135
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   F+E SAK    +   F  L+ + +
Sbjct: 136 R-SYGIPFIETSAKTRQGVDDAFYTLVREIR 165

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 77.4 bits (189), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNK +L  + V  + A+ +A
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPSRTVDTKQAQDLA 135
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   F+E SAK    +   F  L+ + +
Sbjct: 136 -RSYGIPFIETSAKTRQGVDDAFYTLVREIR 165

>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 = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 86/148 (58%), Gaps = 4/148 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+   F++ Y  T+E+ +  +  + D A   LDILDT+G  +F AMRE  + T
Sbjct: 18  KSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRA-ARLDILDTAGQEEFGAMREQYMRT 76
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEF-KDVRREIAETI 179
            + F+LV++V D  +++ +   + QI+  K     P++++GNK +L+  + V +E  + +
Sbjct: 77  GEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQL 136
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELL 207
           A    +  ++E SAK   N+ Q F EL+
Sbjct: 137 A-RQLKVTYMEASAKIRMNVDQAFHELV 163

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 75.1 bits (183), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 51/148 (34%), Positives = 80/148 (54%), Gaps = 4/148 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF+   F+S Y  T+E+ +     + DG    LDILDT+G  +F AMRE  +  
Sbjct: 22  KSALTIQFIQSYFVSDYDPTIEDSYTKICSV-DGIPARLDILDTAGQEEFGAMREQYMRA 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEF-KDVRREIAETI 179
              F+LV+A++D  +++ V  L  QI+  K     P+V+VGNK +LE  + V R  A   
Sbjct: 81  GHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAF 140
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELL 207
                   + E SAK   N+ + F++L+
Sbjct: 141 GA-SHHVAYFEASAKLRLNVDEAFEQLV 167

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 73.9 bits (180), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 47/149 (31%), Positives = 83/149 (55%), Gaps = 5/149 (3%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF    F+  Y  T+E+ +R   E+ D     LD+LDT+G  +F AMRE  + T
Sbjct: 31  KSALTIQFFQKIFVDEYDPTIEDSYRKHTEI-DNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCEL-EFKDVRREIAETI 179
            D F++VY+V D ++++ V    + I+  K     P+++V NK +L   + V R+  + +
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 180 ALYDWQCGFVECSAKE-NYNIVQVFKELL 207
           A   +   ++E SAK+   N+ + F +L+
Sbjct: 150 AT-KYNIPYIETSAKDPPLNVDKTFHDLV 177

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 45/151 (29%), Positives = 83/151 (54%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+   ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAAQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNK +L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 45/151 (29%), Positives = 83/151 (54%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+   ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAAQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNK +L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 R-SYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 45/151 (29%), Positives = 83/151 (54%), Gaps = 3/151 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  Q + + F+     T+E+ +R +  + DG    LDILDT+G  ++ AMR+  + T
Sbjct: 16  KSALTIQLIQNHFVDECDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            + F+ V+A+++  +++ +   REQI   K    VP+V+VGNK +L  + V    A+ +A
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAARTVESRQAQDLA 134
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              +   ++E SAK    +   F  L+ + +
Sbjct: 135 -RSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 70.9 bits (172), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 82/149 (55%), Gaps = 5/149 (3%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF    F+  Y  T+E+ +    E+ D     LD+LDT+G  +F AMRE  + T
Sbjct: 31  KSALTIQFFQKIFVPEYDPTIEDSYLKHTEI-DNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCEL-EFKDVRREIAETI 179
            D F++VY+V D ++++ V    + I+  K     P+++V NK +L   + V R+  + +
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 180 ALYDWQCGFVECSAKE-NYNIVQVFKELL 207
           A   +   ++E SAK+   N+ + F +L+
Sbjct: 150 AT-KYNIPYIETSAKDPPLNVDKTFHDLV 177

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 70.1 bits (170), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 82/149 (55%), Gaps = 5/149 (3%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF    F+  Y  T+E+ +    E+ D     LD+LDT+G  +F AMRE  + T
Sbjct: 26  KSALTIQFFQKIFVPDYDPTIEDSYLKHTEI-DNQWAILDVLDTAGQEEFSAMREQYMRT 84
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCEL-EFKDVRREIAETI 179
            D F++VY+V D ++++ V    + I+  K     P+++V NK +L   + V R+  + +
Sbjct: 85  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 144
Query: 180 ALYDWQCGFVECSAKE-NYNIVQVFKELL 207
           A   +   ++E SAK+   N+ + F +L+
Sbjct: 145 AT-KYNIPYIETSAKDPPLNVDKTFHDLV 172

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 70.1 bits (170), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 82/149 (55%), Gaps = 5/149 (3%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  QF    F+  Y  T+E+ +    E+ D     LD+LDT+G  +F AMRE  + T
Sbjct: 31  KSALTIQFFQKIFVDDYDPTIEDSYLKHTEI-DNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCEL-EFKDVRREIAETI 179
            D F++VY+V D ++++ V    + I+  K     P+++V NK +L   + V R+  + +
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 180 ALYDWQCGFVECSAKE-NYNIVQVFKELL 207
           A   +   ++E SAK+   N+ + F +L+
Sbjct: 150 AT-KYNIPYIETSAKDPPLNVDKTFHDLV 177

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 43/156 (27%), Positives = 85/156 (54%), Gaps = 12/156 (7%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KSS+  QF+  +F+  Y  T+E        + +G +  L ++DT+G  ++    +     
Sbjct: 19  KSSLTIQFVEGQFVDSYDPTIENTFTKLITV-NGQEYHLQLVDTAGQDEYSIFPQTYSID 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFKDV-----RREI 175
            + ++LVY+V    +++V+K +  ++++  G + +PI++VGNK +L  + V      + +
Sbjct: 78  INGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKAL 137
Query: 176 AETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           AE+     W   F+E SAKEN   V VF+ ++ +A+
Sbjct: 138 AES-----WNAAFLESSAKENQTAVDVFRRIILEAE 168

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 43/156 (27%), Positives = 85/156 (54%), Gaps = 12/156 (7%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KSS+  QF+  +F+  Y  T+E        + +G +  L ++DT+G  ++    +     
Sbjct: 19  KSSLTIQFVEGQFVDSYDPTIENTFTKLITV-NGQEYHLQLVDTAGQDEYSIFPQTYSID 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFKDV-----RREI 175
            + ++LVY+V    +++V+K +  ++++  G + +PI++VGNK +L  + V      + +
Sbjct: 78  INGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKAL 137
Query: 176 AETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           AE+     W   F+E SAKEN   V VF+ ++ +A+
Sbjct: 138 AES-----WNAAFLESSAKENQTAVDVFRRIILEAE 168

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 43/156 (27%), Positives = 85/156 (54%), Gaps = 12/156 (7%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KSS+  QF+  +F+  Y  T+E        + +G +  L ++DT+G  ++    +     
Sbjct: 14  KSSLTIQFVEGQFVDSYDPTIENTFTKLITV-NGQEYHLQLVDTAGQDEYSIFPQTYSID 72
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFKDV-----RREI 175
            + ++LVY+V    +++V+K +  ++++  G + +PI++VGNK +L  + V      + +
Sbjct: 73  INGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKAL 132
Query: 176 AETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           AE+     W   F+E SAKEN   V VF+ ++ +A+
Sbjct: 133 AES-----WNAAFLESSAKENQTAVDVFRRIILEAE 163

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 67.8 bits (164), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 55/168 (32%), Positives = 90/168 (53%), Gaps = 20/168 (11%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS+++ +FL  RFI  Y  T+E  +R +  + D   ++++ILDT+G  +    RE  +  
Sbjct: 41  KSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEV-VSMEILDTAGQ-EDTIQREGHMRW 98
Query: 122 ADAFVLVYAVDDASTWDVV---KDLREQIVNKRGLMVPIVVVGNKCELEF-KDVRREIAE 177
            + FVLVY + D  +++ V   K++ ++I  K+   V +++VGNK +L+  + V  E  E
Sbjct: 99  GEGFVLVYDITDRGSFEEVLPLKNILDEI--KKPKNVTLILVGNKADLDHSRQVSTEEGE 156
Query: 178 TIALYDWQCGFVECSA-KENYNIVQVFKELLAQAKVQYNLSPAVRRRR 224
            +A  +  C F ECSA     NI ++F          Y L   VRRRR
Sbjct: 157 KLAT-ELACAFYECSACTGEGNITEIF----------YELCREVRRRR 193

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/159 (28%), Positives = 86/159 (54%), Gaps = 18/159 (11%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ---FPAMRELS 118
           KSS+  QF+  +F+     T+E        + +G +  L ++DT+G  +   FP    + 
Sbjct: 17  KSSLTIQFVEGQFVDSADPTIENTFTKLITV-NGQEYHLQLVDTAGQDEYSIFPQTYSID 75
Query: 119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFKDV-----R 172
           I   + ++LVY+V    +++V+K +  ++++  G + +PI++VGNK +L  + V      
Sbjct: 76  I---NGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEG 132
Query: 173 REIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           + +AE+     W   F+E SAKEN   V VF+ ++ +A+
Sbjct: 133 KALAES-----WNAAFLESSAKENQTAVDVFRRIILEAE 166

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 47/154 (30%), Positives = 89/154 (57%), Gaps = 8/154 (5%)
Query: 62  KSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSI 119
           KSS++++++ ++F S+   T  VE L+R + E+ DG  +TL I DT+G  +F ++R    
Sbjct: 20  KSSLMNRYVTNKFDSQAFHTIGVEFLNR-DLEV-DGRFVTLQIWDTAGQERFKSLRTPFY 77
Query: 120 STADAFVLVYAVDDASTWDVVKDLREQIVN----KRGLMVPIVVVGNKCELEFKDVRREI 175
             AD  +L ++VDD  +++ + + +++ +     K     P VV+GNK + E + V  E 
Sbjct: 78  RGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKVDKEDRQVTTEE 137
Query: 176 AETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           A+T  + +    ++E SAK++ N+   F+E + Q
Sbjct: 138 AQTWCMENGDYPYLETSAKDDTNVTVAFEEAVRQ 171

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 43/146 (29%), Positives = 76/146 (52%), Gaps = 4/146 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+SII++F YD F + Y+ T+      +    D   + L + DT+G  +F ++    I  
Sbjct: 14  KTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRD 73
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAE--TI 179
           + A ++VY + +  +++      + I+N+RG  V I +VGNK +L   D+R+   E    
Sbjct: 74  SAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDL--GDLRKVTYEEGXQ 131
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKE 205
              ++   F E SAK  +NI  +FK+
Sbjct: 132 KAQEYNTXFHETSAKAGHNIKVLFKK 157

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 58.2 bits (139), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 43/148 (29%), Positives = 78/148 (52%), Gaps = 2/148 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S+I++F+YD F + Y+ T+      +    +   + L + DT+G  +F ++    I  
Sbjct: 26  KTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRD 85
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIA 180
           + A V+VY + + +++       + +  +RG  V I++VGNK +L  K  V  E  E  A
Sbjct: 86  SAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKA 145
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLA 208
             +    F+E SAK  YN+ Q+F+ + A
Sbjct: 146 -KELNVMFIETSAKAGYNVKQLFRRVAA 172

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 43/148 (29%), Positives = 78/148 (52%), Gaps = 2/148 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S+I++F+YD F + Y+ T+      +    +   + L + DT+G  +F ++    I  
Sbjct: 19  KTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRD 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIA 180
           + A V+VY + + +++       + +  +RG  V I++VGNK +L  K  V  E  E  A
Sbjct: 79  SAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKA 138
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLA 208
             +    F+E SAK  YN+ Q+F+ + A
Sbjct: 139 -KELNVMFIETSAKAGYNVKQLFRRVAA 165

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 46/150 (30%), Positives = 81/150 (54%), Gaps = 6/150 (4%)
Query: 62  KSSIISQFLYDRFISRYKETV--EELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSI 119
           K+S+I++F+YD F + Y+ T+  + L +  Y L D   + L + DT+G  +F ++    I
Sbjct: 27  KTSLITRFMYDSFDNTYQATIGIDFLSKTMY-LED-RTVRLQLWDTAGQERFRSLIPSYI 84
Query: 120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAET 178
             +   V+VY + + +++       + +  +RG  V I++VGNK +L  K  V  E  E 
Sbjct: 85  RDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGER 144
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKELLA 208
            A  +    F+E SAK  YN+ Q+F+ + A
Sbjct: 145 KA-KELNVMFIETSAKAGYNVKQLFRRVAA 173

>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 = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 81/165 (49%), Gaps = 15/165 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS   
Sbjct: 20  KTCLLIVFSKDQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPD 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET-- 178
            D  ++ +++D   + + + +     V      VPI++VGNK +L   +  RRE+A+   
Sbjct: 79  TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQ 138
Query: 179 ----------IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                     +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 139 EPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 182

>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 = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 81/165 (49%), Gaps = 15/165 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS   
Sbjct: 20  KTCLLIVFSKDQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPD 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET-- 178
            D  ++ +++D   + + + +     V      VPI++VGNK +L   +  RRE+A+   
Sbjct: 79  TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQ 138
Query: 179 ----------IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                     +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 139 EPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 182

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 82/165 (49%), Gaps = 15/165 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS   
Sbjct: 38  KTCLLIVFSKDQFPEVYVPTVFENYIADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPD 96
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFKDVRREIAET-- 178
            D  ++ +++D   + + + +     V      VPI++VGNK +L + +  RRE+A+   
Sbjct: 97  TDVILMCFSIDSPDSLENIPEKWTPEVKHFXPNVPIILVGNKKDLRQDEHTRRELAKMKQ 156
Query: 179 ----------IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                     +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 157 EPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF-EMATRAGLQ 200

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 81/165 (49%), Gaps = 15/165 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS   
Sbjct: 18  KTCLLIVFSKDQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPD 76
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET-- 178
            D  ++ +++D   + + + +     V      VPI++VGNK +L   +  RRE+A+   
Sbjct: 77  TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQ 136
Query: 179 ----------IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                     +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 137 EPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 180

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 41/153 (26%), Positives = 76/153 (49%), Gaps = 4/153 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S+++Q++  +F ++YK T+      +  + D   +T+ I DT+G  +F ++       
Sbjct: 21  KTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRG 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM----VPIVVVGNKCELEFKDVRREIAE 177
           AD  VLV+ V   +T+  +   R++ + +         P VV+GNK +LE + V  + A+
Sbjct: 81  ADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQ 140
Query: 178 TIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
                     + E SAKE  N+ Q F+ +   A
Sbjct: 141 AWCYSKNNIPYFETSAKEAINVEQAFQTIARNA 173

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 57.4 bits (137), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 81/165 (49%), Gaps = 15/165 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS   
Sbjct: 21  KTCLLIVFSKDQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPD 79
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET-- 178
            D  ++ +++D   + + + +     V      VPI++VGNK +L   +  RRE+A+   
Sbjct: 80  TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQ 139
Query: 179 ----------IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                     +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 140 EPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 183

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 57.4 bits (137), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 81/165 (49%), Gaps = 15/165 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS   
Sbjct: 22  KTCLLIVFSKDQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPD 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET-- 178
            D  ++ +++D   + + + +     V      VPI++VGNK +L   +  RRE+A+   
Sbjct: 81  TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQ 140
Query: 179 ----------IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                     +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 141 EPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 184

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 57.4 bits (137), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 38/149 (25%), Positives = 82/149 (55%), Gaps = 6/149 (4%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           KSS++++++ ++F S+   T+  E    + E+ DG  +T+ I DT+G  +F ++R     
Sbjct: 24  KSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEV-DGHFVTMQIWDTAGQERFRSLRTPFYR 82
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVN----KRGLMVPIVVVGNKCELEFKDVRREIA 176
            +D  +L ++VDD+ ++  + + +++ +     K     P V++GNK +++ + V  E A
Sbjct: 83  GSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKTDIKERQVSTEEA 142
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKE 205
           +     +    + E SAK++ N+   F+E
Sbjct: 143 QAWCKDNGDYPYFETSAKDSTNVAAAFEE 171

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 57.4 bits (137), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 41/153 (26%), Positives = 76/153 (49%), Gaps = 4/153 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S+++Q++  +F ++YK T+      +  + D   +T+ I DT+G  +F ++       
Sbjct: 21  KTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGLERFQSLGVAFYRG 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM----VPIVVVGNKCELEFKDVRREIAE 177
           AD  VLV+ V   +T+  +   R++ + +         P VV+GNK +LE + V  + A+
Sbjct: 81  ADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQ 140
Query: 178 TIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
                     + E SAKE  N+ Q F+ +   A
Sbjct: 141 AWCYSKNNIPYFETSAKEAINVEQAFQTIARNA 173

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 57.0 bits (136), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 82/165 (49%), Gaps = 15/165 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS   
Sbjct: 38  KTCLLIVFSKDQFPEVYVPTVFENYIADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPD 96
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFKDVRREIAET-- 178
            D  ++ +++D   + + + +     V      VPI++VGNK +L + +  RRE+A+   
Sbjct: 97  TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQ 156
Query: 179 ----------IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                     +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 157 EPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF-EMATRAGLQ 200

>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 = 57.0 bits (136), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 81/165 (49%), Gaps = 15/165 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS   
Sbjct: 20  KTCLLIVFSKDQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPD 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET-- 178
            D  ++ +++D   + + + +     V      VPI++VGNK +L   +  RRE+A+   
Sbjct: 79  TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQ 138
Query: 179 ----------IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                     +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 139 EPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 182

>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 = 57.0 bits (136), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 81/165 (49%), Gaps = 15/165 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS   
Sbjct: 19  KTCLLIVFSKDQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPD 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET-- 178
            D  ++ +++D   + + + +     V      VPI++VGNK +L   +  RRE+A+   
Sbjct: 78  TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQ 137
Query: 179 ----------IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                     +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 138 EPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 181

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 57.0 bits (136), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 41/153 (26%), Positives = 76/153 (49%), Gaps = 4/153 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S+++Q++  +F ++YK T+      +  + D   +T+ I DT+G  +F ++       
Sbjct: 21  KTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRG 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM----VPIVVVGNKCELEFKDVRREIAE 177
           AD  VLV+ V   +T+  +   R++ + +         P VV+GNK +LE + V  + A+
Sbjct: 81  ADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQ 140
Query: 178 TIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
                     + E SAKE  N+ Q F+ +   A
Sbjct: 141 AWCYSKNNIPYFETSAKEAINVEQAFQTIARNA 173

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 57.0 bits (136), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/154 (27%), Positives = 78/154 (50%), Gaps = 12/154 (7%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S+  QF+   F   Y  TVE  +     L    +  L ++DT+G  ++  +    I  
Sbjct: 37  KTSLAHQFVEGEFSEGYDPTVENTYSKIVTLGK-DEFHLHLVDTAGQDEYSILPYSFIIG 95
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCEL----EFKDVR-REI 175
              +VLVY+V    ++ V++ L +++    G   VP+V+VGNK +L    E + V  +++
Sbjct: 96  VHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKL 155
Query: 176 AETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           AE+     W   F+E SA+EN     +F +++ +
Sbjct: 156 AES-----WGATFMESSARENQLTQGIFTKVIQE 184

>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 = 57.0 bits (136), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 81/165 (49%), Gaps = 15/165 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS   
Sbjct: 19  KTCLLIVFSKDQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPD 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET-- 178
            D  ++ +++D   + + + +     V      VPI++VGNK +L   +  RRE+A+   
Sbjct: 78  TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQ 137
Query: 179 ----------IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                     +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 138 EPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 181

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 41/148 (27%), Positives = 78/148 (52%), Gaps = 2/148 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S+I++F+YD F + Y+ T+      +    +   + L + DT+G  +F ++    I  
Sbjct: 29  KTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIRD 88
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFKDVRREIAETIA 180
           +   V+VY + + +++       + +  +RG  V I++VGNK +L + + V  E  E  A
Sbjct: 89  STVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKA 148
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLA 208
             +    F+E SAK  YN+ Q+F+ + A
Sbjct: 149 -KELNVMFIETSAKAGYNVKQLFRRVAA 175

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 40/153 (26%), Positives = 75/153 (49%), Gaps = 4/153 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S+++Q++  +F ++YK T+      +  + D   +T+ I DT+G  +F ++       
Sbjct: 21  KTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRG 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM----VPIVVVGNKCELEFKDVRREIAE 177
           AD  VLV+ V   +T+  +   R++ + +         P VV+GNK + E + V  + A+
Sbjct: 81  ADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDFENRQVATKRAQ 140
Query: 178 TIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
                     + E SAKE  N+ Q F+ +   A
Sbjct: 141 AWCYSKNNIPYFETSAKEAINVEQAFQTIARNA 173

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 41/148 (27%), Positives = 78/148 (52%), Gaps = 2/148 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S+I++F+YD F + Y+ T+      +    +   + L + DT+G  +F ++    I  
Sbjct: 19  KTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIRD 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFKDVRREIAETIA 180
           +   V+VY + + +++       + +  +RG  V I++VGNK +L + + V  E  E  A
Sbjct: 79  STVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKA 138
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLA 208
             +    F+E SAK  YN+ Q+F+ + A
Sbjct: 139 -KELNVMFIETSAKAGYNVKQLFRRVAA 165

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 47/170 (27%), Positives = 83/170 (48%), Gaps = 19/170 (11%)
Query: 72  DRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAV 131
           D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS    D  ++ +++
Sbjct: 28  DQFPEVYVPTVFENYIADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSI 86
Query: 132 DDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFKDVRREIAET------------ 178
           D   + + + +     V      VPI++VGNK +L + +  RRE+A+             
Sbjct: 87  DSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRD 146
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLP 228
           +A      G++ECSAK    + +VF E+  +A +Q   +    +RR+  P
Sbjct: 147 MANRISAFGYLECSAKTKEGVREVF-EMATRAGLQVRKN----KRRRGCP 191

>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 = 55.5 bits (132), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 46/150 (30%), Positives = 81/150 (54%), Gaps = 6/150 (4%)
Query: 62  KSSIISQFLYDRFISRYKETV--EELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSI 119
           K+S+I++F+YD F + Y+ T+  + L +  Y L D   + L + DT+G  +F ++    I
Sbjct: 14  KTSLITRFMYDSFDNTYQATIGIDFLSKTMY-LEDRT-VRLQLWDTAGQERFRSLIPSYI 71
Query: 120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAET 178
             +   V+VY + + +++       + +  +RG  V I++VGNK +L  K  V  E  E 
Sbjct: 72  RDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGER 131
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKELLA 208
            A  +    F+E SAK  YN+ Q+F+ + A
Sbjct: 132 KA-KELNVMFIETSAKAGYNVKQLFRRVAA 160

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 55.1 bits (131), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 44/155 (28%), Positives = 76/155 (49%), Gaps = 15/155 (9%)
Query: 72  DRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAV 131
           D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS    D  ++ +++
Sbjct: 28  DQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSI 86
Query: 132 DDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET------------ 178
           D   + + + +     V      VPI++VGNK +L   +  RRE+A+             
Sbjct: 87  DSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRD 146
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 147 MANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 180

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 54.7 bits (130), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 44/155 (28%), Positives = 76/155 (49%), Gaps = 15/155 (9%)
Query: 72  DRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAV 131
           D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS    D  ++ +++
Sbjct: 28  DQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSI 86
Query: 132 DDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET------------ 178
           D   + + + +     V      VPI++VGNK +L   +  RRE+A+             
Sbjct: 87  DSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRD 146
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 147 MANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 180

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 54.7 bits (130), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 81/169 (47%), Gaps = 23/169 (13%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D+F + Y  TV E +  + E+ DG Q+ L + DT+G   +   R LS   
Sbjct: 18  KTCLLIVFSKDQFPAVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRARPLSYPD 76
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL--------EFKDVR- 172
            D  ++ +++D   + + + +     V      VPI++VGNK +L        E   ++ 
Sbjct: 77  TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTARELAKMKQ 136
Query: 173 --------REIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                   R++A  I  +    G++ECSAK    + +VF E+  +A +Q
Sbjct: 137 EPVKPAEGRDMANRIGAF----GYMECSAKTKDGVREVF-EMATRAALQ 180

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 54.3 bits (129), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 44/155 (28%), Positives = 76/155 (49%), Gaps = 15/155 (9%)
Query: 72  DRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAV 131
           D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS    D  ++ +++
Sbjct: 26  DQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSI 84
Query: 132 DDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET------------ 178
           D   + + + +     V      VPI++VGNK +L   +  RRE+A+             
Sbjct: 85  DSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRD 144
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 145 MANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 178

>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 = 54.3 bits (129), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 37/149 (24%), Positives = 80/149 (53%), Gaps = 6/149 (4%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           KSS++++++ ++F ++   T+  E    + E+ DG  +T+ I DT+G  +F ++R     
Sbjct: 22  KSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVTMQIWDTAGQERFRSLRTPFYR 80
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVN----KRGLMVPIVVVGNKCELEFKDVRREIA 176
            +D  +L ++VDD+ ++  + + +++ +     K     P V++GNK ++  + V  E A
Sbjct: 81  GSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEA 140
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKE 205
           +     +    + E SAK+  N+   F+E
Sbjct: 141 QAWCRDNGDYPYFETSAKDATNVAAAFEE 169

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 54.3 bits (129), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 44/155 (28%), Positives = 76/155 (49%), Gaps = 15/155 (9%)
Query: 72  DRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAV 131
           D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS    D  ++ +++
Sbjct: 31  DQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSI 89
Query: 132 DDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET------------ 178
           D   + + + +     V      VPI++VGNK +L   +  RRE+A+             
Sbjct: 90  DSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRD 149
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 150 MANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 183

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 54.3 bits (129), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 44/155 (28%), Positives = 76/155 (49%), Gaps = 15/155 (9%)
Query: 72  DRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAV 131
           D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS    D  ++ +++
Sbjct: 28  DQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSI 86
Query: 132 DDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET------------ 178
           D   + + + +     V      VPI++VGNK +L   +  RRE+A+             
Sbjct: 87  DSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRD 146
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           +A      G++ECSAK    + +VF E+  +A +Q
Sbjct: 147 MANRIGAFGYMECSAKTKDGVREVF-EMATRAALQ 180

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 54.3 bits (129), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 37/149 (24%), Positives = 80/149 (53%), Gaps = 6/149 (4%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           KSS++++++ ++F ++   T+  E    + E+ DG  +T+ I DT+G  +F ++R     
Sbjct: 20  KSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVTMQIWDTAGQERFRSLRTPFYR 78
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVN----KRGLMVPIVVVGNKCELEFKDVRREIA 176
            +D  +L ++VDD+ ++  + + +++ +     K     P V++GNK ++  + V  E A
Sbjct: 79  GSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEA 138
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKE 205
           +     +    + E SAK+  N+   F+E
Sbjct: 139 QAWCRDNGDYPYFETSAKDATNVAAAFEE 167

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 53.9 bits (128), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 42/153 (27%), Positives = 73/153 (47%), Gaps = 2/153 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++ +F  D F S +  T+    +      DG ++ L I DT+G  +F  +       
Sbjct: 19  KTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIA 180
           A   +LVY + +  ++D +++    I       V  +++GNKC++  K  V +E  E +A
Sbjct: 79  AMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLA 138
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           L D+   F+E SAK N N+   F  L    K +
Sbjct: 139 L-DYGIKFMETSAKANINVENAFFTLARDIKAK 170

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 53.9 bits (128), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 42/153 (27%), Positives = 73/153 (47%), Gaps = 2/153 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++ +F  D F S +  T+    +      DG ++ L I DT+G  +F  +       
Sbjct: 21  KTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIA 180
           A   +LVY + +  ++D +++    I       V  +++GNKC++  K  V +E  E +A
Sbjct: 81  AMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLA 140
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           L D+   F+E SAK N N+   F  L    K +
Sbjct: 141 L-DYGIKFMETSAKANINVENAFFTLARDIKAK 172

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 43/148 (29%), Positives = 81/148 (54%), Gaps = 6/148 (4%)
Query: 62  KSSIISQFLYDRFISRYKETV--EELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSI 119
           K+S+I++F+YD F + Y+ T+  + L +  Y L D   + L + DT+G  +F ++    I
Sbjct: 15  KTSLITRFMYDSFDNTYQATIGIDFLSKTMY-LEDRT-VRLQLWDTAGQERFRSLIPSYI 72
Query: 120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFKDVRREIAET 178
             +   V+VY + + +++       + +  +RG  V I++VGNK +L + + +  E  E 
Sbjct: 73  RDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLADKRQITIEEGEQ 132
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKEL 206
            A  +    F+E SAK  YN+ Q+F+ +
Sbjct: 133 RA-KELSVMFIETSAKTGYNVKQLFRRV 159

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 41/146 (28%), Positives = 71/146 (48%), Gaps = 14/146 (9%)
Query: 72  DRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAV 131
           D+F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS    D  ++ +++
Sbjct: 26  DQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSI 84
Query: 132 DDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET------------ 178
           D   + + + +     V      VPI++VGNK +L   +  RRE+A+             
Sbjct: 85  DSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRD 144
Query: 179 IALYDWQCGFVECSAKENYNIVQVFK 204
           +A      G++ECSAK    + +VF+
Sbjct: 145 MANRIGAFGYMECSAKTKDGVREVFE 170

>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 = 53.1 bits (126), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 43/155 (27%), Positives = 72/155 (46%), Gaps = 10/155 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D +   Y  T+    +      DG  + L I DT+G  +F  +       
Sbjct: 29  KSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRG 88
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A   ++VY V D  +++ VK   ++I       V  ++VGNKC+L  K V      +E A
Sbjct: 89  AHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFA 148
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +++ +      F+E SAK   N+ Q F  + A+ K
Sbjct: 149 DSLGI-----PFLETSAKNATNVEQSFMTMAAEIK 178

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 41/151 (27%), Positives = 72/151 (47%), Gaps = 10/151 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S + ++  D F   +  TV    + +       ++ L I DT+G  ++  +       
Sbjct: 35  KTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRG 94
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A  F+L+Y + +  ++  V+D   QI         +++VGNKC+LE + V      R +A
Sbjct: 95  AMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLA 154
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELL 207
           + +        F E SAKEN N+ QVF+ L+
Sbjct: 155 DDLGF-----EFFEASAKENINVKQVFERLV 180

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 43/155 (27%), Positives = 72/155 (46%), Gaps = 10/155 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D +   Y  T+    +      DG  + L I DT+G  +F  +       
Sbjct: 38  KSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRG 97
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A   ++VY V D  +++ VK   ++I       V  ++VGNKC+L  K V      +E A
Sbjct: 98  AHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFA 157
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +++ +      F+E SAK   N+ Q F  + A+ K
Sbjct: 158 DSLGI-----PFLETSAKNATNVEQSFMTMAAEIK 187

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 43/155 (27%), Positives = 72/155 (46%), Gaps = 10/155 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D +   Y  T+    +      DG  + L I DT+G  +F  +       
Sbjct: 12  KSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRG 71
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A   ++VY V D  +++ VK   ++I       V  ++VGNKC+L  K V      +E A
Sbjct: 72  AHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFA 131
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +++ +      F+E SAK   N+ Q F  + A+ K
Sbjct: 132 DSLGI-----PFLETSAKNATNVEQSFMTMAAEIK 161

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 43/155 (27%), Positives = 72/155 (46%), Gaps = 10/155 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D +   Y  T+    +      DG  + L I DT+G  +F  +       
Sbjct: 19  KSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRG 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A   ++VY V D  +++ VK   ++I       V  ++VGNKC+L  K V      +E A
Sbjct: 79  AHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFA 138
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +++ +      F+E SAK   N+ Q F  + A+ K
Sbjct: 139 DSLGI-----PFLETSAKNATNVEQSFMTMAAEIK 168

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 52.4 bits (124), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 43/155 (27%), Positives = 72/155 (46%), Gaps = 10/155 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D +   Y  T+    +      DG  + L I DT+G  +F  +       
Sbjct: 19  KSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRG 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A   ++VY V D  +++ VK   ++I       V  ++VGNKC+L  K V      +E A
Sbjct: 79  AHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFA 138
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +++ +      F+E SAK   N+ Q F  + A+ K
Sbjct: 139 DSLGI-----PFLETSAKNATNVEQSFMTMAAEIK 168

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 52.4 bits (124), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 43/155 (27%), Positives = 71/155 (45%), Gaps = 10/155 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D +   Y  T+    +      +   + L I DT+G  +F  +       
Sbjct: 22  KSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQERFRTITSSYYRG 81
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-----DVRREIA 176
           A   ++VY V D  ++D VK   ++I       V  ++VGNKC+L  K     D  RE+A
Sbjct: 82  AHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCDLVSKRVVTSDEGRELA 141
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           ++  +      F+E SAK  YN+ Q F  +  + K
Sbjct: 142 DSHGI-----KFIETSAKNAYNVEQAFHTMAGEIK 171

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 38/151 (25%), Positives = 74/151 (49%), Gaps = 10/151 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S + ++  D F   +  TV    + +    +  ++ L I DT+G  ++  +       
Sbjct: 18  KTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRG 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A  F+L+Y + +  +++ V+D   QI         +++VGNKC++E + V      R++A
Sbjct: 78  AMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLA 137
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELL 207
           + +        F E SAK+N N+ Q F+ L+
Sbjct: 138 DHLGF-----EFFEASAKDNINVKQTFERLV 163

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 43/155 (27%), Positives = 71/155 (45%), Gaps = 10/155 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D +   Y  T+    +      DG  + L I DT+G  +F  +       
Sbjct: 46  KSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRG 105
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A   ++VY V D  +++ VK   ++I       V  ++VGNKC+L  K V      +E A
Sbjct: 106 AHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFA 165
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +++ +      F+E SAK   N+ Q F    A+ K
Sbjct: 166 DSLGI-----PFLETSAKNATNVEQSFXTXAAEIK 195

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 40/148 (27%), Positives = 73/148 (49%), Gaps = 3/148 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S++ +F  D F    K TV    + +     G ++ L I DT+G  +F ++      +
Sbjct: 39  KTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRS 98
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK--CELEFKDVRREIAETI 179
           A   +LVY +    T+D +    + I         +++VGNK  CE + +++ R+  E  
Sbjct: 99  AKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETD-REITRQQGEKF 157
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELL 207
           A       F E SAK+N+N+ ++F +L+
Sbjct: 158 AQQITGMRFCEASAKDNFNVDEIFLKLV 185

>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 = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 38/151 (25%), Positives = 72/151 (47%), Gaps = 10/151 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S + ++  D F   +  TV    + +    +  ++ L I DT+G  ++  +       
Sbjct: 21  KTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRG 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A  F+L Y + +  +++ V+D   QI         +++VGNKC+ E + V      R++A
Sbjct: 81  AXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDXEDERVVSSERGRQLA 140
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELL 207
           + +        F E SAK+N N+ Q F+ L+
Sbjct: 141 DHLGF-----EFFEASAKDNINVKQTFERLV 166

>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 = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 42/155 (27%), Positives = 72/155 (46%), Gaps = 10/155 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++ +F  D +   Y  T+    +      DG  + L I DT+G  +F  +       
Sbjct: 29  KNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRG 88
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A   ++VY V D  +++ VK   ++I       V  ++VGNKC+L  K V      +E A
Sbjct: 89  AHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFA 148
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +++ +      F+E SAK   N+ Q F  + A+ K
Sbjct: 149 DSLGI-----PFLETSAKNATNVEQSFMTMAAEIK 178

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 36/125 (28%), Positives = 68/125 (54%), Gaps = 9/125 (7%)
Query: 94  DGAQLTL---DILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNK 150
           DG + +L   DI +  G    P      ++  DA+V+VY+V D  +++   +LR Q+   
Sbjct: 50  DGEEASLMVYDIWEQDGGRWLPGH---CMAMGDAYVIVYSVTDKGSFEKASELRVQLRRA 106
Query: 151 RGL-MVPIVVVGNKCEL-EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLA 208
           R    VPI++VGNK +L   ++V  +     A+  + C F+E SA  ++N+  +F+ ++ 
Sbjct: 107 RQTDDVPIILVGNKSDLVRSREVSVDEGRACAVV-FDCKFIETSAALHHNVQALFEGVVR 165
Query: 209 QAKVQ 213
           Q +++
Sbjct: 166 QIRLR 170

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 50.8 bits (120), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 36/125 (28%), Positives = 68/125 (54%), Gaps = 9/125 (7%)
Query: 94  DGAQLTL---DILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNK 150
           DG + +L   DI +  G    P      ++  DA+V+VY+V D  +++   +LR Q+   
Sbjct: 50  DGEEASLMVYDIWEQDGGRWLPGH---CMAMGDAYVIVYSVTDKGSFEKASELRVQLRRA 106
Query: 151 RGL-MVPIVVVGNKCEL-EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLA 208
           R    VPI++VGNK +L   ++V  +     A+  + C F+E SA  ++N+  +F+ ++ 
Sbjct: 107 RQTDDVPIILVGNKSDLVRSREVSVDEGRACAVV-FDCKFIETSAALHHNVQALFEGVVR 165
Query: 209 QAKVQ 213
           Q +++
Sbjct: 166 QIRLR 170

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 50.8 bits (120), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 83/161 (51%), Gaps = 8/161 (4%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQL-TLDILDTSGAYQFPAMRELSIS 120
           K+S++ +++ D++  +YK T+      +    DG ++ T+ + DT+G  +F ++      
Sbjct: 21  KTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYR 80
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGL----MVPIVVVGNKCELE--FKDVRRE 174
            AD  VLVY V +AS+++ +K  R++ +    +      P V++GNK + E   K V  +
Sbjct: 81  GADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEK 140
Query: 175 IAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYN 215
            A+ +A           SAK   N+   F+E +A++ +Q N
Sbjct: 141 SAQELAKSLGDIPLFLTSAKNAINVDTAFEE-IARSALQQN 180

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 50.8 bits (120), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 35/147 (23%), Positives = 76/147 (51%), Gaps = 4/147 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KSS++ +F+ D+F+   + T+      +    + A +  +I DT+G  ++ ++  +    
Sbjct: 25  KSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRG 84
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL 181
           A A ++V+ V + ++++  K   +++  +    + + + GNK +L   D R+  AE    
Sbjct: 85  AAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDL--LDARKVTAEDAQT 142
Query: 182 YDWQCG--FVECSAKENYNIVQVFKEL 206
           Y  + G  F+E SAK   N+ ++F E+
Sbjct: 143 YAQENGLFFMETSAKTATNVKEIFYEI 169

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 50.4 bits (119), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 73/160 (45%), Gaps = 22/160 (13%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  F  D F   Y  TV E +  + E+ DG Q+ L + DT+G   +  +R LS   
Sbjct: 38  KTCLLIVFSKDEFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPD 96
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET-- 178
            D  ++ ++VD   + + + +     V      VPI++V NK +L   + VR E+A    
Sbjct: 97  TDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEHVRTELARMKQ 156
Query: 179 --------------IALYDWQCGFVECSAKENYNIVQVFK 204
                         I  YD    ++ECSAK    + +VF+
Sbjct: 157 EPVRTDDGRAMAVRIQAYD----YLECSAKTKEGVREVFE 192

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 50.4 bits (119), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 36/125 (28%), Positives = 68/125 (54%), Gaps = 9/125 (7%)
Query: 94  DGAQLTL---DILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNK 150
           DG + +L   DI +  G    P      ++  DA+V+VY+V D  +++   +LR Q+   
Sbjct: 45  DGEEASLMVYDIWEQDGGRWLPGH---CMAMGDAYVIVYSVTDKGSFEKASELRVQLRRA 101
Query: 151 RGL-MVPIVVVGNKCEL-EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLA 208
           R    VPI++VGNK +L   ++V  +     A+  + C F+E SA  ++N+  +F+ ++ 
Sbjct: 102 RQTDDVPIILVGNKSDLVRSREVSVDEGRACAVV-FDCKFIETSAALHHNVQALFEGVVR 160
Query: 209 QAKVQ 213
           Q +++
Sbjct: 161 QIRLR 165

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/137 (24%), Positives = 73/137 (53%), Gaps = 8/137 (5%)
Query: 92  LPDGAQLT---LDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV 148
           + DG   T   LD+ +  G  ++  + +  +   DA+++VY++ D ++++   +LR Q+ 
Sbjct: 50  MVDGESATIILLDMWENKGENEW--LHDHXMQVGDAYLIVYSITDRASFEKASELRIQLR 107
Query: 149 NKRGLM-VPIVVVGNKCEL-EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
             R    +PI++VGNK +L   ++V        A+  + C F+E SA   +N+ ++F+ +
Sbjct: 108 RARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVV-FDCKFIETSAAVQHNVKELFEGI 166
Query: 207 LAQAKVQYNLSPAVRRR 223
           + Q +++ +      RR
Sbjct: 167 VRQVRLRRDSKEKNERR 183

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 48/197 (24%), Positives = 88/197 (44%), Gaps = 21/197 (10%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D + + Y  T+    + +    DG  + L I DT+G  +F  +       
Sbjct: 21  KSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRG 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-----DVRREIA 176
           +   ++VY V D  +++ VK   ++I       V  ++VGNKC+L+ K     DV +E A
Sbjct: 81  SHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFA 140
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK---VQYNLSPAVRRRRQSLPNYIGT 233
           +   +      F+E SA ++ N+   F  +  Q K    Q NL+   +++          
Sbjct: 141 DANKM-----PFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDK------- 188
Query: 234 TGSASSKGRYMLKRNSC 250
            G+ + KG+ +     C
Sbjct: 189 -GNVNLKGQSLTNTGGC 204

>pdb|3IZY|P Chain P, Mammalian Mitochondrial Translation Initiation Factor 2 Length = 537

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 37/103 (35%), Positives = 48/103 (46%), Gaps = 9/103 (8%)
Query: 86  HRGEY--ELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDL 143
           H G +   LP G ++T   LDT G   F AMR       D  +LV A DD     V+K  
Sbjct: 40  HIGAFLVSLPSGEKITF--LDTPGHAAFSAMRARGTQVTDIVILVVAADDG----VMKQT 93
Query: 144 REQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQC 186
            E I + +   VPIV+  NKC+    D  +   E +A YD  C
Sbjct: 94  VESIQHAKDAHVPIVLAINKCDKAEADPEKVKKELLA-YDVVC 135

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 46/148 (31%), Positives = 80/148 (54%), Gaps = 7/148 (4%)
Query: 62  KSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSI 119
           KSS+I ++    F   YK+T  V+ L R + ++ D   + L + DT+G  +F A+ +   
Sbjct: 18  KSSMIQRYCKGIFTKDYKKTIGVDFLER-QIQVND-EDVRLMLWDTAGQEEFDAITKAYY 75
Query: 120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE-LEFKDVRREIAET 178
             A A VLV++  D  +++ +   RE++V + G  +P  +V NK + L+   ++ E AE 
Sbjct: 76  RGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDSCIKNEEAEG 134
Query: 179 IALYDWQCGFVECSAKENYNIVQVFKEL 206
           +A    +  F   S KE+ N+ +VFK L
Sbjct: 135 LA-KRLKLRFYRTSVKEDLNVSEVFKYL 161

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 40/148 (27%), Positives = 71/148 (47%), Gaps = 4/148 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S + ++  D F   +  TV    + +       ++ L I DT+G  ++  +       
Sbjct: 36  KTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRG 95
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL 181
           A  F+L+Y + +  +++ V+D   QI         +++VGNKC++E  + R    E   L
Sbjct: 96  AMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDME--EERVVPTEKGQL 153
Query: 182 YDWQCG--FVECSAKENYNIVQVFKELL 207
              Q G  F E SAKEN ++ Q F+ L+
Sbjct: 154 LAEQLGFDFFEASAKENISVRQAFERLV 181

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 47/156 (30%), Positives = 83/156 (53%), Gaps = 10/156 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS++  +FL  RFIS Y   +E+ +  E E  D   + L ++DT+     P   E  ++ 
Sbjct: 34  KSALTVKFLTKRFISEYDPNLEDTYSSE-ETVDHQPVHLRVMDTAD-LDTPRNCERYLNW 91
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQI---VNKRGLMVPIVVVGNKCEL-EFKDVRREIAE 177
           A AF++VY+VD   ++D      E +     +    +P +++GNK ++ +++ V +  AE
Sbjct: 92  AHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTK--AE 149
Query: 178 TIALYD-WQCGFVECSAKENYNIVQ-VFKELLAQAK 211
            +AL   + C F E SA  ++  VQ VF E + +A+
Sbjct: 150 GVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREAR 185

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 49/188 (26%), Positives = 85/188 (45%), Gaps = 22/188 (11%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D + + Y  T+    + +    DG  + L I DT+G  +F  +       
Sbjct: 21  KSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRG 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-----DVRREIA 176
           +   ++VY V D  +++ VK   ++I       V  ++VGNKC+L+ K     DV +E A
Sbjct: 81  SHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFA 140
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK---VQYNLSPAVRRRR--------- 224
           +   +      F+E SA ++ N+   F  +  Q K    Q NL+   +++          
Sbjct: 141 DANKM-----PFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVNLKG 195
Query: 225 QSLPNYIG 232
           QSL N  G
Sbjct: 196 QSLTNTGG 203

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 40/156 (25%), Positives = 76/156 (48%), Gaps = 3/156 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F+ D+F   +  T+    + +    +G ++ L + DT+G  +F  +       
Sbjct: 33  KSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRG 92
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL 181
           A   +LVY V D  T+  +K   + +         +++VGNK ++E + V  +  E +A 
Sbjct: 93  AMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVVTADQGEALA- 151
Query: 182 YDWQCGFVECSAKENYNIVQVFKEL--LAQAKVQYN 215
            +    F+E SAK + N+ ++F  L  L Q K+  N
Sbjct: 152 KELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 187

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 40/156 (25%), Positives = 76/156 (48%), Gaps = 3/156 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F+ D+F   +  T+    + +    +G ++ L I DT+G  +F  +       
Sbjct: 16  KSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRG 75
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL 181
           A   +LVY + D  T+  +K   + +         +++VGNK ++E + V  +  E +A 
Sbjct: 76  AMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVVTADQGEALA- 134
Query: 182 YDWQCGFVECSAKENYNIVQVFKEL--LAQAKVQYN 215
            +    F+E SAK + N+ ++F  L  L Q K+  N
Sbjct: 135 KELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 170

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 40/156 (25%), Positives = 76/156 (48%), Gaps = 3/156 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F+ D+F   +  T+    + +    +G ++ L + DT+G  +F  +       
Sbjct: 20  KSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRG 79
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL 181
           A   +LVY V D  T+  +K   + +         +++VGNK ++E + V  +  E +A 
Sbjct: 80  AMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVVTADQGEALA- 138
Query: 182 YDWQCGFVECSAKENYNIVQVFKEL--LAQAKVQYN 215
            +    F+E SAK + N+ ++F  L  L Q K+  N
Sbjct: 139 KELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 174

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 34/115 (29%), Positives = 62/115 (53%), Gaps = 5/115 (4%)
Query: 94  DGAQLTLDILDTSGAYQFPAM--RELSISTADAFVLVYAVDDASTWDVVKDLREQIV-NK 150
           DG   TL ++DT  A +      +E  +    A+V+VY++ D  +++   +LR Q+    
Sbjct: 48  DGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTH 107
Query: 151 RGLMVPIVVVGNKCEL-EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFK 204
           +   VPI++VGNK +L   ++V  E     A+  + C F+E SA   +N+ ++F+
Sbjct: 108 QADHVPIILVGNKADLARCREVSVEEGRACAVV-FDCKFIETSATLQHNVAELFE 161

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 42/155 (27%), Positives = 71/155 (45%), Gaps = 10/155 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D +   Y  T+    +      DG  + L I DT+G  +F  +       
Sbjct: 21  KSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRG 80
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A   ++VY V D  +++ VK   ++I       V  ++VG KC+L  K V      +E A
Sbjct: 81  AHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCDLTTKKVVDYTTAKEFA 140
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +++ +      F+E SAK   N+ Q F  + A+ K
Sbjct: 141 DSLGI-----PFLETSAKNATNVEQSFMTMAAEIK 170

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 40/156 (25%), Positives = 75/156 (48%), Gaps = 3/156 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F+ D+F   +  T+    + +    +G ++ L I DT+G  +F  +       
Sbjct: 16  KSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRG 75
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL 181
           A   +LVY + D  T+  +K   + +         +++VGNK + E + V  +  E +A 
Sbjct: 76  AXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXETRVVTADQGEALA- 134
Query: 182 YDWQCGFVECSAKENYNIVQVFKEL--LAQAKVQYN 215
            +    F+E SAK + N+ ++F  L  L Q K+  N
Sbjct: 135 KELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 170

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 42/157 (26%), Positives = 70/157 (44%), Gaps = 14/157 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S++  F    F   Y  TV E +    ++  G  + L I DT+G   +  +R L    
Sbjct: 47  KTSLLMVFADGAFPESYTPTVFERYMVNLQV-KGKPVHLHIWDTAGQDDYDRLRPLFYPD 105
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE-----FKDVRREIA 176
           A   +L + V   +++D + +     VN     VPI+VVG K +L         +RR   
Sbjct: 106 ASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGL 165
Query: 177 ETIALYDWQ--------CGFVECSAKENYNIVQVFKE 205
           E +  +  Q          ++ECSA+ + N+  VF+E
Sbjct: 166 EPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQE 202

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 40/156 (25%), Positives = 75/156 (48%), Gaps = 3/156 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F+ D+F   +  T+    + +    +G ++ L + DT+G  +F  +       
Sbjct: 16  KSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRG 75
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL 181
           A   +LVY V D  T+  +K   + +         +++VGNK + E + V  +  E +A 
Sbjct: 76  AXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXETRVVTADQGEALA- 134
Query: 182 YDWQCGFVECSAKENYNIVQVFKEL--LAQAKVQYN 215
            +    F+E SAK + N+ ++F  L  L Q K+  N
Sbjct: 135 KELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 170

>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 = 48.1 bits (113), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 42/155 (27%), Positives = 70/155 (45%), Gaps = 10/155 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D +   Y  T+    +      DG  + L I DT+G  +F  +       
Sbjct: 22  KSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRG 81
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A   ++VY V D  ++  VK   ++I       V  ++VGNK +L  K V      +E A
Sbjct: 82  AHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTKKVVDNTTAKEFA 141
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +++ +      F+E SAK   N+ Q F  + A+ K
Sbjct: 142 DSLGI-----PFLETSAKNATNVEQAFMTMAAEIK 171

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 48.1 bits (113), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 32/127 (25%), Positives = 70/127 (55%), Gaps = 8/127 (6%)
Query: 92  LPDGAQLT---LDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV 148
           + DG   T   LD+ +  G  ++  + +  +   DA+++VY++ D ++++   +LR Q+ 
Sbjct: 81  MVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLR 138
Query: 149 NKRGLM-VPIVVVGNKCEL-EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
             R    +PI++VGNK +L   ++V        A+  + C F+E SA   +N+ ++F+ +
Sbjct: 139 RARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVV-FDCKFIETSAAVQHNVKELFEGI 197
Query: 207 LAQAKVQ 213
           + Q +++
Sbjct: 198 VRQVRLR 204

>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 = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 43/160 (26%), Positives = 72/160 (45%), Gaps = 10/160 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D +   Y  T+    +      DG  + L I DT+G  +F  +       
Sbjct: 22  KSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRG 81
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-----RREIA 176
           A   ++VY V D  ++  VK   ++I       V  ++VGNK +L  K V      +E A
Sbjct: 82  AHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTKKVVDNTTAKEFA 141
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNL 216
           +++ +      F+E SAK   N+ Q F  + A+ K +  L
Sbjct: 142 DSLGI-----PFLETSAKNATNVEQAFMTMAAEIKKRMGL 176

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 47.8 bits (112), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPTVFDNYAVTVXI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 47.8 bits (112), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 32/127 (25%), Positives = 70/127 (55%), Gaps = 8/127 (6%)
Query: 92  LPDGAQLT---LDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV 148
           + DG   T   LD+ +  G  ++  + +  +   DA+++VY++ D ++++   +LR Q+ 
Sbjct: 50  MVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLR 107
Query: 149 NKRGLM-VPIVVVGNKCEL-EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
             R    +PI++VGNK +L   ++V        A+  + C F+E SA   +N+ ++F+ +
Sbjct: 108 RARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVV-FDCKFIETSAAVQHNVKELFEGI 166
Query: 207 LAQAKVQ 213
           + Q +++
Sbjct: 167 VRQVRLR 173

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 47.4 bits (111), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 19  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 78  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 137
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 138 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 179

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 47.4 bits (111), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 19  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 78  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 137
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 138 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 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 = 47.4 bits (111), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 47.4 bits (111), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 18  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 76
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 77  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 136
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 137 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 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 = 47.4 bits (111), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 23  KNCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 81
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 82  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 141
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 142 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 183

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 47.4 bits (111), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>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 = 47.4 bits (111), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 50/204 (24%), Positives = 92/204 (45%), Gaps = 35/204 (17%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F + Y  TV +       + DG  + L + DT+G   +  +R LS   
Sbjct: 22  KTCMLICYTSNKFPTDYIPTVFDNFSANVAV-DGQIVNLGLWDTAGQEDYSRLRPLSYRG 80
Query: 122 ADAFVLVYA-VDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
           AD FVL ++ +  AS  +V+K    ++  +    VPIV+VG K  L+ +D +  +A+   
Sbjct: 81  ADIFVLAFSLISKASYENVLKKWMPEL-RRFAPNVPIVLVGTK--LDLRDDKGYLADHTN 137
Query: 181 LYDWQCG-----------FVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPN 229
           +     G           ++ECS+K   N+  VF        ++  L P    RR+ +P 
Sbjct: 138 VITSTQGEELRKQIGAAAYIECSSKTQQNVKAVF-----DTAIKVVLQPP---RRKEVP- 188
Query: 230 YIGTTGSASSKGRYMLKRNSCTVA 253
                     + R   +R+ C++A
Sbjct: 189 ----------RRRKNHRRSGCSIA 202

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 47.0 bits (110), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 23  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 81
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 82  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 141
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 142 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 183

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 47.0 bits (110), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 47.0 bits (110), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 17  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 75
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 76  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 135
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 136 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 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 = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 20  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGLEDYDRLRPLSYPQ 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 79  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 138
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 139 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 180

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 26  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 84
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 85  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 144
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 145 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 186

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGLEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>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 = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 40/165 (24%), Positives = 82/165 (49%), Gaps = 11/165 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           K++ + + L   F  +Y  T+  E+H   +    G ++  D+ DT+G  +F  +R+    
Sbjct: 25  KTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFG-EIKFDVWDTAGLEKFGGLRDGYYI 83
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            A   ++++ V    T+  V +    +V +    +PIV+ GNK +++ + V+   A+TI 
Sbjct: 84  NAQCAIIMFDVTSRITYKNVPNWHRDLV-RVCENIPIVLCGNKVDVKERKVK---AKTIT 139
Query: 181 LY-DWQCGFVECSAKENYNIVQVF----KELLAQAKVQYNLSPAV 220
            +      + + SAK NYN  + F    ++L    ++++  SPA+
Sbjct: 140 FHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNPQLEFVASPAL 184

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 41/143 (28%), Positives = 65/143 (45%), Gaps = 2/143 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ QF   RF   +  T+           DG Q+ L I DT+G   F ++       
Sbjct: 34  KSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRG 93
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-KDVRREIAETIA 180
           A   +LVY +    T++ +    E         + I+++GNK +LE  +DV+RE  E  A
Sbjct: 94  AAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFA 153
Query: 181 LYDWQCGFVECSAKENYNIVQVF 203
             +    F+E SAK   N+ + F
Sbjct: 154 -REHGLIFMETSAKTACNVEEAF 175

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 42/169 (24%), Positives = 81/169 (47%), Gaps = 8/169 (4%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           KS+++S+F  D F    K T+  E      +L +   +   I DT+G  ++ A+      
Sbjct: 20  KSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTAGQERYRAITSAYYR 79
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            A   +LVY +   ++++ ++   +++ +     + I++VGNK +L+   V  +   T  
Sbjct: 80  GAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKSDLKHLRVINDNDATQY 139
Query: 181 LYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLPN 229
               +  F+E SA E  N+   F +LL +    YN    VR+++Q+  N
Sbjct: 140 AKKEKLAFIETSALEATNVELAFHQLLNEI---YN----VRQKKQATKN 181

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 20  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 79  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 138
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 139 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 180

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>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 = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 18  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 76
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 77  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 136
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 137 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 178

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAA 176

>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 = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAA 176

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 36/142 (25%), Positives = 77/142 (54%), Gaps = 18/142 (12%)
Query: 92  LPDGAQLT---LDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV 148
           + DG   T   LD+ +  G  ++  + +  +   DA+++VY++ D ++++   +LR Q+ 
Sbjct: 50  MVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLR 107
Query: 149 NKRGLM-VPIVVVGNKCELEFKDVR-REIAET-----IALYDWQCGFVECSAKENYNIVQ 201
             R    +PI++VGNK +L    VR RE++ +       ++D +  F+E SA   +N+ +
Sbjct: 108 RARQTEDIPIILVGNKSDL----VRXREVSVSEGRAXAVVFDXK--FIETSAAVQHNVKE 161
Query: 202 VFKELLAQAKVQYNLSPAVRRR 223
           +F+ ++ Q +++ +      RR
Sbjct: 162 LFEGIVRQVRLRRDSKEKNERR 183

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 41/155 (26%), Positives = 73/155 (47%), Gaps = 10/155 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ +F  D + + Y  T+    + +    DG  + L I DT+G  +F  +       
Sbjct: 34  KSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRG 93
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-----DVRREIA 176
           +   ++VY V D  +++ VK   ++I       V  ++VGNKC+L+ K     DV +E A
Sbjct: 94  SHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFA 153
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +   +      F+E SA ++ N+   F  +  Q K
Sbjct: 154 DANKM-----PFLETSALDSTNVEDAFLTMARQIK 183

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 39/167 (23%), Positives = 75/167 (44%), Gaps = 15/167 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S++  +  + + + Y  T  +       + DG  + L + DT+G  +F  +R L  + 
Sbjct: 33  KTSLVVSYTTNGYPTEYIPTAFDNFSAVVSV-DGRPVRLQLCDTAGQDEFDKLRPLCYTN 91
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F+L ++V   S++  V +     +       PI++VG + +L             + 
Sbjct: 92  TDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLREDVKVLIELDKCKE 151
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYN 215
           K V  E A+ +A       ++ECSA    N+ +VF   +  A +QY+
Sbjct: 152 KPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIV-AGIQYS 197

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 37/147 (25%), Positives = 75/147 (51%), Gaps = 4/147 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S++ ++  ++F  ++  T++     +     G ++ L I DT+G  +F A+  +    
Sbjct: 33  KTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRD 92
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL 181
           ++  +LVY + D  ++  VK+  +++    G  + + +VGNK +LE K+    I E  + 
Sbjct: 93  SNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE-KERHVSIQEAES- 150
Query: 182 YDWQCG--FVECSAKENYNIVQVFKEL 206
           Y    G      SAK+N  I ++F +L
Sbjct: 151 YAESVGAKHYHTSAKQNKGIEELFLDL 177

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 45/159 (28%), Positives = 74/159 (46%), Gaps = 10/159 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ QF   +F++    T+            G ++ L I DT+G  +F A+       
Sbjct: 43  KSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQGRFRAVTRSYYRG 102
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP---IVVVGNKCELEF-KDVRREIAE 177
           A   ++VY +   ST++    L   + + R L  P   I+++GNK +LE  +DV  E A+
Sbjct: 103 AAGALMVYDITRRSTYN---HLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAK 159
Query: 178 TIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNL 216
             A  +    F+E SAK   N+   F E  A  K+  N+
Sbjct: 160 QFAEENGLL-FLEASAKTGENVEDAFLE--AAKKIYQNI 195

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLRDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 42/164 (25%), Positives = 71/164 (43%), Gaps = 38/164 (23%)
Query: 62  KSSIISQFLYDRFISRYKETV------------EELHRGEYELPDGAQLTLDILDTSGAY 109
           KSSI+ +F+ D F      T+             ELH+              I DT+G  
Sbjct: 18  KSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHK------------FLIWDTAGQE 65
Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK 169
           +F A+  +    + A ++VY +    T+  +K+   ++       + + + GNKC+L   
Sbjct: 66  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDL--T 123
Query: 170 DVR-------REIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
           DVR       ++ A++I        FVE SAK   NI ++F E+
Sbjct: 124 DVREVMERDAKDYADSI-----HAIFVETSAKNAININELFIEI 162

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 42/148 (28%), Positives = 69/148 (46%), Gaps = 8/148 (5%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ QF   +F++    T+            G ++ L I DT+G  +F A+       
Sbjct: 28  KSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRG 87
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP---IVVVGNKCELEF-KDVRREIAE 177
           A   ++VY +   ST++    L   + + R L  P   I+++GNK +LE  +DV  E A+
Sbjct: 88  AAGALMVYDITRRSTYN---HLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAK 144
Query: 178 TIALYDWQCGFVECSAKENYNIVQVFKE 205
             A  +    F+E SAK   N+   F E
Sbjct: 145 QFAEENGLL-FLEASAKTGENVEDAFLE 171

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 37/147 (25%), Positives = 75/147 (51%), Gaps = 4/147 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S++ ++  ++F  ++  T++     +     G ++ L I DT+G  +F A+  +    
Sbjct: 19  KTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRD 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL 181
           ++  +LVY + D  ++  VK+  +++    G  + + +VGNK +LE K+    I E  + 
Sbjct: 79  SNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE-KERHVSIQEAES- 136
Query: 182 YDWQCG--FVECSAKENYNIVQVFKEL 206
           Y    G      SAK+N  I ++F +L
Sbjct: 137 YAESVGAKHYHTSAKQNKGIEELFLDL 163

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 37/145 (25%), Positives = 71/145 (48%), Gaps = 14/145 (9%)
Query: 73  RFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVD 132
           +F   Y  TV E +  + E+ DG ++ L + DT+G   +  +R LS   ++  ++ +++D
Sbjct: 34  QFPEVYVPTVFENYVADVEV-DGRRVELALWDTAGQEDYDRLRPLSYPDSNVVLICFSID 92
Query: 133 DASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE-----FKDVRREIAETIALYDWQ-- 185
              + + V++     V      VPI++VG K +L       + +R+E  + +   + Q  
Sbjct: 93  LPDSLENVQEKWIAEVLHFCQGVPIILVGCKVDLRNDPQTIEQLRQEGQQPVTSQEGQSV 152
Query: 186 ------CGFVECSAKENYNIVQVFK 204
                  G+ ECSAK  Y + +VF+
Sbjct: 153 ADQIGATGYYECSAKTGYGVREVFE 177

>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 = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 42/164 (25%), Positives = 71/164 (43%), Gaps = 38/164 (23%)
Query: 62  KSSIISQFLYDRFISRYKETV------------EELHRGEYELPDGAQLTLDILDTSGAY 109
           KSSI+ +F+ D F      T+             ELH+              I DT+G  
Sbjct: 19  KSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHK------------FLIWDTAGLE 66
Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK 169
           +F A+  +    + A ++VY +    T+  +K+   ++       + + + GNKC+L   
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDL--T 124
Query: 170 DVR-------REIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
           DVR       ++ A++I        FVE SAK   NI ++F E+
Sbjct: 125 DVREVMERDAKDYADSI-----HAIFVETSAKNAININELFIEI 163

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 38/162 (23%), Positives = 70/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++F S Y   V + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKFPSEYVPAVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 37/159 (23%), Positives = 69/159 (43%), Gaps = 14/159 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  D F   Y  TV + H        G Q  L + DT+G   +  +R LS   
Sbjct: 31  KTCLLMSYANDAFPEEYVPTVFD-HYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPM 89
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V + +++  VK+     + +    VP +++G + +L             + 
Sbjct: 90  TDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKE 149
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL 207
           K +  E  + +A     C +VECSA     +  VF E +
Sbjct: 150 KPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAI 188

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 38/162 (23%), Positives = 70/162 (43%), Gaps = 14/162 (8%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  ++  S Y  TV + +     +  G   TL + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNKLPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-------------EF 168
            D F++ ++V   S+++ VK+     +       P ++VG + +L             + 
Sbjct: 75  TDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQ 134
Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           K +  E AE +A       +VECSA     +  VF E +  A
Sbjct: 135 KPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 39/143 (27%), Positives = 65/143 (45%), Gaps = 2/143 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS ++ QF   RF   +  T+           DG Q+ L I DT+G   F ++       
Sbjct: 23  KSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRG 82
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-KDVRREIAETIA 180
           A   +LVY +    T++ +    E         + I+++GNK +LE  ++V++E  E  A
Sbjct: 83  AAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSDLESRREVKKEEGEAFA 142
Query: 181 LYDWQCGFVECSAKENYNIVQVF 203
             +    F+E SAK   N+ + F
Sbjct: 143 -REHGLIFMETSAKTASNVEEAF 164

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 41/156 (26%), Positives = 73/156 (46%), Gaps = 16/156 (10%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLT-LDILDTSGAYQFPAMRELSIS 120
           KSSI+ +F+ D F      T+      +  +P G +L    I DT+G  +F ++  +   
Sbjct: 36  KSSIVCRFVQDHFDHNISPTIGASFMTK-TVPCGNELHKFLIWDTAGQERFHSLAPMYYR 94
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR-------R 173
            + A V+VY +    ++  +K   +++       + + + GNKC+L   D+R       +
Sbjct: 95  GSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDL--SDIREVPLKDAK 152
Query: 174 EIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           E AE+I         VE SAK   NI ++F+ +  Q
Sbjct: 153 EYAESIGAI-----VVETSAKNAINIEELFQGISRQ 183

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 39/157 (24%), Positives = 72/157 (45%), Gaps = 8/157 (5%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KSS + +   + F      T+    + +  + DG +  L + DT+G  +F ++ +     
Sbjct: 41  KSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRK 100
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE-------FKDVRRE 174
           AD  +L+Y V    ++  +++  + I +     VPI++VGNK ++         K V   
Sbjct: 101 ADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGH 160
Query: 175 IAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
             E +A+  +   F E SAK+  NIV+    L  + K
Sbjct: 161 FGEKLAM-TYGALFCETSAKDGSNIVEAVLHLAREVK 196

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 37/147 (25%), Positives = 74/147 (50%), Gaps = 4/147 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+S++ ++  ++F  ++  T+      +     G ++ L I DT+G  +F A+  +    
Sbjct: 19  KTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRD 78
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL 181
           ++  +LVY + D  ++  VK+  +++    G  + + +VGNK +LE K+    I E  + 
Sbjct: 79  SNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE-KERHVSIQEAES- 136
Query: 182 YDWQCG--FVECSAKENYNIVQVFKEL 206
           Y    G      SAK+N  I ++F +L
Sbjct: 137 YAESVGAKHYHTSAKQNKGIEELFLDL 163

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 46/157 (29%), Positives = 75/157 (47%), Gaps = 12/157 (7%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KSS++ +F  + F   Y  T+    +      +G ++ L I DT+G  +F  +       
Sbjct: 22  KSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRG 81
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL 181
               ++VY V  A ++  VK    +I N+    V  ++VGNK +    D  R++ ET   
Sbjct: 82  THGVIVVYDVTSAESFVNVKRWLHEI-NQNCDDVCRILVGNKND----DPERKVVETEDA 136
Query: 182 YDW--QCG--FVECSAKENYNIVQVFK---ELLAQAK 211
           Y +  Q G    E SAKEN N+ ++F    EL+ +AK
Sbjct: 137 YKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAK 173

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 68/153 (44%), Gaps = 12/153 (7%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  + F + Y  TV +       + +GA + L + DT+G   +  +R LS   
Sbjct: 21  KTCLLISYTSNTFPTDYVPTVFDNFSANVVV-NGATVNLGLWDTAGQEDYNRLRPLSYRG 79
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE-----FKDVRREI- 175
           AD F+L +++   ++++ V       +      VPIV+VG K +L      F D    + 
Sbjct: 80  ADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVP 139
Query: 176 -----AETIALYDWQCGFVECSAKENYNIVQVF 203
                 E +        ++ECS+K   N+  VF
Sbjct: 140 ITTVQGEELKKLIGAPAYIECSSKSQENVKGVF 172

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 36/144 (25%), Positives = 71/144 (49%), Gaps = 7/144 (4%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           K++ + + L   F  +Y  T+  E+H   +    G ++  D+ DT+G  +F  +R+    
Sbjct: 18  KTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFG-EIKFDVWDTAGLEKFGGLRDGYYI 76
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            A   ++++ V    T+  V +    +V +    +PIV+ GNK +++ + V+   A+TI 
Sbjct: 77  NAQCAIIMFDVTSRITYKNVPNWHRDLV-RVCENIPIVLCGNKVDVKERKVK---AKTIT 132
Query: 181 LY-DWQCGFVECSAKENYNIVQVF 203
            +      + + SAK NYN  + F
Sbjct: 133 FHRKKNLQYYDISAKSNYNFEKPF 156

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/144 (25%), Positives = 71/144 (49%), Gaps = 7/144 (4%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           K++ + + L   F  +Y  T+  E+H   +    G ++  D+ DT+G  +F  +R+    
Sbjct: 17  KTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFG-EIKFDVWDTAGLEKFGGLRDGYYI 75
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            A   ++++ V    T+  V +    +V +    +PIV+ GNK +++ + V+   A+TI 
Sbjct: 76  NAQCAIIMFDVTSRITYKNVPNWHRDLV-RVCENIPIVLCGNKVDVKERKVK---AKTIT 131
Query: 181 LY-DWQCGFVECSAKENYNIVQVF 203
            +      + + SAK NYN  + F
Sbjct: 132 FHRKKNLQYYDISAKSNYNFEKPF 155

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/111 (27%), Positives = 59/111 (53%), Gaps = 3/111 (2%)
Query: 95  GAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM 154
           G ++ L I DT+G  +F  + +    +A+  +L Y +   S++  V    E +    G  
Sbjct: 75  GKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSN 134
Query: 155 VPIVVVGNKCEL-EFKDVRREIAETIA-LYDWQCGFVECSAKENYNIVQVF 203
           +  +++GNK +L E ++V    A+++A  YD  C  +E SAK++ N+ + F
Sbjct: 135 IVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCA-IETSAKDSSNVEEAF 184

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 40/151 (26%), Positives = 73/151 (48%), Gaps = 6/151 (3%)
Query: 69  FLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV 128
           FL   FIS    TV    R +    DG ++ L + DT+G  +F ++       A A +L+
Sbjct: 35  FLAGTFIS----TVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLL 90
Query: 129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-KDVRREIAETIALYDWQCG 187
           Y V + +++D ++    +I       V ++++GNK +    + V+RE  E +A  ++   
Sbjct: 91  YDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLA-KEYGLP 149
Query: 188 FVECSAKENYNIVQVFKELLAQAKVQYNLSP 218
           F+E SAK   N+   F  +  + K +   +P
Sbjct: 150 FMETSAKTGLNVDLAFTAIAKELKRRSMKAP 180

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 37/165 (22%), Positives = 80/165 (48%), Gaps = 11/165 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           K++ + + L   F  +Y  T+  E+H   +    G  +  ++ DT+G  +F  +R+    
Sbjct: 23  KTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGP-IKFNVWDTAGQEKFGGLRDGYYI 81
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            A   ++++ V    T+  V +    +V +    +PIV+ GNK +++ + V+   A++I 
Sbjct: 82  QAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKVK---AKSIV 137
Query: 181 LY-DWQCGFVECSAKENYNIVQVF----KELLAQAKVQYNLSPAV 220
            +      + + SAK NYN  + F    ++L+    +++   PA+
Sbjct: 138 FHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL 182

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 37/165 (22%), Positives = 80/165 (48%), Gaps = 11/165 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           K++ + + L   F  +Y  T+  E+H   +    G  +  ++ DT+G  +F  +R+    
Sbjct: 16  KTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP-IKFNVWDTAGQEKFGGLRDGYYI 74
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            A   ++++ V    T+  V +    +V +    +PIV+ GNK +++ + V+   A++I 
Sbjct: 75  QAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKVK---AKSIV 130
Query: 181 LY-DWQCGFVECSAKENYNIVQVF----KELLAQAKVQYNLSPAV 220
            +      + + SAK NYN  + F    ++L+    +++   PA+
Sbjct: 131 FHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL 175

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 37/165 (22%), Positives = 80/165 (48%), Gaps = 11/165 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           K++ + + L   F  +Y  T+  E+H   +    G  +  ++ DT+G  +F  +R+    
Sbjct: 28  KTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP-IKFNVWDTAGQEKFGGLRDGYYI 86
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            A   ++++ V    T+  V +    +V +    +PIV+ GNK +++ + V+   A++I 
Sbjct: 87  QAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKVK---AKSIV 142
Query: 181 LY-DWQCGFVECSAKENYNIVQVF----KELLAQAKVQYNLSPAV 220
            +      + + SAK NYN  + F    ++L+    +++   PA+
Sbjct: 143 FHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL 187

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 34/143 (23%), Positives = 70/143 (48%), Gaps = 2/143 (1%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KSS++ +F+  +F    + T++     +    D   +  +I DT+G  ++ ++  +    
Sbjct: 18  KSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRG 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIA 180
           A A ++VY + +  T+   K+  +++  +    + I + GNK +L  K  V  + A+  A
Sbjct: 78  AQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQAYA 137
Query: 181 LYDWQCGFVECSAKENYNIVQVF 203
             D    F+E SAK   N+ ++F
Sbjct: 138 -DDNSLLFMETSAKTAMNVNEIF 159

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 36/153 (23%), Positives = 69/153 (45%), Gaps = 12/153 (7%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  + F + Y  TV +       + DG+ + L + DT+G   +  +R LS   
Sbjct: 19  KTCMLISYTGNTFPTDYVPTVFDNFSANVVV-DGSTVNLGLWDTAGQEDYNRLRPLSYRG 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE-----FKDVRREIA 176
           AD F+L +++   ++++ +       +      +PIV+VG K +L       KD     +
Sbjct: 78  ADVFLLAFSLISKASYENIHKKWLPELKHYAPGIPIVLVGTKLDLRDDKQFLKDHPGAAS 137
Query: 177 ETIALYD------WQCGFVECSAKENYNIVQVF 203
            T A  +          ++ECS+K   N+  VF
Sbjct: 138 ITTAQGEELRKMIGAVRYLECSSKTQQNVKAVF 170

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 41.2 bits (95), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 37/165 (22%), Positives = 80/165 (48%), Gaps = 11/165 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           K++ + + L   F  +Y  T+  E+H   +    G  +  ++ DT+G  +F  +R+    
Sbjct: 23  KTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP-IKFNVWDTAGQEKFGGLRDGYYI 81
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            A   ++++ V    T+  V +    +V +    +PIV+ GNK +++ + V+   A++I 
Sbjct: 82  QAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKVK---AKSIV 137
Query: 181 LY-DWQCGFVECSAKENYNIVQVF----KELLAQAKVQYNLSPAV 220
            +      + + SAK NYN  + F    ++L+    +++   PA+
Sbjct: 138 FHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL 182

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 41.2 bits (95), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 37/165 (22%), Positives = 80/165 (48%), Gaps = 11/165 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           K++ + + L   F  +Y  T+  E+H   +    G  +  ++ DT+G  +F  +R+    
Sbjct: 23  KTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP-IKFNVWDTAGLEKFGGLRDGYYI 81
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            A   ++++ V    T+  V +    +V +    +PIV+ GNK +++ + V+   A++I 
Sbjct: 82  QAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKVK---AKSIV 137
Query: 181 LY-DWQCGFVECSAKENYNIVQVF----KELLAQAKVQYNLSPAV 220
            +      + + SAK NYN  + F    ++L+    +++   PA+
Sbjct: 138 FHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL 182

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 41.2 bits (95), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 39/179 (21%), Positives = 76/179 (42%), Gaps = 17/179 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  + F   Y  TV + +     + DG  + L + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFKDVRREIAE--- 177
            D F++ +++   ++++ V+      V       PI++VG K +L + KD   ++ E   
Sbjct: 75  TDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKL 134
Query: 178 ---------TIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSL 227
                     +A       ++ECSA     +  VF E +          P  +R+R+ L
Sbjct: 135 TPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP---PPVKKRKRKCL 190

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 41.2 bits (95), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 37/165 (22%), Positives = 79/165 (47%), Gaps = 11/165 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           K++ + + L   F  +Y  T+  E+H   +    G  +  ++ DT+G  +F  +R+    
Sbjct: 23  KTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP-IKFNVWDTAGQEKFGGLRDGYYI 81
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIA 180
            A   ++ + V    T+  V +    +V +    +PIV+ GNK +++ + V+   A++I 
Sbjct: 82  QAQCAIIXFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKVK---AKSIV 137
Query: 181 LY-DWQCGFVECSAKENYNIVQVF----KELLAQAKVQYNLSPAV 220
            +      + + SAK NYN  + F    ++L+    +++   PA+
Sbjct: 138 FHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAXPAL 182

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 41.2 bits (95), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 39/179 (21%), Positives = 76/179 (42%), Gaps = 17/179 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  + F   Y  TV + +     + DG  + L + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFKDVRREIAE--- 177
            D F++ +++   ++++ V+      V       PI++VG K +L + KD   ++ E   
Sbjct: 75  TDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKL 134
Query: 178 ---------TIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSL 227
                     +A       ++ECSA     +  VF E +          P  +R+R+ L
Sbjct: 135 TPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP---PPVKKRKRKCL 190

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 41.2 bits (95), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 39/179 (21%), Positives = 76/179 (42%), Gaps = 17/179 (9%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  + F   Y  TV + +     + DG  + L + DT+G   +  +R LS   
Sbjct: 16  KTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDRLRPLSYPQ 74
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFKDVRREIAE--- 177
            D F++ +++   ++++ V+      V       PI++VG K +L + KD   ++ E   
Sbjct: 75  TDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKL 134
Query: 178 ---------TIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSL 227
                     +A       ++ECSA     +  VF E +          P  +R+R+ L
Sbjct: 135 TPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP---PPVKKRKRKCL 190

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 36/153 (23%), Positives = 67/153 (43%), Gaps = 12/153 (7%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           K+ ++  +  + F + Y  TV +       + DG  + L + DT+G   +  +R LS   
Sbjct: 19  KTCMLISYTSNTFPTDYVPTVFDNFSANVVV-DGNTVNLGLWDTAGQEDYNRLRPLSYRG 77
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE-----FKD------ 170
           AD F+L +++   ++++ V       +      VPI++VG K +L      F D      
Sbjct: 78  ADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVP 137
Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVF 203
           +     E +        ++ECS+K   N+  VF
Sbjct: 138 ITTNQGEELKKLIGSPIYIECSSKTQQNVKAVF 170

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 37/148 (25%), Positives = 73/148 (49%), Gaps = 4/148 (2%)
Query: 62  KSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS 120
           KS+++S+F  + F    K T+  E      E+ +G ++   I DT+G  ++ A+      
Sbjct: 26  KSNLLSRFTKNEFNMDSKSTIGVEFATRTLEI-EGKRIKAQIWDTAGQERYRAITSAYYR 84
Query: 121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL-EFKDVRREIAETI 179
            A   ++VY +  +S+++       ++       V + ++GNK +L   + V  E ++T 
Sbjct: 85  GAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTF 144
Query: 180 ALYDWQCGFVECSAKENYNIVQVFKELL 207
           A  + Q  F E SA  + N+ + F+EL+
Sbjct: 145 AQEN-QLLFTETSALNSENVDKAFEELI 171

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 38/153 (24%), Positives = 69/153 (45%), Gaps = 10/153 (6%)
Query: 62  KSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST 121
           KS+++S+F  + F    K T+           DG  +   I DT+G  ++ A+       
Sbjct: 42  KSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRAITSAYYRG 101
Query: 122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-----KDVRREIA 176
           A   +LVY +    T++ V+   +++ +     + I++VGNK +L        D  R  A
Sbjct: 102 AVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFA 161
Query: 177 ETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           E   L      F+E SA ++ N+   F+ +L +
Sbjct: 162 EKNGL-----SFIETSALDSTNVEAAFQTILTE 189

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	253
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	1e-58
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	2e-57
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	2e-54
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	1e-52
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	3e-50
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	4e-50
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	5e-50
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	5e-50
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	6e-50
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	3e-49
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	2e-48
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	4e-48
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	5e-48
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	8e-48
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	2e-47
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	9e-47
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	2e-45
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	8e-45
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	1e-43
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	2e-42
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	4e-42
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	6e-42
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	6e-39
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	2e-38
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	4e-29
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	8e-29
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	6e-27
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	2e-25
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	4e-25
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	2e-24
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	9e-24
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	2e-23
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	3e-23
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	8e-23
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	2e-22
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	6e-22
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-21
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	2e-21
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	4e-21
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	3e-20
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	4e-20
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	5e-20
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	1e-19
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	2e-19
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	2e-19
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	3e-19
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	4e-19
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	1e-18
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	3e-18
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	3e-18
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	4e-18
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	7e-18
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	8e-18
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	9e-18
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-17
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	2e-17
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	2e-17
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	3e-17
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	3e-17
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	5e-17
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	5e-17
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	5e-17
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	6e-17
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	7e-17
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	7e-17
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-16
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	2e-16
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	2e-16
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	2e-16
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	4e-16
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	6e-16
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	6e-16
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	6e-16
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	7e-16
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	1e-15
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-15
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	2e-15
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	2e-15
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	3e-15
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	3e-15
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	5e-15
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-14
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	2e-14
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	2e-13
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	1e-12
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	2e-09
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	2e-09
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	8e-08
3llu_A	196	RAS-related GTP-binding protein C; structural geno	1e-07
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	3e-04
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	6e-04

>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 =  183 bits (468), Expect = 1e-58
 Identities = 72/209 (34%), Positives = 114/209 (54%), Gaps = 17/209 (8%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
           Q +  RVVV G   VGKSS++ +F+   F   Y  T+E+ +R      D +  TL I DT
Sbjct: 5   QSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYRQVISC-DKSVCTLQITDT 63

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVVVGNK 163
           +G++QFPAM+ LSIS   AF+LV++V    + + +  + + IV  +G +  +P+++VGNK
Sbjct: 64  TGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNK 123

Query: 164 CELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRR 223
           C+   ++V    A+ +A  +W+C F+E SAK NYN+ ++F+ELL              RR
Sbjct: 124 CDETQREVDTREAQAVA-QEWKCAFMETSAKMNYNVKELFQELLTL----------ETRR 172

Query: 224 RQSLPNYIGTTGSASSKGRYMLKRNSCTV 252
             SL      +G      R    +  CT+
Sbjct: 173 NMSLNIDGKRSGKQKRTDR---VKGKCTL 198

>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 =  179 bits (457), Expect = 2e-57
 Identities = 70/182 (38%), Positives = 105/182 (57%), Gaps = 15/182 (8%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
             RV V G   VGKSS++ +F+   F   Y  TVE+ +R      D +  TL I DT+G+
Sbjct: 3   DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISC-DKSICTLQITDTTGS 61

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVVVGNKCEL 166
           +QFPAM+ LSIS   AF+LVY++    + + +K + EQI   +G +  +PI++VGNKC+ 
Sbjct: 62  HQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDE 121

Query: 167 EFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQ 225
               +V+   AE +A   W+C F+E SAK N+N+ ++F+ELL             +RR  
Sbjct: 122 SPSREVQSSEAEALA-RTWKCAFMETSAKLNHNVKELFQELLNL----------EKRRTV 170

Query: 226 SL 227
           SL
Sbjct: 171 SL 172

>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 =  172 bits (438), Expect = 2e-54
 Identities = 59/163 (36%), Positives = 100/163 (61%), Gaps = 4/163 (2%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           + +VVV+G   VGKS++  QF+   FI +Y  T+E+ +R E E+ D +   L+ILDT+G 
Sbjct: 3   EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEV-DSSPSVLEILDTAGT 61

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELE 167
            QF +MR+L I     F+LVY++ +  ++  +K +R+QI+  +    VP+++VGNK +LE
Sbjct: 62  EQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLE 121

Query: 168 FK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            + +V       +A  +W C F+E SAK    + ++F E++ Q
Sbjct: 122 SEREVSSSEGRALA-EEWGCPFMETSAKSKTMVDELFAEIVRQ 163

>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 =  167 bits (426), Expect = 1e-52
 Identities = 63/163 (38%), Positives = 103/163 (63%), Gaps = 3/163 (1%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           + ++VV+G   VGKS++  QF+   F+ +Y  T+E+ +R + E+ D  Q  L+ILDT+G 
Sbjct: 3   EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEV-DCQQCMLEILDTAGT 61

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELE 167
            QF AMR+L +     F LVY++   ST++ ++DLREQI+  +    VP+++VGNKC+LE
Sbjct: 62  EQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE 121

Query: 168 FK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            +  V +E  + +A     C F+E SAK   N+ ++F +L+ Q
Sbjct: 122 DERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQ 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 =  161 bits (409), Expect = 3e-50
 Identities = 50/162 (30%), Positives = 91/162 (56%), Gaps = 3/162 (1%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           + ++VV+G   VGKS++  Q + + F+     T+E+ +R +  + DG    LDILDT+G 
Sbjct: 3   EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYRKQVVI-DGETCLLDILDTAGQ 61

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELE 167
            ++ AMR+  + T + F+ V+A+++  +++ +   REQI   K    VP+V+VGNK +L 
Sbjct: 62  EEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLA 121

Query: 168 FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            + V    A+ +A   +   ++E SAK    +   F  L+ +
Sbjct: 122 ARTVESRQAQDLA-RSYGIPYIETSAKTRQGVEDAFYTLVRE 162

>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 =  161 bits (410), Expect = 4e-50
 Identities = 55/181 (30%), Positives = 97/181 (53%), Gaps = 13/181 (7%)

Query: 50  RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
            ++VV+G   VGKS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G  
Sbjct: 22  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQE 80

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELEF 168
           ++ AMR+  + T + F+ V+A++++ ++  +   REQI   +    VP+V+VGNKC+L  
Sbjct: 81  EYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT 140

Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLP 228
           + V  + A  +A   +   F+E SAK    +   F  L+ +          +R+ R    
Sbjct: 141 RTVDTKQAHELA-KSYGIPFIETSAKTRQGVEDAFYTLVRE----------IRQYRMKKL 189

Query: 229 N 229
           N
Sbjct: 190 N 190

>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 =  161 bits (409), Expect = 5e-50
 Identities = 59/185 (31%), Positives = 96/185 (51%), Gaps = 13/185 (7%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
             +  ++VV+GG  VGKS++  QF+   F+S Y  T+E+ +     + DG    LDILDT
Sbjct: 6   PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICSV-DGIPARLDILDT 64

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKC 164
           +G  +F AMRE  +     F+LV+A++D  +++ V  L  QI+  +     P+V+VGNK 
Sbjct: 65  AGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKA 124

Query: 165 ELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRR 223
           +LE +  V R  A           + E SAK   N+ + F++L+   +         + +
Sbjct: 125 DLESQRQVPRSEASAFG-ASHHVAYFEASAKLRLNVDEAFEQLVRAVR---------KYQ 174

Query: 224 RQSLP 228
            Q LP
Sbjct: 175 EQELP 179

>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 =  161 bits (409), Expect = 5e-50
 Identities = 46/166 (27%), Positives = 91/166 (54%), Gaps = 4/166 (2%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
           Q   R++ ++G   VGKSS+  QF+  +F+  Y  T+E        + +G +  L ++DT
Sbjct: 3   QSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITV-NGQEYHLQLVDT 61

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKC 164
           +G  ++    +      + ++LVY+V    +++V+K +  ++++  G + +PI++VGNK 
Sbjct: 62  AGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKK 121

Query: 165 ELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +L  +  +  E  + +A   W   F+E SAKEN   V VF+ ++ +
Sbjct: 122 DLHMERVISYEEGKALA-ESWNAAFLESSAKENQTAVDVFRRIILE 166

>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 =  161 bits (409), Expect = 6e-50
 Identities = 55/205 (26%), Positives = 105/205 (51%), Gaps = 21/205 (10%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           + ++VV+G   VGKS++  Q + + F+  Y  T+E+ +R +  + DG    LDILDT+G 
Sbjct: 4   EYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQ 62

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELE 167
            ++ AMR+  + T + F+ V+A+++  +++ +   REQI   +    VP+V+VGNKC+L 
Sbjct: 63  EEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP 122

Query: 168 FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSL 227
            + V  + A+ +A   +   F+E SAK    +   F  L+ +          +R+ ++ +
Sbjct: 123 SRTVDTKQAQDLA-RSYGIPFIETSAKTRQGVDDAFYTLVRE----------IRKHKEKM 171

Query: 228 PNYIGTTGSASSKGRYMLKRNSCTV 252
                       K +    +  C +
Sbjct: 172 SK--------DGKKKKKKSKTKCVI 188

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  160 bits (406), Expect = 3e-49
 Identities = 52/183 (28%), Positives = 91/183 (49%), Gaps = 7/183 (3%)

Query: 29  HSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG 88
           HS G E+    G         R+VV++G   VGK+S+  QF+   F   Y  TVE  +  
Sbjct: 7   HSSGRENLYFQGMP---LVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYSK 63

Query: 89  EYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV 148
              L    +  L ++DT+G  ++  +    I     +VLVY+V    ++ V++ L +++ 
Sbjct: 64  IVTL-GKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLH 122

Query: 149 NKRGLM-VPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
              G   VP+V+VGNK +L  + +V+    + +A   W   F+E SA+EN     +F ++
Sbjct: 123 EGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLA-ESWGATFMESSARENQLTQGIFTKV 181

Query: 207 LAQ 209
           + +
Sbjct: 182 IQE 184

>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 =  156 bits (398), Expect = 2e-48
 Identities = 59/180 (32%), Positives = 100/180 (55%), Gaps = 4/180 (2%)

Query: 32  GTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYE 91
           G+   S  G G        +V+++G   VGKS++  QF+YD F+  Y+ T  + +R +  
Sbjct: 1   GSPGISGGGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV 60

Query: 92  LPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKR 151
           L DG ++ +DILDT+G   + A+R+    + + F+ V+++ +  ++    D REQI+  +
Sbjct: 61  L-DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVK 119

Query: 152 GLM-VPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
               VP ++VGNK +LE K  V  E A+  A   W   +VE SAK   N+ +VF +L+ +
Sbjct: 120 EDENVPFLLVGNKSDLEDKRQVSVEEAKNRA-EQWNVNYVETSAKTRANVDKVFFDLMRE 178

>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 =  157 bits (398), Expect = 4e-48
 Identities = 61/204 (29%), Positives = 104/204 (50%), Gaps = 16/204 (7%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +V+++G   VGKS++  QF+YD F+  Y+ T  + +R +  L DG ++ +DILDT+G   
Sbjct: 16  KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGQED 74

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELEFK 169
           + A+R+    + + F+ V+++ +  ++    D REQI+  +    VP ++VGNK +LE K
Sbjct: 75  YAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDK 134

Query: 170 -DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLP 228
             V  E A+  A   W   +VE SAK   N+ +VF +L+ +          +R R+    
Sbjct: 135 RQVSVEEAKNRA-EQWNVNYVETSAKTRANVDKVFFDLMRE----------IRARKMEDS 183

Query: 229 NYIGTTGSASSKGRYMLKRNSCTV 252
                 G    K      R  C +
Sbjct: 184 K--EKNGKKKRKSLAKRIRERCCI 205

>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 =  156 bits (397), Expect = 5e-48
 Identities = 61/202 (30%), Positives = 100/202 (49%), Gaps = 17/202 (8%)

Query: 29  HSLGTESTSSSGTGVGLQKDK-RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHR 87
           HS G +  + +     + K    ++ + G A VGKS+++ +FL  RFI  Y  T+E  +R
Sbjct: 7   HSSGVDLGTENLYFQSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR 66

Query: 88  GEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQI 147
            +  + D   ++++ILDT+G       RE  +   + FVLVY + D  +++ V  L+  +
Sbjct: 67  HQATI-DDEVVSMEILDTAGQEDT-IQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNIL 124

Query: 148 VNKRGL-MVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENY-NIVQVFK 204
              +    V +++VGNK +L+    V  E  E +A  +  C F ECSA     NI ++F 
Sbjct: 125 DEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLAT-ELACAFYECSACTGEGNITEIFY 183

Query: 205 ELLAQAKVQYNLSPAVRRRRQS 226
           EL  +          VRRRR  
Sbjct: 184 ELCRE----------VRRRRMV 195

>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 =  154 bits (393), Expect = 8e-48
 Identities = 55/162 (33%), Positives = 95/162 (58%), Gaps = 4/162 (2%)

Query: 50  RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
            +V+++G   VGKS++  QF+YD F+  Y+ T  + +R +  L DG ++ +DILDT+G  
Sbjct: 5   HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGQE 63

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELEF 168
            + A+R+    + + F+ V+++ +  ++    D REQI+  +    VP ++VGNK +LE 
Sbjct: 64  DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 123

Query: 169 K-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           K  V  E A+  A   W   +VE SAK   N+ +VF +L+ +
Sbjct: 124 KRQVSVEEAKNRA-DQWNVNYVETSAKTRANVDKVFFDLMRE 164

>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 =  154 bits (392), Expect = 2e-47
 Identities = 47/190 (24%), Positives = 89/190 (46%), Gaps = 14/190 (7%)

Query: 29  HSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG 88
           HS G E+    G        +  + ++G    GKS++  +FL  RFIS Y   +E+ +  
Sbjct: 7   HSSGRENLYFQG------PLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSS 60

Query: 89  EYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQI- 147
           E  + D   + L ++DT+         E  ++ A AF++VY+VD   ++D      E + 
Sbjct: 61  EETV-DHQPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLA 118

Query: 148 --VNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENY-NIVQVF 203
               +    +P +++GNK ++     V +     +A   + C F E SA  ++ ++  VF
Sbjct: 119 LHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAG-RFGCLFFEVSACLDFEHVQHVF 177

Query: 204 KELLAQAKVQ 213
            E + +A+ +
Sbjct: 178 HEAVREARRE 187

>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 =  153 bits (388), Expect = 9e-47
 Identities = 51/181 (28%), Positives = 93/181 (51%), Gaps = 5/181 (2%)

Query: 32  GTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYE 91
           G   + ++           ++VV+G   VGKS++  QF    F+  Y  T+E+ +    E
Sbjct: 1   GPLGSMATSAVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSYLKHTE 60

Query: 92  LPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKR 151
           + D     LD+LDT+G  +F AMRE  + T D F++VY+V D ++++ V    + I+  +
Sbjct: 61  I-DNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVK 119

Query: 152 GLM-VPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKEN-YNIVQVFKELLA 208
                P+++V NK +L     V R+  + +A   +   ++E SAK+   N+ + F +L+ 
Sbjct: 120 DRESFPMILVANKVDLMHLRKVTRDQGKEMA-TKYNIPYIETSAKDPPLNVDKTFHDLVR 178

Query: 209 Q 209
            
Sbjct: 179 V 179

>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 =  149 bits (378), Expect = 2e-45
 Identities = 49/179 (27%), Positives = 90/179 (50%), Gaps = 16/179 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           RVV++G   VGK+S+ S F   +    +++  E+++     + DG   TL ++DT  A +
Sbjct: 6   RVVLLGDPGVGKTSLASLFAGKQERDLHEQLGEDVYERTLTV-DGEDTTLVVVDTWEAEK 64

Query: 111 FP--AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKCELE 167
                 +E  +    A+V+VY++ D  +++   +LR Q+        VPI++VGNK +L 
Sbjct: 65  LDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLA 124

Query: 168 FK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQ 225
              +V  E     A   + C F+E SA   +N+ ++F+ ++ Q          +R RR+
Sbjct: 125 RCREVSVEEGRACA-VVFDCKFIETSATLQHNVAELFEGVVRQ----------LRLRRR 172

>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 =  147 bits (373), Expect = 8e-45
 Identities = 44/176 (25%), Positives = 81/176 (46%), Gaps = 15/176 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +V+++G   VGKS++   F          E     +     + DG + +L + D      
Sbjct: 4   KVLLLGAPGVGKSALARIFG-GVEDGPEAEAAGHTYDRSIVV-DGEEASLMVYDIWEQDG 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKCELEFK 169
              +    ++  DA+V+VY+V D  +++   +LR Q+   R    VPI++VGNK +L   
Sbjct: 62  GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRS 121

Query: 170 -DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRR 224
            +V  +     A   + C F+E SA  ++N+  +F+ ++ Q          +R RR
Sbjct: 122 REVSVDEGRACA-VVFDCKFIETSAALHHNVQALFEGVVRQ----------IRLRR 166

>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 =  145 bits (367), Expect = 1e-43
 Identities = 49/206 (23%), Positives = 93/206 (45%), Gaps = 20/206 (9%)

Query: 25  RLRLHSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETV-E 83
               HS G E+    G   G+ K    V+++G + VGKS++   F   +  S ++    E
Sbjct: 3   HHHHHSSGRENLYFQGQKDGIFK----VMLVGESGVGKSTLAGTFGGLQGDSAHEPENPE 58

Query: 84  ELHRGEYELPDGAQLTLDILDTSGAYQFPA-MRELSISTADAFVLVYAVDDASTWDVVKD 142
           + +     + D  ++TL + D          +R+  + T DAF++V++V D  ++  V +
Sbjct: 59  DTYERRIMV-DKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPE 117

Query: 143 LREQIVNKRGL-MVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIV 200
              ++   R    +P+++VGNK +L    +V  E    +A     C  +E SA  ++N  
Sbjct: 118 TLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLA-GTLSCKHIETSAALHHNTR 176

Query: 201 QVFKELLAQAKVQYNLSPAVRRRRQS 226
           ++F+  + Q          +R RR  
Sbjct: 177 ELFEGAVRQ----------IRLRRGR 192

>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 =  142 bits (361), Expect = 2e-42
 Identities = 56/211 (26%), Positives = 102/211 (48%), Gaps = 25/211 (11%)

Query: 23  CERLRLHSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFL--YDRFISRYKE 80
            E L   S+ T+S  SS +G    +    VV++G   VGKS++ + F   +D   S  + 
Sbjct: 15  TENLYFQSMSTDSVISSESGNTYYR----VVLIGEQGVGKSTLANIFAGVHDSMDSDCEV 70

Query: 81  TVEELHRGEYELPDGAQLT---LDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTW 137
             E+ +     + DG   T   LD+ +  G  ++  + +  +   DA+++VY++ D +++
Sbjct: 71  LGEDTYERTLMV-DGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASF 127

Query: 138 DVVKDLREQIVNKRGLM-VPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKE 195
           +   +LR Q+   R    +PI++VGNK +L    +V        A   + C F+E SA  
Sbjct: 128 EKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACA-VVFDCKFIETSAAV 186

Query: 196 NYNIVQVFKELLAQAKVQYNLSPAVRRRRQS 226
            +N+ ++F+ ++ Q          VR RR S
Sbjct: 187 QHNVKELFEGIVRQ----------VRLRRDS 207

>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 =  141 bits (357), Expect = 4e-42
 Identities = 34/170 (20%), Positives = 73/170 (42%), Gaps = 11/170 (6%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
           Q  + +V ++G    GKS+++ ++L   ++           + E  + DG    L I D 
Sbjct: 17  QGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPE-GGRFKKEIVV-DGQSYLLLIRDE 74

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKC 164
            G  +            DA V V++++D  ++  V +   ++ + R    VP+V+VG + 
Sbjct: 75  GGPPELQFAA-----WVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQD 129

Query: 165 ELEFKDVR---REIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
            +   + R      A  ++    +C + E  A    N+ +VF+++  +  
Sbjct: 130 AISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVV 179

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  139 bits (354), Expect = 6e-42
 Identities = 40/178 (22%), Positives = 84/178 (47%), Gaps = 16/178 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETV-EELHRGEYELPDGAQLTLDILDTSGAY 109
           +V+++G + VGKS++   F   +    ++    E+ +     + D  ++TL + D     
Sbjct: 4   KVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMV-DKEEVTLIVYDIWEQG 62

Query: 110 QFPA-MRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKCELE 167
                +++  + T DAF++V++V D  ++  V +   ++   R    +P+++VGNK +L 
Sbjct: 63  DAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA 122

Query: 168 FK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRR 224
              +V  E    +A     C  +E SA  ++N  ++F+  + Q          +R RR
Sbjct: 123 RSREVSLEEGRHLA-GTLSCKHIETSAALHHNTRELFEGAVRQ----------IRLRR 169

>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 =  132 bits (335), Expect = 6e-39
 Identities = 41/167 (24%), Positives = 76/167 (45%), Gaps = 13/167 (7%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           R+ V+G AR GKSS+I +FL   +    ++T  E ++ E  + DG    + I + +GA  
Sbjct: 9   RLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQYKKEMLV-DGQTHLVLIREEAGAPD 66

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRG-----LMVPIVVVGNKCE 165
                      ADA + V++++D +++  V  L  Q+ + RG     L + +V   ++  
Sbjct: 67  AKFSG-----WADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRIS 121

Query: 166 LEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
                 V    A  +     +C + E  A    N+ +VF+E+  +  
Sbjct: 122 ASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVV 168

>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 =  132 bits (333), Expect = 2e-38
 Identities = 43/183 (23%), Positives = 88/183 (48%), Gaps = 11/183 (6%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKE--TVEELHRGEYELPDGAQLT---LDILDT 105
           RVV++G   VGKS++ + F               E+ +     + DG   T   LD+ + 
Sbjct: 8   RVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMV-DGESATIILLDMWEN 66

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKC 164
            G  ++  + +  +   DA+++VY++ D ++++   +LR Q+   R    +PI++VGNK 
Sbjct: 67  KGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKS 124

Query: 165 ELE-FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRR 223
           +L   ++V        A   +   F+E SA   +N+ ++F+ ++ Q +++ +      RR
Sbjct: 125 DLVRXREVSVSEGRAXA-VVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSKEKNERR 183

Query: 224 RQS 226
              
Sbjct: 184 LAY 186

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  107 bits (270), Expect = 4e-29
 Identities = 44/192 (22%), Positives = 82/192 (42%), Gaps = 20/192 (10%)

Query: 30  SLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGE 89
           S+G       G   G +    + V++G   VGK+S++  +  + + + Y  T  +     
Sbjct: 1   SMGPGEPGGRGRAGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSAV 60

Query: 90  YELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN 149
             + DG  + L + DT+G  +F  +R L  +  D F+L ++V   S++  V +     + 
Sbjct: 61  VSV-DGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIR 119

Query: 150 KRGLMVPIVVVGNKCELE-------------FKDVRREIAETIALYDWQCG---FVECSA 193
                 PI++VG + +L               K V  E A+ +A    +     ++ECSA
Sbjct: 120 CHCPKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLA---EEIKAASYIECSA 176

Query: 194 KENYNIVQVFKE 205
               N+ +VF  
Sbjct: 177 LTQKNLKEVFDA 188

>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 =  107 bits (269), Expect = 8e-29
 Identities = 45/184 (24%), Positives = 82/184 (44%), Gaps = 11/184 (5%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF 111
            V +G   VGK+ ++  +  ++F + Y  TV +       + DG  + L + DT+G   +
Sbjct: 12  CVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVAV-DGQIVNLGLWDTAGQEDY 70

Query: 112 PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF--- 168
             +R LS   AD FVL +++   ++++ V       + +    VPIV+VG K +L     
Sbjct: 71  SRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLDLRDDKG 130

Query: 169 ------KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRR 222
                   +     E +        ++ECS+K   N+  VF +   +  +Q      V R
Sbjct: 131 YLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVF-DTAIKVVLQPPRRKEVPR 189

Query: 223 RRQS 226
           RR++
Sbjct: 190 RRKN 193

>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 =  102 bits (255), Expect = 6e-27
 Identities = 43/193 (22%), Positives = 78/193 (40%), Gaps = 20/193 (10%)

Query: 29  HSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG 88
           HS G     S    +  Q    + VV+G   VGK+ ++  +  + F   Y  TV + +  
Sbjct: 10  HSSGLVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA 69

Query: 89  EYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV 148
              + DG  + L + DT+G   +  +R LS    D F++ +++   ++++ V+      V
Sbjct: 70  NVMV-DGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV 128

Query: 149 NKRGLMVPIVVVGNKCELE-------------FKDVRREIAETIALYDWQCG---FVECS 192
                  PI++VG K +L                 +       +A    + G   ++ECS
Sbjct: 129 RHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMA---KEIGAVKYLECS 185

Query: 193 AKENYNIVQVFKE 205
           A     +  VF E
Sbjct: 186 ALTQRGLKTVFDE 198

>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 = 97.6 bits (244), Expect = 2e-25
 Identities = 45/175 (25%), Positives = 90/175 (51%), Gaps = 18/175 (10%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAY 109
           V+++G   VGKSS++++++ ++F ++   T  VE L++ + E+ DG  +T+ I DT+G  
Sbjct: 10  VILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNK-DLEV-DGHFVTMQIWDTAGQE 67

Query: 110 QFPAMRELSIST-----ADAFVLVYAVDDASTWDVV----KDLREQIVNKRGLMVPIVVV 160
           +F      S+ T     +D  +L ++VDD+ ++  +    K+       K     P V++
Sbjct: 68  RF-----RSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVIL 122

Query: 161 GNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYN 215
           GNK ++  + V  E A+     +    + E SAK+  N+   F+E + +     +
Sbjct: 123 GNKIDISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLATED 177

>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 = 97.7 bits (244), Expect = 4e-25
 Identities = 53/205 (25%), Positives = 92/205 (44%), Gaps = 16/205 (7%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAY 109
           V+++G + VGK+S+++Q++  +F ++YK T   + L + E  + D   +T+ I DT+G  
Sbjct: 11  VIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTK-EVMV-DDRLVTMQIWDTAGQE 68

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVV----KDLREQIVNKRGLMVPIVVVGNKCE 165
           +F ++       AD  VLV+ V   +T+  +     +   Q   +     P VV+GNK +
Sbjct: 69  RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKID 128

Query: 166 LEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQ 225
           LE + V  + A+          + E SAKE  N+ Q F+ +   A  Q            
Sbjct: 129 LENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVEL----YN 184

Query: 226 SLPNYIGTTGSASSKGRYMLKRNSC 250
             P  I    +  +K        SC
Sbjct: 185 EFPEPIKLDKNERAKA----SAESC 205

>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 = 95.0 bits (237), Expect = 2e-24
 Identities = 43/168 (25%), Positives = 80/168 (47%), Gaps = 9/168 (5%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAY 109
           V+++G + VGK+S++ +++ D++  +YK T   + L + E  +      T+ + DT+G  
Sbjct: 11  VIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTK-EVTVDGDKVATMQVWDTAGQE 69

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVV----KDLREQIVNKRGLMVPIVVVGNKCE 165
           +F ++       AD  VLVY V +AS+++ +     +             P V++GNK +
Sbjct: 70  RFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKID 129

Query: 166 LE--FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
            E   K V  + A+ +A           SAK   N+   F+E+   A 
Sbjct: 130 AEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSAL 177

>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 = 93.6 bits (233), Expect = 9e-24
 Identities = 39/180 (21%), Positives = 81/180 (45%), Gaps = 5/180 (2%)

Query: 30  SLGTESTSSSGTGVGLQKDKR-RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG 88
           ++   S  ++G G      K  ++VV+G   VGK+ ++  F      + Y  TV E    
Sbjct: 3   AMLAFSDMNTGAGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH 62

Query: 89  EYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV 148
             +     +  L + DT+G  ++  +R LS + +D  +L +AV++ +++D +    E  +
Sbjct: 63  VMKY-KNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEI 121

Query: 149 NKRGLMVPIVVVGNKCEL---EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE 205
                    V+VG K +L      DV ++  + +        ++E S+     + +VF++
Sbjct: 122 KHYIDTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEK 181

>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 = 92.4 bits (230), Expect = 2e-23
 Identities = 40/167 (23%), Positives = 73/167 (43%), Gaps = 16/167 (9%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF 111
            V +G   VGK+ ++  +  + F + Y  TV +       + +GA + L + DT+G   +
Sbjct: 11  CVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVV-NGATVNLGLWDTAGQEDY 69

Query: 112 PAMRELSISTADAFVLVYAVDDASTWDVVKD--LREQIVNKRGLMVPIVVVGNKCELE-- 167
             +R LS   AD F+L +++   ++++ V    + E  +      VPIV+VG K +L   
Sbjct: 70  NRLRPLSYRGADVFILAFSLISKASYENVSKKWIPE--LKHYAPGVPIVLVGTKLDLRDD 127

Query: 168 ---------FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE 205
                       +     E +        ++ECS+K   N+  VF  
Sbjct: 128 KQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDA 174

>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 = 92.6 bits (230), Expect = 3e-23
 Identities = 44/187 (23%), Positives = 79/187 (42%), Gaps = 14/187 (7%)

Query: 32  GTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYE 91
           G+     S    G      + VV+G   VGK+ ++  +  D F   Y  TV + +     
Sbjct: 1   GSPGAGRSSMAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVT 60

Query: 92  LPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKR 151
           +  G Q  L + DT+G   +  +R LS    D F++ ++V + +++  VK+     + + 
Sbjct: 61  V-GGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY 119

Query: 152 GLMVPIVVVGNKCELE-------------FKDVRREIAETIALYDWQCGFVECSAKENYN 198
              VP +++G + +L               K +  E  + +A     C +VECSA     
Sbjct: 120 APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKG 179

Query: 199 IVQVFKE 205
           +  VF E
Sbjct: 180 LKTVFDE 186

>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 = 91.7 bits (228), Expect = 8e-23
 Identities = 50/190 (26%), Positives = 88/190 (46%), Gaps = 16/190 (8%)

Query: 29  HSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG 88
           HS G +  + +     + + K  +VV+G    GK+ ++  F  D F   Y  TV E +  
Sbjct: 7   HSSGVDLGTENLYFQSMIRKK--LVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVA 64

Query: 89  EYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV 148
           + E+ DG Q+ L + DT+G   +  +R LS    D  ++ ++VD   + + + +     V
Sbjct: 65  DIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEV 123

Query: 149 NKRGLMVPIVVVGNKCEL-EFKDVRREIAET----IALYDWQ--------CGFVECSAKE 195
                 VPI++V NK +L   + VR E+A      +   D +          ++ECSAK 
Sbjct: 124 KHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKT 183

Query: 196 NYNIVQVFKE 205
              + +VF+ 
Sbjct: 184 KEGVREVFET 193

>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 = 90.6 bits (225), Expect = 2e-22
 Identities = 51/197 (25%), Positives = 82/197 (41%), Gaps = 27/197 (13%)

Query: 30  SLGTESTSSSGTGVGLQKDKRR---VVVMGGARVGKSSIISQFLYDRFISRYKETVEELH 86
            LGTE+               R   VV++G    GK+S++  F    F   Y  TV E +
Sbjct: 12  DLGTENLYFQSMAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY 71

Query: 87  RGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKD--LR 144
               ++  G  + L I DT+G   +  +R L    A   +L + V   +++D + +    
Sbjct: 72  MVNLQV-KGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYP 130

Query: 145 EQIVNKRGLMVPIVVVGNKCELE-------------FKDVRREIAETIALYDWQCG---F 188
           E  VN     VPI+VVG K +L               + V     + +A      G   +
Sbjct: 131 E--VNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMA---RSVGAVAY 185

Query: 189 VECSAKENYNIVQVFKE 205
           +ECSA+ + N+  VF+E
Sbjct: 186 LECSARLHDNVHAVFQE 202

>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 = 89.0 bits (221), Expect = 6e-22
 Identities = 50/192 (26%), Positives = 93/192 (48%), Gaps = 23/192 (11%)

Query: 29  HSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG 88
           HS G     S      +   ++++V++G    GK+ ++  F  D+F   Y  TV E +  
Sbjct: 10  HSSGLVPRGSH-----MAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIA 64

Query: 89  EYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKD--LREQ 146
           + E+ DG Q+ L + DT+G   +  +R LS    D  ++ +++D   + + + +    E 
Sbjct: 65  DIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE- 122

Query: 147 IVNKRGLMVPIVVVGNKCEL-EFKDVRREIAET----IALYDWQ--------CGFVECSA 193
            V      VPI++VGNK +L + +  RRE+A+     +   + +         G++ECSA
Sbjct: 123 -VKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSA 181

Query: 194 KENYNIVQVFKE 205
           K    + +VF+ 
Sbjct: 182 KTKEGVREVFEM 193

>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 = 88.9 bits (221), Expect = 1e-21
 Identities = 41/181 (22%), Positives = 86/181 (47%), Gaps = 19/181 (10%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +V++G    GK++ + + L   F  +Y  T+  E+H   +   +   +  ++ DT+G  +
Sbjct: 18  LVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHT-NRGPIKFNVWDTAGQEK 76

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVV----KDLREQIVNKRGLMVPIVVVGNKCEL 166
           F  +R+     A   ++++ V    T+  V    +DL     N     +PIV+ GNK ++
Sbjct: 77  FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN-----IPIVLCGNKVDI 131

Query: 167 EFKDVRREIAETIALYDWQ-CGFVECSAKENYNIVQVF----KELLAQAKVQYNLSPAVR 221
           +    R+  A++I  +  +   + + SAK NYN  + F    ++L+    +++   PA+ 
Sbjct: 132 K---DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALA 188

Query: 222 R 222
            
Sbjct: 189 P 189

>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 = 87.2 bits (217), Expect = 2e-21
 Identities = 50/170 (29%), Positives = 88/170 (51%), Gaps = 17/170 (10%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAY 109
           +VV+G   VGKSS+I ++    F   YK+T  V+ L R + ++ +   + L + DT+G  
Sbjct: 8   MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLER-QIQV-NDEDVRLMLWDTAGQE 65

Query: 110 QFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC 164
           +F      +I+      A A VLV++  D  +++ +   RE++V + G  +P  +V NK 
Sbjct: 66  EF---D--AITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKI 119

Query: 165 ELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           +L     ++ E AE +A    +  F   S KE+ N+ +VFK L  +   +
Sbjct: 120 DLLDDSCIKNEEAEGLA-KRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQK 168

>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 = 87.0 bits (216), Expect = 4e-21
 Identities = 35/169 (20%), Positives = 70/169 (41%), Gaps = 3/169 (1%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETV-EELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + ++G   VGK++ I++ L  RF   Y  TV    H   +    G  +  ++ DT+G  +
Sbjct: 14  ICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEK 73

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE-FK 169
              ++++    A   +L + V    T   +    ++     G   PIVV  NK +++  +
Sbjct: 74  KAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQ 133

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSP 218
            + +++   +        + E SAK  +N    F  L      + +L  
Sbjct: 134 KISKKLVMEVL-KGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIF 181

>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 = 84.0 bits (208), Expect = 3e-20
 Identities = 45/179 (25%), Positives = 81/179 (45%), Gaps = 25/179 (13%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
           Q  K ++VV+G ++ GK++++  F  D F   Y  TV E +   +E+ D  ++ L + DT
Sbjct: 4   QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI-DTQRIELSLWDT 62

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKD--LREQIVNKRGLMVPIVVVGNK 163
           SG+  +  +R LS   +DA ++ + +    T D V      E  + +      +++VG K
Sbjct: 63  SGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGE--IQEFCPNTKMLLVGCK 120

Query: 164 CEL-------------EFKDVRREIAETIALYDWQCG---FVECSAKENYNIV-QVFKE 205
            +L                 V  +    +A    Q G   ++ECSA ++ N V  +F  
Sbjct: 121 SDLRTDVSTLVELSNHRQTPVSYDQGANMA---KQIGAATYIECSALQSENSVRDIFHV 176

>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 = 83.4 bits (207), Expect = 4e-20
 Identities = 38/165 (23%), Positives = 74/165 (44%), Gaps = 8/165 (4%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGA 108
           ++VV+G    GK+S+ + F  + F  +YK+T  ++   R    LP    +TL I D  G 
Sbjct: 8   KIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLR-RITLPGNLNVTLQIWDIGGQ 66

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKD-LRE--QIVNKRGLMVPIVVVGNKCE 165
                M +  I  A   +LVY + +  +++ ++D      ++  +      + +VGNK +
Sbjct: 67  TIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKID 126

Query: 166 LEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           LE    ++ E        +        SAK   ++   F+++ A+
Sbjct: 127 LEHMRTIKPEKHLRFC-QENGFSSHFVSAKTGDSVFLCFQKVAAE 170

>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 = 84.3 bits (209), Expect = 5e-20
 Identities = 51/193 (26%), Positives = 91/193 (47%), Gaps = 6/193 (3%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAY 109
           +V +G   VGK+S+I++F+YD F + Y+ T  ++ L +  Y   +   + L + DT+G  
Sbjct: 19  LVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYL--EDRTVRLQLWDTAGLE 76

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK 169
           +F ++    I  +   V+VY + + +++       + +  +RG  V I++VGNK +L  K
Sbjct: 77  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 136

Query: 170 -DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSLP 228
             V  E  E  A  +    F+E SAK  YN+ Q+F+ + A      +     R     + 
Sbjct: 137 RQVSIEEGERKA-KELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMIDIK 195

Query: 229 NYIGTTGSASSKG 241
                    S  G
Sbjct: 196 LEKPQEQPVSEGG 208

>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 = 82.9 bits (205), Expect = 1e-19
 Identities = 49/196 (25%), Positives = 85/196 (43%), Gaps = 27/196 (13%)

Query: 29  HSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG 88
           HS G     S       Q  K ++VV+G ++ GK++++  F  D F   Y  TV E +  
Sbjct: 10  HSSGLVPRGSHMDPN--QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA 67

Query: 89  EYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKD--LREQ 146
            +E+ D  ++ L + DTSG+  +  +R LS   +DA ++ + +    T D V      E 
Sbjct: 68  SFEI-DTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGE- 125

Query: 147 IVNKRGLMVPIVVVGNKCEL-------------EFKDVRREIAETIALYDWQCG---FVE 190
            + +      +++VG K +L                 V  +    +A    Q G   ++E
Sbjct: 126 -IQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMA---KQIGAATYIE 181

Query: 191 CSAKENYNIV-QVFKE 205
           CSA ++ N V  +F  
Sbjct: 182 CSALQSENSVRDIFHV 197

>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 = 81.4 bits (202), Expect = 2e-19
 Identities = 43/169 (25%), Positives = 87/169 (51%), Gaps = 21/169 (12%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG-EYELP----DGAQLTLDILDT 105
           +++++G + VGKS ++ +F+ D+F   +  T+     G ++++     +G ++ L I DT
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTI-----GIDFKIKTVDINGKKVKLQIWDT 59

Query: 106 SGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVV 160
           +G  +F   R  +I+T     A   +LVY + D  T+  +K   + +         +++V
Sbjct: 60  AGQERF---R--TITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLV 114

Query: 161 GNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           GNK ++E + V  +  E +A  +    F+E SAK + N+ ++F  L   
Sbjct: 115 GNKSDMETRVVTADQGEALA-KELGIPFIESSAKNDDNVNEIFFTLAKL 162

>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 = 82.8 bits (205), Expect = 2e-19
 Identities = 47/202 (23%), Positives = 95/202 (47%), Gaps = 27/202 (13%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDIL 103
           ++++G + VGKS ++ +F+ D+F   +  T  ++      ++        +G ++ L + 
Sbjct: 23  ILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI--------NGKKVKLQLW 74

Query: 104 DTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIV 158
           DT+G  +F   R  +I+T     A   +LVY V D  T+  +K   + +         ++
Sbjct: 75  DTAGQERF---R--TITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLL 129

Query: 159 VVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSP 218
           +VGNK ++E + V  +  E +A  +    F+E SAK + N+ ++F  L    + + + + 
Sbjct: 130 LVGNKSDMETRVVTADQGEALA-KELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSNK 188

Query: 219 AVRRRRQSLPNYIGTTGSASSK 240
            V        N    +GS +S 
Sbjct: 189 LVGVGNGKEGNISINSGSGNSS 210

>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 = 81.1 bits (201), Expect = 3e-19
 Identities = 48/161 (29%), Positives = 86/161 (53%), Gaps = 6/161 (3%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAY 109
           +V +G   VGK+S+I++F+YD F + Y+ T  ++ L +  Y   +   + L + DT+G  
Sbjct: 17  LVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMY--LEDRTVRLQLWDTAGQE 74

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK 169
           +F ++    I  +   V+VY + + +++       + +  +RG  V I++VGNK +L  K
Sbjct: 75  RFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDK 134

Query: 170 -DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
             V  E  E  A  +    F+E SAK  YN+ Q+F+ + A 
Sbjct: 135 RQVSTEEGERKA-KELNVMFIETSAKAGYNVKQLFRRVAAA 174

>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 = 81.3 bits (201), Expect = 4e-19
 Identities = 37/176 (21%), Positives = 72/176 (40%), Gaps = 20/176 (11%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
                + VV+G   VGK+ ++  +  + F   Y  TV + +     + DG  + L + DT
Sbjct: 2   SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDT 60

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE 165
           +G   +  +R LS    D  ++ +++   ++++ V+      V       PI++VG K +
Sbjct: 61  AGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLD 120

Query: 166 L-------------EFKDVRREIAETIALYDWQCG---FVECSAKENYNIVQVFKE 205
           L             +   +       +A    + G   ++ECSA     +  VF E
Sbjct: 121 LRDDKDTIEKLKEKKLTPITYPQGLAMA---KEIGAVKYLECSALTQRGLKTVFDE 173

>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 = 80.3 bits (198), Expect = 1e-18
 Identities = 41/194 (21%), Positives = 77/194 (39%), Gaps = 21/194 (10%)

Query: 29  HSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG 88
           HS G E+    G        + ++V++G  + GK++++     D +   Y  TV E +  
Sbjct: 7   HSSGRENLYFQGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA 66

Query: 89  EYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIV 148
             E  +  ++ L + DTSG+  +  +R L  S +DA +L + +    T D         +
Sbjct: 67  CLET-EEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEI 125

Query: 149 NKRGLMVPIVVVGNKCELE-------------FKDVRREIAETIALYDWQCG---FVECS 192
                   ++++G K +L                 +  E    IA    Q G   ++E S
Sbjct: 126 LDYCPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIA---KQLGAEIYLEGS 182

Query: 193 AK-ENYNIVQVFKE 205
           A     +I  +F+ 
Sbjct: 183 AFTSEKSIHSIFRT 196

>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 = 80.4 bits (198), Expect = 3e-18
 Identities = 33/154 (21%), Positives = 56/154 (36%), Gaps = 11/154 (7%)

Query: 67  SQFLYDRFISRYKETVEELHR---GEYELPDGAQLTLDILDTSG---AYQFPAMRELSIS 120
           ++F+ D+    ++ T  + +       +L    +L     D  G    ++   M +  + 
Sbjct: 103 TEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLL 162

Query: 121 TADAFVLVYAV--DDASTWDVVKDLREQIV-NKRGLMVPIVVVGNKCELEFKDVRREIAE 177
             D F+L   V       +D        +         PIVVV  KC+   +   R+ A 
Sbjct: 163 V-DGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIRD-AH 220

Query: 178 TIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           T AL       VE SA+ N N+   F  L+    
Sbjct: 221 TFALSKKNLQVVETSARSNVNVDLAFSTLVQLID 254

>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 = 78.8 bits (195), Expect = 3e-18
 Identities = 44/173 (25%), Positives = 76/173 (43%), Gaps = 28/173 (16%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           +++++G + VGKSS++ +F  D F      T  V+       +        DG +  L I
Sbjct: 17  KILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV--------DGNKAKLAI 68

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKD-LREQIVNKRGLMVP 156
            DT+G  +F   R  +++      A   +LVY V    T+  + + L E         + 
Sbjct: 69  WDTAGQERF---R--TLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIV 123

Query: 157 IVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            ++VGNK + E ++V R      A       F+E SAK    +   F+EL+ +
Sbjct: 124 NMLVGNKIDKENREVDRNEGLKFA-RKHSMLFIEASAKTCDGVQCAFEELVEK 175

>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 = 78.8 bits (195), Expect = 4e-18
 Identities = 43/184 (23%), Positives = 76/184 (41%), Gaps = 16/184 (8%)

Query: 34  ESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYE 91
              SS     G    + +V ++G   VGKSSI+ +F+ D F      T     + +    
Sbjct: 8   HHHSSGLVPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTK-TVP 66

Query: 92  LPDGAQLTLDILDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQ 146
                     I DT+G  +F      S++      + A V+VY +    ++  +K   ++
Sbjct: 67  C-GNELHKFLIWDTAGQERF---H--SLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKE 120

Query: 147 IVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE 205
           +       + + + GNKC+L    +V  + A+  A        VE SAK   NI ++F+ 
Sbjct: 121 LKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYA-ESIGAIVVETSAKNAINIEELFQG 179

Query: 206 LLAQ 209
           +  Q
Sbjct: 180 ISRQ 183

>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 = 78.1 bits (193), Expect = 7e-18
 Identities = 48/181 (26%), Positives = 80/181 (44%), Gaps = 34/181 (18%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           ++V+ G A VGKSS + +   + F      T  V+       +        DG +  L +
Sbjct: 30  KIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIV--------DGERTVLQL 81

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI 157
            DT+G  +F   R  SI+      AD  +L+Y V    ++  +++  + I +     VPI
Sbjct: 82  WDTAGQERF---R--SIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPI 136

Query: 158 VVVGNKCELEF-------KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           ++VGNK ++         K V     E +A+  +   F E SAK+  NIV+    L  + 
Sbjct: 137 MLVGNKADIRDTAATEGQKCVPGHFGEKLAM-TYGALFCETSAKDGSNIVEAVLHLAREV 195

Query: 211 K 211
           K
Sbjct: 196 K 196

>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 = 77.6 bits (192), Expect = 8e-18
 Identities = 49/170 (28%), Positives = 87/170 (51%), Gaps = 22/170 (12%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG-EYELP----DGAQLTLDILDT 105
           +++++G + VGK+S + ++  D F   +  TV     G ++++        ++ L I DT
Sbjct: 24  KLLLIGNSSVGKTSFLFRYADDSFTPAFVSTV-----GIDFKVKTVYRHDKRIKLQIWDT 78

Query: 106 SGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVV 160
           +G  ++   R  +I+T     A  F+L+Y + +  ++  V+D   QI         +++V
Sbjct: 79  AGQERY---R--TITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILV 133

Query: 161 GNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           GNKC+LE +  V  E    +A  D    F E SAKEN N+ QVF+ L+  
Sbjct: 134 GNKCDLEDERVVPAEDGRRLA-DDLGFEFFEASAKENINVKQVFERLVDV 182

>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 = 77.2 bits (191), Expect = 9e-18
 Identities = 41/166 (24%), Positives = 83/166 (50%), Gaps = 16/166 (9%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAY 109
           VV++G   VGK+S++ ++  ++F  ++  T     L + +  +  G ++ L I DT+G  
Sbjct: 9   VVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTK-KLNI-GGKRVNLAIWDTAGQE 66

Query: 110 QFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC 164
           +F      ++       ++  +LVY + D  ++  VK+  +++    G  + + +VGNK 
Sbjct: 67  RF---H--ALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKI 121

Query: 165 ELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +LE +  V  + AE+ A           SAK+N  I ++F +L  +
Sbjct: 122 DLEKERHVSIQEAESYA-ESVGAKHYHTSAKQNKGIEELFLDLCKR 166

>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 = 77.3 bits (191), Expect = 1e-17
 Identities = 47/173 (27%), Positives = 81/173 (46%), Gaps = 27/173 (15%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           +V+++G   VGK+S++ +F  D F    K T  V+      EL         G ++ L I
Sbjct: 28  QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVEL--------RGKKIRLQI 79

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI 157
            DT+G  +F      SI++     A   +LVY +    T+D +    + I         +
Sbjct: 80  WDTAGQERF---N--SITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAEL 134

Query: 158 VVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           ++VGNK + E   ++ R+  E  A       F E SAK+N+N+ ++F +L+  
Sbjct: 135 LLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDD 187

>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 = 76.4 bits (189), Expect = 2e-17
 Identities = 41/166 (24%), Positives = 73/166 (43%), Gaps = 16/166 (9%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAY 109
           V ++G   VGKSSI+ +F+ D F      T     + +   +          I DT+G  
Sbjct: 9   VCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTK-TVQY-QNELHKFLIWDTAGLE 66

Query: 110 QFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC 164
           +F   R  +++      + A ++VY +    T+  +K+   ++       + + + GNKC
Sbjct: 67  RF---R--ALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKC 121

Query: 165 ELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +L    +V    A+  A       FVE SAK   NI ++F E+  +
Sbjct: 122 DLTDVREVMERDAKDYA-DSIHAIFVETSAKNAININELFIEISRR 166

>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 = 76.9 bits (190), Expect = 2e-17
 Identities = 40/188 (21%), Positives = 90/188 (47%), Gaps = 25/188 (13%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE--------ELHRGEYELPDGAQLTL 100
           + + +G + VGK+S++ Q+   +F S++  T  ++          +  +  +  G ++ L
Sbjct: 13  KFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHL 72

Query: 101 DILDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKD-LREQIVNKRGLM 154
            + DT+G  +F   R  S++T     A  F+L++ + +  ++  V++ + +  ++     
Sbjct: 73  QLWDTAGLERF---R--SLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSEN 127

Query: 155 VPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ--AK 211
             IV+ GNK +LE +  V+ E A  +A   +   + E SA    NI    + LL     +
Sbjct: 128 PDIVLCGNKSDLEDQRAVKEEEARELA-EKYGIPYFETSAANGTNISHAIEMLLDLIMKR 186

Query: 212 VQYNLSPA 219
           ++ ++  +
Sbjct: 187 MERSVDKS 194

>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 = 76.5 bits (189), Expect = 3e-17
 Identities = 43/172 (25%), Positives = 82/172 (47%), Gaps = 28/172 (16%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDIL 103
           ++++G + VGK+S + ++  D F   +  T  ++                   ++ L I 
Sbjct: 26  LLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYR--------HEKRVKLQIW 77

Query: 104 DTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIV 158
           DT+G  ++   R  +I+T     A  F+L+Y + +  +++ V+D   QI         ++
Sbjct: 78  DTAGQERY---R--TITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVI 132

Query: 159 VVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +VGNKC++E +  V  E  + +A       F E SAKEN ++ Q F+ L+  
Sbjct: 133 LVGNKCDMEEERVVPTEKGQLLA-EQLGFDFFEASAKENISVRQAFERLVDA 183

>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 = 75.6 bits (187), Expect = 3e-17
 Identities = 40/166 (24%), Positives = 82/166 (49%), Gaps = 16/166 (9%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAY 109
           +V++G + VGKSS++ +F+  +F    + T     L +    L D   +  +I DT+G  
Sbjct: 9   LVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQ-TVCL-DDTTVKFEIWDTAGQE 66

Query: 110 QFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC 164
           ++      S++      A A ++VY + +  ++   K+  +++  +    + I + GNK 
Sbjct: 67  RY---H--SLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 121

Query: 165 ELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +L  K  V  + A++ A  D    F+E SAK + N+ ++F  +  +
Sbjct: 122 DLANKRAVDFQEAQSYAD-DNSLLFMETSAKTSMNVNEIFMAIAKK 166

>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 = 75.8 bits (187), Expect = 5e-17
 Identities = 54/206 (26%), Positives = 89/206 (43%), Gaps = 31/206 (15%)

Query: 21  GACERLRLHSLGTESTSSSGTGVGLQKDKR---RVVVMGGARVGKSSIISQFLYDRFISR 77
           G+      HS G            +  +     +++++G + VGKS ++ +F  D +   
Sbjct: 2   GSSHHHHHHSSGENLYFQGRPMSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTES 61

Query: 78  YKET--VE------ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST-----ADA 124
           Y  T  V+      EL        DG  + L I DT+G  +F   R  +I++     A  
Sbjct: 62  YISTIGVDFKIRTIEL--------DGKTIKLQIWDTAGQERF---R--TITSSYYRGAHG 108

Query: 125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE-FKDVRREIAETIALYD 183
            ++VY V D  +++ VK   ++I       V  ++VGNKC+L   K V    A+  A   
Sbjct: 109 IIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD-S 167

Query: 184 WQCGFVECSAKENYNIVQVFKELLAQ 209
               F+E SAK   N+ Q F  + A+
Sbjct: 168 LGIPFLETSAKNATNVEQSFMTMAAE 193

>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 = 75.3 bits (186), Expect = 5e-17
 Identities = 48/173 (27%), Positives = 85/173 (49%), Gaps = 28/173 (16%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           +++++G + VGK+ ++ +F  D F S +  T  ++      EL        DG ++ L I
Sbjct: 10  KLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL--------DGKRIKLQI 61

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI 157
            DT+G  +F   R  +I+T     A   +LVY + +  ++D +++    I       V  
Sbjct: 62  WDTAGQERF---R--TITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEK 116

Query: 158 VVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +++GNKC++  K  V +E  E +A  D+   F+E SAK N N+   F  L   
Sbjct: 117 MILGNKCDVNDKRQVSKERGEKLA-LDYGIKFMETSAKANINVENAFFTLARD 168

>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 = 75.8 bits (187), Expect = 5e-17
 Identities = 41/173 (23%), Positives = 80/173 (46%), Gaps = 27/173 (15%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           ++V++G A VGK+ ++ +F    F  R   T  V+      E+         G ++ L I
Sbjct: 31  KLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEI--------QGKRVKLQI 82

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI 157
            DT+G  +F   R  +I+      A+  +L Y +   S++  V    E +    G  +  
Sbjct: 83  WDTAGQERF---R--TITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQ 137

Query: 158 VVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +++GNK +L    +V    A+++A +      +E SAK++ N+ + F  +  +
Sbjct: 138 LLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATE 190

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 75.3 bits (186), Expect = 6e-17
 Identities = 47/174 (27%), Positives = 81/174 (46%), Gaps = 31/174 (17%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           +++++G + VGKSS++ +F  + F   Y  T  V+      E+        +G ++ L I
Sbjct: 11  KLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI--------NGEKVKLQI 62

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKD-LREQIVNKRGLMVP 156
            DT+G  +F   R  +I++         ++VY V  A ++  VK  L E  +N+    V 
Sbjct: 63  WDTAGQERF---R--TITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHE--INQNCDDVC 115

Query: 157 IVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            ++VGNK +   +  V  E A   A         E SAKEN N+ ++F  +   
Sbjct: 116 RILVGNKNDDPERKVVETEDAYKFAG-QMGIQLFETSAKENVNVEEMFNCITEL 168

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 75.4 bits (186), Expect = 7e-17
 Identities = 50/173 (28%), Positives = 82/173 (47%), Gaps = 28/173 (16%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           +++++G + VGKS ++ +F  D +   Y  T  V+      EL        DG  + L I
Sbjct: 18  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL--------DGKTIKLQI 69

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI 157
            DT+G  +F   R  +I++     A   ++VY V D  +++ VK   ++I       V  
Sbjct: 70  WDTAGQERF---R--TITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNK 124

Query: 158 VVVGNKCELE-FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           ++VGNKC+L   K V    A+  A       F+E SAK   N+ Q F  + A+
Sbjct: 125 LLVGNKCDLTTKKVVDYTTAKEFAD-SLGIPFLETSAKNATNVEQSFMTMAAE 176

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 78.5 bits (193), Expect = 7e-17
 Identities = 29/170 (17%), Positives = 62/170 (36%), Gaps = 16/170 (9%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETV--------EELHRGEYELPDGAQLTLDI 102
           +V ++G    GK+S++ Q + + F  +  +T             +G     +  +     
Sbjct: 43  KVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHF 102

Query: 103 LDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKD-LREQIVNKRGLMVPIVVVG 161
            D  G     A  +  ++ +  ++L+    D+ T       LR   + K G   P++VV 
Sbjct: 103 WDFGGQEIMHASHQFFMTRSSVYMLLL---DSRTDSNKHYWLRH--IEKYGGKSPVIVVM 157

Query: 162 NKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           NK +     ++ ++          +  F   S K    +  + K L +  
Sbjct: 158 NKIDENPSYNIEQKKINERF-PAIENRFHRISCKNGDGVESIAKSLKSAV 206

>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 = 74.6 bits (184), Expect = 1e-16
 Identities = 45/170 (26%), Positives = 87/170 (51%), Gaps = 22/170 (12%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG-EYELP----DGAQLTLDILDT 105
           +++++G + VGK+S + ++  D F   +  TV     G ++++     +  ++ L I DT
Sbjct: 10  KILIIGNSSVGKTSFLFRYADDSFTPAFVSTV-----GIDFKVKTIYRNDKRIKLQIWDT 64

Query: 106 SGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVV 160
           +G  ++   R  +I+T     A  F+L+Y + +  +++ V+D   QI         +++V
Sbjct: 65  AGLERY---R--TITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLV 119

Query: 161 GNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           GNKC++E +  V  E    +A       F E SAK+N N+ Q F+ L+  
Sbjct: 120 GNKCDMEDERVVSSERGRQLA-DHLGFEFFEASAKDNINVKQTFERLVDV 168

>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 = 74.1 bits (183), Expect = 2e-16
 Identities = 42/172 (24%), Positives = 81/172 (47%), Gaps = 28/172 (16%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAY 109
           +V++G    GKSS++ +F+ D+F+   + T       +    + + A +  +I DT+G  
Sbjct: 15  LVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQ-TLAV-NDATVKFEIWDTAGQE 72

Query: 110 QFPAMRELSIST-----ADAFVLVYAV------DDASTWDVVKDLREQIVNKRGLMVPIV 158
           ++      S++      A A ++V+ V      + A  W  V++L+ Q        + + 
Sbjct: 73  RY---H--SLAPMYYRGAAAAIIVFDVTNQASFERAKKW--VQELQAQ----GNPNMVMA 121

Query: 159 VVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           + GNK +L     V  E A+T A  +    F+E SAK   N+ ++F E+  +
Sbjct: 122 LAGNKSDLLDARKVTAEDAQTYAQ-ENGLFFMETSAKTATNVKEIFYEIARR 172

>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 = 73.8 bits (182), Expect = 2e-16
 Identities = 42/183 (22%), Positives = 90/183 (49%), Gaps = 29/183 (15%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISR-YKET--VE------ELHRGEYELPDGAQLTLD 101
           +V+++G + VGK+ ++ +F    F++  +  T  ++      ++        DG ++ L 
Sbjct: 12  KVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDV--------DGVKVKLQ 63

Query: 102 ILDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP 156
           + DT+G  +F   R  S++      A A +L+Y V + +++D ++    +I       V 
Sbjct: 64  MWDTAGQERF---R--SVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVA 118

Query: 157 IVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYN 215
           ++++GNK +   +  V+RE  E +A  ++   F+E SAK   N+   F  +  + K +  
Sbjct: 119 LMLLGNKVDSAHERVVKREDGEKLA-KEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSM 177

Query: 216 LSP 218
            +P
Sbjct: 178 KAP 180

>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 = 74.7 bits (184), Expect = 2e-16
 Identities = 34/176 (19%), Positives = 78/176 (44%), Gaps = 23/176 (13%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE--------ELHRGEYELPDGAQLTL 100
           +++ +G + VGK++ + ++  ++F  ++  T  ++                     ++ L
Sbjct: 27  KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHL 86

Query: 101 DILDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKD-LREQIVNKRGLM 154
            + DT+G  +F   R  S++T     A  F+L++ +    ++  V++ + +   N     
Sbjct: 87  QLWDTAGQERF---R--SLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCEN 141

Query: 155 VPIVVVGNKCELE-FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
             IV++GNK +L   ++V    A  +A   +   + E SA    N+ +  + LL  
Sbjct: 142 PDIVLIGNKADLPDQREVNERQARELA-DKYGIPYFETSAATGQNVEKAVETLLDL 196

>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 = 73.5 bits (181), Expect = 4e-16
 Identities = 47/172 (27%), Positives = 85/172 (49%), Gaps = 28/172 (16%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDIL 103
           ++++G + VGKS ++ +F  D + + Y  T  V+      EL        DG  + L I 
Sbjct: 11  LLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL--------DGKTVKLQIW 62

Query: 104 DTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIV 158
           DT+G  +F   R  +I++     +   ++VY V D  +++ VK   ++I       V  +
Sbjct: 63  DTAGQERF---R--TITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKL 117

Query: 159 VVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +VGNKC+L+ K  V  ++A+  A    +  F+E SA ++ N+   F  +  Q
Sbjct: 118 LVGNKCDLKDKRVVEYDVAKEFA-DANKMPFLETSALDSTNVEDAFLTMARQ 168

>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 = 72.1 bits (177), Expect = 6e-16
 Identities = 38/163 (23%), Positives = 74/163 (45%), Gaps = 7/163 (4%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGAY 109
           +V++G A VGKSSI+ +F+ + F    + T     L +    + +   +  +I DT+G  
Sbjct: 6   LVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQ-RVTI-NEHTVKFEIWDTAGQE 63

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK 169
           +F ++       A A ++VY V    ++   +   +++  +    + I +VGNK +   +
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQE 123

Query: 170 DVRREIAETIA---LYDWQCGFVECSAKENYNIVQVFKELLAQ 209
              R++A         +    F E SAK   N+  VF  +  +
Sbjct: 124 GGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEK 166

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 73.3 bits (180), Expect = 6e-16
 Identities = 39/196 (19%), Positives = 71/196 (36%), Gaps = 40/196 (20%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETV---------------------------- 82
           + V++G + VGKSSI+ +   D F      T+                            
Sbjct: 9   KTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNI 68

Query: 83  ---------EELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDD 133
                       ++      +   +  DI DT+G  ++ ++  L    A   ++V+ + +
Sbjct: 69  NSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISN 128

Query: 134 ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSA 193
           ++T D  K    Q+  K      I++V NK +     V     +  A  D    F++ SA
Sbjct: 129 SNTLDRAKTWVNQL--KISSNYIIILVANKIDKNKFQVDILEVQKYA-QDNNLLFIQTSA 185

Query: 194 KENYNIVQVFKELLAQ 209
           K   NI  +F  L  +
Sbjct: 186 KTGTNIKNIFYMLAEE 201

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score = 72.6 bits (179), Expect = 6e-16
 Identities = 49/173 (28%), Positives = 77/173 (44%), Gaps = 28/173 (16%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           + +++G   VGKS ++ QF   RF   +  T  VE       +        DG Q+ L I
Sbjct: 23  KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNI--------DGKQIKLQI 74

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI 157
            DT+G   F   R  SI+      A   +LVY +    T++ +    E         + I
Sbjct: 75  WDTAGQESF---R--SITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVI 129

Query: 158 VVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +++GNK +LE + DV+RE  E  A  +    F+E SAK   N+ + F     +
Sbjct: 130 MLIGNKSDLESRRDVKREEGEAFA-REHGLIFMETSAKTACNVEEAFINTAKE 181

>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 = 72.7 bits (179), Expect = 7e-16
 Identities = 44/167 (26%), Positives = 85/167 (50%), Gaps = 16/167 (9%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGA 108
           ++V++G A VGK+ ++ +F    F      T  V+ + +   E+ +G ++ L I DT+G 
Sbjct: 28  KIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIK-TVEI-NGEKVKLQIWDTAGQ 85

Query: 109 YQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK 163
            +F   R  SI+      A+A +L Y +    ++  + +   +I       V  V+VGNK
Sbjct: 86  ERF---R--SITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNK 140

Query: 164 CELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            +L  + +V ++ AE  +       ++E SAKE+ N+ ++F +L  +
Sbjct: 141 IDLAERREVSQQRAEEFSE-AQDMYYLETSAKESDNVEKLFLDLACR 186

>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 = 72.2 bits (178), Expect = 1e-15
 Identities = 42/181 (23%), Positives = 82/181 (45%), Gaps = 31/181 (17%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           +++V+G + VGK+ +  +F   RF  R + T  V+      ++        DG ++ + +
Sbjct: 22  KIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI--------DGERIKIQL 73

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKD-LREQIVNKRGLMVP 156
            DT+G  +F   R+ S+         A V VY + + +++  +   + E   +     +P
Sbjct: 74  WDTAGQERF---RK-SMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIP 129

Query: 157 IVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAK---ENYNIVQVFKELLAQAKV 212
            ++VGNKC+L     V  ++A+  A         E SAK   +N ++  +F  L  + K 
Sbjct: 130 RILVGNKCDLRSAIQVPTDLAQKFAD-THSMPLFETSAKNPNDNDHVEAIFMTLAHKLKS 188

Query: 213 Q 213
            
Sbjct: 189 H 189

>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 = 71.9 bits (177), Expect = 1e-15
 Identities = 45/167 (26%), Positives = 84/167 (50%), Gaps = 16/167 (9%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGA 108
           +VV++G + VGKS+++S+F  + F    K T  VE   R   ++ DG  +   I DT+G 
Sbjct: 31  KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATR-SIQV-DGKTIKAQIWDTAGL 88

Query: 109 YQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK 163
            ++   R  +I++     A   +LVY +    T++ V+   +++ +     + I++VGNK
Sbjct: 89  ERY---R--AITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNK 143

Query: 164 CELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            +L     V  + A   A       F+E SA ++ N+   F+ +L +
Sbjct: 144 SDLRHLRAVPTDEARAFAE-KNGLSFIETSALDSTNVEAAFQTILTE 189

>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 = 71.6 bits (176), Expect = 2e-15
 Identities = 24/174 (13%), Positives = 70/174 (40%), Gaps = 17/174 (9%)

Query: 52  VVVMGGARVGKSSIISQFLYDRF--ISRYKET--VEELHRGEYELPD--GAQLTLDILDT 105
           ++++G    GK++++ Q +  +   +     T  ++       ++ D     L L++ D 
Sbjct: 5   LMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDW-PIQIRDKRKRDLVLNVWDF 63

Query: 106 SGAYQFPAMRELSISTADAFVLVYAV-DDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC 164
           +G  +F +     ++    ++ VY +    +  D +K     I   R    P+++VG   
Sbjct: 64  AGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNI-KARASSSPVILVGTHL 122

Query: 165 ELEFKDVRR--------EIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           ++  +  R+        E+         +      + +E+  + ++ K ++ ++
Sbjct: 123 DVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINES 176

>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 = 71.1 bits (175), Expect = 2e-15
 Identities = 45/173 (26%), Positives = 78/173 (45%), Gaps = 28/173 (16%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           + +++G   VGKS ++ QF   +F++    T  VE      E+         G ++ L I
Sbjct: 17  KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV--------SGQKIKLQI 68

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI 157
            DT+G  +F   R  +++      A   ++VY +   ST++ +        N       I
Sbjct: 69  WDTAGQERF---R--AVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVI 123

Query: 158 VVVGNKCELE-FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +++GNK +LE  +DV  E A+  A  +    F+E SAK   N+   F E   +
Sbjct: 124 ILIGNKADLEAQRDVTYEEAKQFA-EENGLLFLEASAKTGENVEDAFLEAAKK 175

>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 = 71.1 bits (175), Expect = 3e-15
 Identities = 43/167 (25%), Positives = 84/167 (50%), Gaps = 16/167 (9%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGA 108
           +VV++G + VGK++++S+F  + F    + T  VE   R    L   A +   I DT+G 
Sbjct: 27  KVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTR-TVML-GTAAVKAQIWDTAGL 84

Query: 109 YQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK 163
            ++   R  +I++     A   +LV+ +    T+ VV+   +++ +     + +++VGNK
Sbjct: 85  ERY---R--AITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNK 139

Query: 164 CELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            +L    +V  E A   A  +    F+E SA ++ N+   F+ +L +
Sbjct: 140 SDLSQAREVPTEEARMFAE-NNGLLFLETSALDSTNVELAFETVLKE 185

>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 = 70.8 bits (174), Expect = 3e-15
 Identities = 46/167 (27%), Positives = 84/167 (50%), Gaps = 16/167 (9%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGA 108
           +VV++G + VGKS+++S+F  + F    K T  VE   R   ++ DG  +   I DT+G 
Sbjct: 7   KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATR-SIQV-DGKTIKAQIWDTAGQ 64

Query: 109 YQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK 163
            ++   R   I++     A   +LVY +    T++ V+   +++ +     + I++VGNK
Sbjct: 65  ERY---R--RITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNK 119

Query: 164 CELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            +L     V  + A   A       F+E SA ++ N+ + FK +L +
Sbjct: 120 SDLRHLRAVPTDEARAFA-EKNNLSFIETSALDSTNVEEAFKNILTE 165

>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 = 70.4 bits (173), Expect = 5e-15
 Identities = 39/173 (22%), Positives = 72/173 (41%), Gaps = 28/173 (16%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           + +V+G A  GKS ++ QF+ ++F      T  VE       +         G  + L I
Sbjct: 27  KFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNV--------GGKTVKLQI 78

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI 157
            DT+G  +F   R  S++      A   +LVY +    T++ +              + +
Sbjct: 79  WDTAGQERF---R--SVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVV 133

Query: 158 VVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           ++ GNK +L+ + +V    A   A  + +  F+E SA    N+ + F +    
Sbjct: 134 ILCGNKKDLDPEREVTFLEASRFA-QENELMFLETSALTGENVEEAFLKCART 185

>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 = 69.1 bits (170), Expect = 1e-14
 Identities = 40/173 (23%), Positives = 73/173 (42%), Gaps = 28/173 (16%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VE------ELHRGEYELPDGAQLTLDI 102
           + +V+G A  GKS ++ QF+  +F      T  VE       +         G  + L I
Sbjct: 12  KFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV--------GGKYVKLQI 63

Query: 103 LDTSGAYQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI 157
            DT+G  +F   R  S++      A   +LVY +    T++ + +            + I
Sbjct: 64  WDTAGQERF---R--SVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVI 118

Query: 158 VVVGNKCELE-FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           ++ GNK +L+  ++V    A   A  + +  F+E SA    N+ + F +   +
Sbjct: 119 ILCGNKKDLDADREVTFLEASRFA-QENELMFLETSALTGENVEEAFVQCARK 170

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 68.9 bits (169), Expect = 2e-14
 Identities = 42/206 (20%), Positives = 77/206 (37%), Gaps = 34/206 (16%)

Query: 32  GTESTSSSGTGVGLQKDKR-RVVVMGGARVGKSSIISQF--LYDRFISRYKET--VEELH 86
                      + +    R +V V+G A VGKS++IS F     +F+  Y  T  VE + 
Sbjct: 2   AASMVKKEVKPIDITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVV 61

Query: 87  RGEYELPDGAQLTLDI--LDTSG--AYQFPAMRELSIST-----ADAFVLVYAVDDASTW 137
                +     +++++  LDT+G   Y+          +         +LV+ V    ++
Sbjct: 62  A-PVTI-PDTTVSVELFLLDTAGSDLYK-------EQISQYWNGVYYAILVFDVSSMESF 112

Query: 138 DVVKDLREQIVNKRGLM---VPIVVVGNKCELEFK--DVRREIAETIALYDWQCG--FVE 190
           +  K   E + + R      +  V+V NK +L  +   VR ++A+  A         F +
Sbjct: 113 ESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWAT---TNTLDFFD 169

Query: 191 CSAK-ENYNIVQVFKELLAQAKVQYN 215
            SA     +    F  +       Y 
Sbjct: 170 VSANPPGKDADAPFLSIATTFYRNYE 195

>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 = 66.6 bits (163), Expect = 2e-13
 Identities = 44/167 (26%), Positives = 85/167 (50%), Gaps = 16/167 (9%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKET--VEELHRGEYELPDGAQLTLDILDTSGA 108
           ++V++G + VGKS+++S+F  + F    K T  VE   R   E+ +G ++   I DT+G 
Sbjct: 15  KIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATR-TLEI-EGKRIKAQIWDTAGQ 72

Query: 109 YQFPAMRELSIST-----ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK 163
            ++   R  +I++     A   ++VY +  +S+++       ++       V + ++GNK
Sbjct: 73  ERY---R--AITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNK 127

Query: 164 CELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            +L     V  E ++T A  + Q  F E SA  + N+ + F+EL+  
Sbjct: 128 SDLAHLRAVPTEESKTFA-QENQLLFTETSALNSENVDKAFEELINT 173

>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 = 65.8 bits (160), Expect = 1e-12
 Identities = 43/213 (20%), Positives = 82/213 (38%), Gaps = 27/213 (12%)

Query: 11  GLQTDYRKMPGACERLRLHSLGTESTSSSGTGVGLQKDKRRVVVMGGARVGKSSIISQFL 70
           G+Q D  +                   ++       K+  + VV+G   VGK+ ++  + 
Sbjct: 120 GVQLDGTEH---VRDAAEREGVMLIKKTAENIDEAAKELIKCVVVGDGAVGKTCLLISYT 176

Query: 71  YDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA 130
            + F   Y  TV + +     + DG  + L + DT+G   +  +R LS    D F++ ++
Sbjct: 177 TNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFS 235

Query: 131 VDDASTWDVVKD--LREQIVNKRGLMVPIVVVGNKCEL-------------EFKDVRREI 175
           +   +++  V+     E  V       PI++VG K +L             +   +    
Sbjct: 236 LVSPASFHHVRAKWYPE--VRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQ 293

Query: 176 AETIALYDWQCG---FVECSAKENYNIVQVFKE 205
              +A    + G   ++ECSA     +  VF E
Sbjct: 294 GLAMA---KEIGAVKYLECSALTQRGLKTVFDE 323

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A* Length = 178

 Score = 54.2 bits (131), Expect = 2e-09
 Identities = 46/174 (26%), Positives = 75/174 (43%), Gaps = 24/174 (13%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETVEEL-----HRGEYELP-DGAQLTLDILDT 105
           V +MG    GK++     L D  I   K T +E      H G Y++  +  ++T   LDT
Sbjct: 11  VTIMGHVDHGKTT-----LLDA-IRHSKVTEQEAGGITQHIGAYQVTVNDKKITF--LDT 62

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE 165
            G   F  MR       D  +LV A DD     V+    E I + +   VPI+V  NK +
Sbjct: 63  PGHEAFTTMRARGAQVTDIVILVVAADDG----VMPQTVEAINHAKAANVPIIVAINKMD 118

Query: 166 LEFKD---VRREIAE-TIALYDW--QCGFVECSAKENYNIVQVFKELLAQAKVQ 213
               +   V +E+ E  +   +W     F + SAK    +  + + +L  ++++
Sbjct: 119 KPEANPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLEMILLVSEME 172

>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 = 54.7 bits (132), Expect = 2e-09
 Identities = 29/179 (16%), Positives = 56/179 (31%), Gaps = 21/179 (11%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEEL------------HRGEYELPDGAQL 98
           ++V  G    GK++ + +++Y +     K  +  L               +     G + 
Sbjct: 16  KIVYYGPGLSGKTTNL-KWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKT 74

Query: 99  TLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM---- 154
              +    G   + A R+L +   D  V V            + +R    N         
Sbjct: 75  RFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLD 134

Query: 155 -VPIVVVGNKCELEFKDVRREIAETIAL-YDWQCGFVECSAKENYNIVQVFKELLAQAK 211
            VPIV+  NK +L        +   +     +    +E  A E   + +  KE+     
Sbjct: 135 DVPIVIQVNKRDLPDALPVEMVRAVVDPEGKFPV--LEAVATEGKGVFETLKEVSRLVL 191

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 51.1 bits (122), Expect = 8e-08
 Identities = 27/200 (13%), Positives = 77/200 (38%), Gaps = 23/200 (11%)

Query: 48  DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYE-LPDGAQLTLDILDTS 106
              ++++MG +  GKSS+ S  ++  + +     +      E+  L     +TL++ D  
Sbjct: 2   LGSKLLLMGRSGSGKSSMRS-IIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCG 60

Query: 107 GAYQF-----PAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVV 159
           G   F        ++         + V+ V+       ++   + +   R       I V
Sbjct: 61  GQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFV 120

Query: 160 VGNKCEL--------EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           + +K +L         F+ + + ++ET + + +       ++  + ++ + +      ++
Sbjct: 121 LLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWDESLYKAW------SQ 174

Query: 212 VQYNLSPAVRRRRQSLPNYI 231
           +  +L P +   + +L  + 
Sbjct: 175 IVCSLIPNMSNHQSNLKKFK 194

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 49.6 bits (118), Expect = 1e-07
 Identities = 29/184 (15%), Positives = 56/184 (30%), Gaps = 29/184 (15%)

Query: 31  LGTESTSSSGTGVGLQKDKR-RVVVMGGARVGKSSIISQFLYD-------RFISRYKETV 82
           +      SSG      +  + R+++MG  R GKSSI     +           S  K   
Sbjct: 1   MHHHHHHSSGRENLYFQGSKPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYK 60

Query: 83  EELHRGEYELPDGAQLTLDILDTSGAYQF--PAMRELSISTADAFVLVYAVDDASTWDVV 140
           +++    +       +   I D  G   F  P      I       L+Y +D    +   
Sbjct: 61  DDISNSSF-------VNFQIWDFPGQMDFFDPTFDYEMIFR-GTGALIYVIDAQDDYMEA 112

Query: 141 KDLREQIVNKRGLM---VPIVVVGNKCEL--------EFKDVRREIAETIALYDWQCGFV 189
                  V+K   +   +   V  +K +           +D+ +   + +A    +   +
Sbjct: 113 LTRLHITVSKAYKVNPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHL 172

Query: 190 ECSA 193
               
Sbjct: 173 SFYL 176

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus} Length = 537

 Score = 40.6 bits (96), Expect = 3e-04
 Identities = 42/138 (30%), Positives = 63/138 (45%), Gaps = 18/138 (13%)

Query: 86  HRGEY--ELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDL 143
           H G +   LP G ++T   LDT G   F AMR       D  +LV A DD     V+K  
Sbjct: 40  HIGAFLVSLPSGEKIT--FLDTPGHAAFSAMRARGTQVTDIVILVVAADD----GVMKQT 93

Query: 144 REQIVNKRGLMVPIVVVGNKCELEFKD---VRREIAET-IALYDWQCG----FVECSAKE 195
            E I + +   VPIV+  NKC+    D   V++E+    +   D+  G     V  SA  
Sbjct: 94  VESIQHAKDAHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDY--GGDVQAVHVSALT 151

Query: 196 NYNIVQVFKELLAQAKVQ 213
             N++ + +  +A A++ 
Sbjct: 152 GENMMALAEATIALAEML 169

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 39.3 bits (91), Expect = 6e-04
 Identities = 33/198 (16%), Positives = 63/198 (31%), Gaps = 22/198 (11%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF 111
           V++MG  R GKSSI    ++          +E       E      + L +++  G  Q 
Sbjct: 2   VLLMGVRRCGKSSICK-VVFHNMQPLDTLYLESTSNPSLE-HFSTLIDLAVMELPG--QL 57

Query: 112 PAMRELSISTA---DAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP---IVVVGNKCE 165
                   S         LVY +D    +         I+     + P   I V+ +K +
Sbjct: 58  NYFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKVNPSINIEVLIHKVD 117

Query: 166 L--------EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLS 217
                      +D+ +   E +         V       ++   +++   A +++   L 
Sbjct: 118 GLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFD-HSIYE---AFSRIVQKLI 173

Query: 218 PAVRRRRQSLPNYIGTTG 235
           P +      L N I  + 
Sbjct: 174 PELSFLENMLDNLIQHSK 191

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	253
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.98
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.98
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.98
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.98
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.98
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.98
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.98
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.98
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.98
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.98
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.98
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.98
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.98
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.97
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.97
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.97
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.97
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.97
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.97
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.97
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.97
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.97
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.97
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.97
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.97
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.97
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.97
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.97
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.97
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.97
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.97
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.97
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.97
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.97
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.97
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.97
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.97
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.97
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.97
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.97
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.97
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.97
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.97
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.97
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.97
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.97
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.97
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.97
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.97
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.97
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.97
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.97
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.97
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.97
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.97
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.97
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.97
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.97
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.97
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.97
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.97
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.97
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.97
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.97
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.97
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.97
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.97
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.97
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.97
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.96
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.96
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.96
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.96
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.96
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.96
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.96
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.96
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.96
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.95
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.95
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.95
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.95
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.95
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.95
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.95
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.95
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.95
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.91
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.95
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.95
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.95
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.94
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.94
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.94
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.94
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.93
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.93
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.93
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.93
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.93
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.93
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.92
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.91
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.91
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.91
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.91
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.91
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.91
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.9
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.9
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.9
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.9
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.89
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.89
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.89
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.89
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.89
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.88
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.87
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.87
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.87
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.87
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.87
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.87
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.87
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.86
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.85
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.85
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.84
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.83
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.83
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.83
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.83
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.83
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.83
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.82
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.82
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.81
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.81
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.81
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.81
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.8
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.8
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.8
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.79
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.79
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.79
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.79
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.79
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.78
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.78
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.78
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.77
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.77
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.77
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.77
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.77
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.77
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.76
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.76
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.76
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.76
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.76
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.74
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.73
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.73
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.73
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.72
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.71
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.7
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.69
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.69
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.69
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.68
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.68
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.67
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.67
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.67
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.66
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.65
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.64
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.63
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.6
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.6
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.59
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.58
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.58
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.57
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.56
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.55
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.54
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.53
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.51
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.48
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.48
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.47
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.42
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.42
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.36
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.34
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.27
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.26
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.2
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.1
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.86
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.83
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.78
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.74
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.7
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.64
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.63
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.61
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.58
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.44
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.31
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.3
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.17
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.98
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.92
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.91
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.9
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.83
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.81
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.74
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.73
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.47
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.27
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.14
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.13
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.12
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.09
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	97.04
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.0
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.98
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.98
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.97
2xxa_A	433	Signal recognition particle protein; protein trans	96.91
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.89
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.89
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.89
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.87
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.8
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.78
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.77
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.74
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.72
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.71
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.7
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.68
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.68
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.67
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.67
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.67
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.66
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.65
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.64
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.64
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.63
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.62
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.62
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.62
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.61
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.61
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.6
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.59
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.59
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.57
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.57
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.56
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.56
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.56
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.56
1g6h_A	257	High-affinity branched-chain amino acid transport	96.56
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.55
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.55
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.54
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.52
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.52
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.52
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.52
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.51
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.5
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.5
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.5
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.49
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.49
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.49
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.48
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.48
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.47
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.47
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.47
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.46
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.45
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.45
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.44
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.44
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.42
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.41
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.39
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.38
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.38
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.38
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.38
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.38
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.38
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.37
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.36
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.36
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.36
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.35
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.35
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.34
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.33
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.33
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.33
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.33
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.32
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.32
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.32
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.3
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.29
3co5_A	143	Putative two-component system transcriptional RES	96.28
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.25
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.25
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.25
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.24
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.22
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.22
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.22
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.22
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.22
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.22
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.21
1via_A	175	Shikimate kinase; structural genomics, transferase	96.19
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.17
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.17
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.16
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.16
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.14
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.14
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.13
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.13
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.11
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.1
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.1
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.09
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.09
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.09
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.09
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.06
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.05
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.04
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.04
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.04
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.04
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.04
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.03
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.03
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.0
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.98
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.95
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.95
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	95.94
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.94
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.94
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.94
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.93
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.91
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.9
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.89
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.89
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.88
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.88
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.87
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	95.87
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.86
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.86
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.85
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.84
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.83
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.79
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.79
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.74
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.72
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.72
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	95.72
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.7
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	95.69
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.68
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.67
2og2_A	359	Putative signal recognition particle receptor; nuc	95.66
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.66
3bos_A	242	Putative DNA replication factor; P-loop containing	95.62
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.61
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.61
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	95.6
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.58
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.57
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.56
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.55
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	95.55
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.54
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	95.54
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.52
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.52
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.5
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.45
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	95.42
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.41
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.36
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.35
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.35
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.31
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.3
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.3
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.26
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.25
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.25
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	95.24
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.24
2chg_A	226	Replication factor C small subunit; DNA-binding pr	95.23
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.21
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.19
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.14
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.14
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.09
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.08
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.04
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.03
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	95.01
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.0
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	94.96
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	94.95
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.93
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.93
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.92
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.87
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.84
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	94.81
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.8
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.78
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	94.75
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.74
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	94.74
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.71
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	94.7
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.7
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	94.7
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	94.69
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	94.67
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	94.66
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	94.65
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	94.64
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	94.64
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	94.63
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.63
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.6
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	94.6
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.58
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.58
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	94.57
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.57
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.55
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.54
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	94.53
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.53
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.51
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	94.43
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	94.37
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	94.36
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	94.35
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.26
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	94.24
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	94.24
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	94.23
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	94.23
2qgz_A	308	Helicase loader, putative primosome component; str	94.19
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	94.19
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.18
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.17
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	94.16
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	94.12
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.11
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	94.11
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	94.1
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	94.08
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.07
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	94.05
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	94.04
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	94.03
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	94.01

>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=5.2e-39  Score=254.22  Aligned_cols=166  Identities=30%  Similarity=0.466  Sum_probs=141.8

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....+||+|+|++|||||||+++|+.+.|...+.+|.+ ++....+.+ ++..+.++||||+|+++|..++..+++++++
T Consensus        10 P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~-~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~   88 (216)
T 4dkx_A           10 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYL-EDRTIRLQLWDTAGLERFRSLIPSYIRDSAA   88 (216)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEEC-SSCEEEEEEECCSCTTTCGGGHHHHHTTCSE
T ss_pred             CCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEe-cceEEEEEEEECCCchhhhhHHHHHhccccE
Confidence            34679999999999999999999999999888888877 677777777 8889999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +++|||++++.+|+.+..|+..+.....+++|++||+||+|+.+. .+..+.++.+++ ..+++|++|||++|.||+++|
T Consensus        89 ~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~-~~~~~~~e~SAktg~nV~e~F  167 (216)
T 4dkx_A           89 AVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAK-ELNVMFIETSAKAGYNVKQLF  167 (216)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCEEEEEBTTTTBSHHHHH
T ss_pred             EEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHH-HhCCeeEEEeCCCCcCHHHHH
Confidence            999999999999999999999998887788999999999999875 788889999998 667899999999999999999


Q ss_pred             HHHHHHHHHh
Q psy549          204 KELLAQAKVQ  213 (253)
Q Consensus       204 ~~l~~~~~~~  213 (253)
                      +.|++.+...
T Consensus       168 ~~i~~~i~~~  177 (216)
T 4dkx_A          168 RRVAAALPGM  177 (216)
T ss_dssp             HHHHHHC---
T ss_pred             HHHHHHHHhh
Confidence            9999988654

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=100.00  E-value=4.8e-32  Score=212.55  Aligned_cols=166  Identities=33%  Similarity=0.592  Sum_probs=146.0

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....++|+|+|++|||||||+++|.++.+...+.+|+...+...+.+ ++..+.+.+||+||++++..++..+++.+|++
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   89 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGF   89 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEEEEEEEE-TTEEEEEEEEECCCTTCCHHHHHHHHHHCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEE-CCEEEEEEEEcCCChhhhHHHHHHHHhhCCEE
Confidence            34679999999999999999999999998888888888777777777 77788999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      ++|||+++..+|..+..|+..+..... .++|+++|+||+|+... .+..+.+..+.. ..+++++++||++|.|++++|
T Consensus        90 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~g~gi~~l~  168 (206)
T 2bov_A           90 LCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAE-QWNVNYVETSAKTRANVDKVF  168 (206)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCEEEEECTTTCTTHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHH-HhCCeEEEEeCCCCCCHHHHH
Confidence            999999999999999999988887543 47999999999999765 566666777776 456799999999999999999


Q ss_pred             HHHHHHHHHh
Q psy549          204 KELLAQAKVQ  213 (253)
Q Consensus       204 ~~l~~~~~~~  213 (253)
                      ++|++.+...
T Consensus       169 ~~l~~~i~~~  178 (206)
T 2bov_A          169 FDLMREIRAR  178 (206)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            9999998664

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=100.00  E-value=2.4e-31  Score=208.93  Aligned_cols=170  Identities=26%  Similarity=0.392  Sum_probs=147.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|.+..+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|+
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (206)
T 2bcg_Y            5 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL-DGKTVKLQIWDTAGQERFRTITSSYYRGSHG   83 (206)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEE-TTEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEE-CCEEEEEEEEeCCChHHHHHHHHHhccCCCE
Confidence            34578999999999999999999999988766655554 555566777 7778899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|+|||++++.++..+..|+..+......++|+++|+||+|+... .+..+.+..++. ..+++++++||++|.|++++|
T Consensus        84 vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~g~gi~~l~  162 (206)
T 2bcg_Y           84 IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFAD-ANKMPFLETSALDSTNVEDAF  162 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHH-HTTCCEEECCTTTCTTHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHHH
Confidence            999999999999999999999888876678999999999999765 566677777776 567899999999999999999


Q ss_pred             HHHHHHHHHhcccC
Q psy549          204 KELLAQAKVQYNLS  217 (253)
Q Consensus       204 ~~l~~~~~~~~~~~  217 (253)
                      ++|.+.+.+.....
T Consensus       163 ~~l~~~i~~~~~~~  176 (206)
T 2bcg_Y          163 LTMARQIKESMSQQ  176 (206)
T ss_dssp             HHHHHHHHHHCCHH
T ss_pred             HHHHHHHHHHHhhc
Confidence            99999998775544

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=9.2e-32  Score=209.85  Aligned_cols=166  Identities=39%  Similarity=0.647  Sum_probs=141.6

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      +.....++|+|+|++|||||||+++|.++.+...+.++....+...+.+ ++..+.+.+||+||++++...+..+++.+|
T Consensus         3 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   81 (199)
T 2gf0_A            3 PEQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYRQVISC-DKSVCTLQITDTTGSHQFPAMQRLSISKGH   81 (199)
T ss_dssp             --CCCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEEEEEEE-TTEEEEEEEEECCGGGSCHHHHHHHHHHCS
T ss_pred             ccCCCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccceeEEEEE-CCEEEEEEEEeCCChHHhHHHHHHhhccCC
Confidence            3455679999999999999999999999888766666766666666666 777889999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRG--LMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      ++++|||++++.++..+..|+..+.....  .++|+++|+||+|+....+..+.+..++. .++++++++||++|.|+++
T Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~  160 (199)
T 2gf0_A           82 AFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQREVDTREAQAVAQ-EWKCAFMETSAKMNYNVKE  160 (199)
T ss_dssp             EEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSSCSSCHHHHHHHHH-HHTCEEEECBTTTTBSHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCccccCHHHHHHHHH-HhCCeEEEEecCCCCCHHH
Confidence            99999999999999988888877766432  46899999999999877677777777776 5678999999999999999


Q ss_pred             HHHHHHHHHH
Q psy549          202 VFKELLAQAK  211 (253)
Q Consensus       202 l~~~l~~~~~  211 (253)
                      +|++|++.+.
T Consensus       161 l~~~l~~~~~  170 (199)
T 2gf0_A          161 LFQELLTLET  170 (199)
T ss_dssp             HHHHHHHHCS
T ss_pred             HHHHHHHHHh
Confidence            9999998773

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=100.00  E-value=3.4e-31  Score=204.04  Aligned_cols=167  Identities=30%  Similarity=0.502  Sum_probs=146.7

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      ......+||+|+|++|||||||+++|+++.+...+.+++...+...+.+ ++..+.+.+||+||++++...+..+++.+|
T Consensus        13 ~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d   91 (183)
T 3kkq_A           13 SENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSYLKHTEI-DNQWAILDVLDTAGQEEFSAMREQYMRTGD   91 (183)
T ss_dssp             -CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEE-TTEEEEEEEEECCSCGGGCSSHHHHHHHCS
T ss_pred             ccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceeEEEEEe-CCcEEEEEEEECCCchhhHHHHHHHHhcCC
Confidence            3456789999999999999999999999988888888887777777777 788889999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccC-CCCCHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAK-ENYNIV  200 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~-~~~~i~  200 (253)
                      ++++|||++++.+|..+..|+..+... ...++|+++|+||+|+.+. .+..+.++.++. ..+++++++||+ ++.|++
T Consensus        92 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~~~v~  170 (183)
T 3kkq_A           92 GFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMAT-KYNIPYIETSAKDPPLNVD  170 (183)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHH-HHTCCEEEEBCSSSCBSHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHH-HhCCeEEEeccCCCCCCHH
Confidence            999999999999999999999888763 4467999999999999764 677777888887 456899999999 999999


Q ss_pred             HHHHHHHHHHHH
Q psy549          201 QVFKELLAQAKV  212 (253)
Q Consensus       201 ~l~~~l~~~~~~  212 (253)
                      ++|++|++.+.+
T Consensus       171 ~l~~~l~~~i~~  182 (183)
T 3kkq_A          171 KTFHDLVRVIRQ  182 (183)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999999998854

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=100.00  E-value=4.9e-31  Score=203.81  Aligned_cols=166  Identities=20%  Similarity=0.324  Sum_probs=139.9

Q ss_pred             CCCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhccc
Q psy549           42 GVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST  121 (253)
Q Consensus        42 ~~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~  121 (253)
                      ...+....+||+|+|++|||||||+++|+++.+...+.+| ...+...+.+ ++..+.+.+|||+|++++.     +++.
T Consensus        13 ~~~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t-~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~-----~~~~   85 (184)
T 3ihw_A           13 NLYFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPE-GGRFKKEIVV-DGQSYLLLIRDEGGPPELQ-----FAAW   85 (184)
T ss_dssp             ---CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTT-CEEEEEEEEE-TTEEEEEEEEECSSSCCHH-----HHHH
T ss_pred             CCCCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCC-cceEEEEEEE-CCEEEEEEEEECCCChhhh-----eecC
Confidence            3345677899999999999999999999999987766666 4444577777 8888999999999998876     7788


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCC---ccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEF---KDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       122 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      +|++++|||++++.+|+.+..|+..+..... .++|+++|+||+|+..   ..+..+.+..++.....+++++|||++|.
T Consensus        86 ~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~  165 (184)
T 3ihw_A           86 VDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGL  165 (184)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTB
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCC
Confidence            9999999999999999999999998877543 5689999999999852   36777788888885555899999999999


Q ss_pred             CHHHHHHHHHHHHHHhc
Q psy549          198 NIVQVFKELLAQAKVQY  214 (253)
Q Consensus       198 ~i~~l~~~l~~~~~~~~  214 (253)
                      |++++|++|++.+...+
T Consensus       166 gv~~lf~~l~~~i~~~~  182 (184)
T 3ihw_A          166 NVERVFQDVAQKVVALR  182 (184)
T ss_dssp             THHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHHHh
Confidence            99999999999887653

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=2.1e-31  Score=208.72  Aligned_cols=170  Identities=24%  Similarity=0.352  Sum_probs=145.8

Q ss_pred             CCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhccc
Q psy549           43 VGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST  121 (253)
Q Consensus        43 ~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~  121 (253)
                      +......++|+|+|++|||||||+++|+++.+...+..|.. +.....+.+ ++..+.+++||+||++++..++..+++.
T Consensus        20 ~~~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~~~~~~~~~~~~~   98 (201)
T 2ew1_A           20 MEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI-NGEKVKLQIWDTAGQERFRSITQSYYRS   98 (201)
T ss_dssp             --CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGHHHHGGGSTT
T ss_pred             ccccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEECCCcHHHHHHHHHHHhc
Confidence            34456679999999999999999999999988666555554 666667777 7778899999999999999999999999


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       122 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      +|++|+|||++++.+|..+..|+..+......++|+++|+||+|+.+. .+..+.++.++. ..++++++|||++|.|++
T Consensus        99 ~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~g~gv~  177 (201)
T 2ew1_A           99 ANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSE-AQDMYYLETSAKESDNVE  177 (201)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHH-HHTCCEEECCTTTCTTHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHH-HcCCEEEEEeCCCCCCHH
Confidence            999999999999999999999999888876678999999999999754 566677777776 556899999999999999


Q ss_pred             HHHHHHHHHHHHhc
Q psy549          201 QVFKELLAQAKVQY  214 (253)
Q Consensus       201 ~l~~~l~~~~~~~~  214 (253)
                      ++|++|++.+....
T Consensus       178 ~l~~~l~~~i~~~~  191 (201)
T 2ew1_A          178 KLFLDLACRLISEA  191 (201)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999987653

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=100.00  E-value=4.6e-31  Score=204.54  Aligned_cols=170  Identities=26%  Similarity=0.373  Sum_probs=144.2

Q ss_pred             CCCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcc
Q psy549           42 GVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS  120 (253)
Q Consensus        42 ~~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~  120 (253)
                      ........++|+|+|++|||||||+++|+++.+...+..+.. +.....+.+ ++..+.+.+||+||++++...+..+++
T Consensus        15 ~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~   93 (189)
T 2gf9_A           15 VPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYR-HDKRIKLQIWDTAGQERYRTITTAYYR   93 (189)
T ss_dssp             CCTTCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEE-TTEEEEEEEEECCSCCSSCCSGGGGGT
T ss_pred             CCcccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEE-CCeEEEEEEEeCCCcHHHhhhHHHhcc
Confidence            333455679999999999999999999999988665555554 444555666 677889999999999999999999999


Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       121 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      .+|++|+|||++++.++..+..|+..+......++|+++|+||+|+... .+..+.++.++. ..+++++++||++|.|+
T Consensus        94 ~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~g~gi  172 (189)
T 2gf9_A           94 GAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLAD-DLGFEFFEASAKENINV  172 (189)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCEEEECBTTTTBSH
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHH-HcCCeEEEEECCCCCCH
Confidence            9999999999999999999999999888776667999999999999765 556667777777 45689999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy549          200 VQVFKELLAQAKVQ  213 (253)
Q Consensus       200 ~~l~~~l~~~~~~~  213 (253)
                      +++|++|++.+.+.
T Consensus       173 ~~l~~~l~~~i~~~  186 (189)
T 2gf9_A          173 KQVFERLVDVICEK  186 (189)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999988765

>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=99.98  E-value=3.1e-31  Score=205.90  Aligned_cols=172  Identities=27%  Similarity=0.352  Sum_probs=144.0

Q ss_pred             CCCCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhc
Q psy549           41 TGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSI  119 (253)
Q Consensus        41 ~~~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~  119 (253)
                      .........+||+|+|++|||||||+++|+++.+...+..+.. +.....+.+ ++..+.+.+||+||++++..++..++
T Consensus        13 ~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~   91 (191)
T 2a5j_A           13 GLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNI-DGKQIKLQIWDTAGQESFRSITRSYY   91 (191)
T ss_dssp             CCCCTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEE-TTEEEEEEEECCTTGGGTSCCCHHHH
T ss_pred             ccccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEE-CCEEEEEEEEECCCchhhhhhHHHHh
Confidence            3334456789999999999999999999999888655555544 555566777 77788999999999999999999999


Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                      +.+|++|+|||++++.++..+..|+..+......++|+++|+||+|+... .+..+.++.++. ..+++++++||+++.|
T Consensus        92 ~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~g  170 (191)
T 2a5j_A           92 RGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAR-EHGLIFMETSAKTACN  170 (191)
T ss_dssp             TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCEEEEECTTTCTT
T ss_pred             ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHH-HcCCEEEEEeCCCCCC
Confidence            99999999999999999999999999888876678999999999999764 566677777776 5678999999999999


Q ss_pred             HHHHHHHHHHHHHHhc
Q psy549          199 IVQVFKELLAQAKVQY  214 (253)
Q Consensus       199 i~~l~~~l~~~~~~~~  214 (253)
                      ++++|++|++.+.+..
T Consensus       171 i~~l~~~l~~~i~~~~  186 (191)
T 2a5j_A          171 VEEAFINTAKEIYRKI  186 (191)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999987654

>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=99.98  E-value=5e-31  Score=203.81  Aligned_cols=165  Identities=32%  Similarity=0.558  Sum_probs=145.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..++|+|+|++|||||||+++|+++.+...+.+++.+.+...+.+ ++..+.+.+||+||++++..++..+++.+|++++
T Consensus         3 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   81 (189)
T 4dsu_A            3 TEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   81 (189)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCCEEEEEEEEE-TTEEEEEEEEECCCC---CTTHHHHHHHCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCchheEEEEEEE-CCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEE
Confidence            568999999999999999999999998888888888888888888 7888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      |||++++.++..+..|+..+... ...++|+++|+||+|+.......+.+..++. ..+++++++||++|.|++++|++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~g~gi~~l~~~l  160 (189)
T 4dsu_A           82 VFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLAR-SYGIPFIETSAKTRQGVDDAFYTL  160 (189)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSCSSCHHHHHHHHH-HHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcccccCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999888774 3457999999999999887778888888887 556899999999999999999999


Q ss_pred             HHHHHHhc
Q psy549          207 LAQAKVQY  214 (253)
Q Consensus       207 ~~~~~~~~  214 (253)
                      .+.+....
T Consensus       161 ~~~~~~~~  168 (189)
T 4dsu_A          161 VREIRKHK  168 (189)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhh
Confidence            99987653

>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=99.98  E-value=8.1e-31  Score=201.16  Aligned_cols=167  Identities=34%  Similarity=0.545  Sum_probs=146.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....++|+|+|++|||||||+++|++..+...+.+|+...+...+.+ ++..+.+.+||+||++++..++..+++.+|++
T Consensus         6 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   84 (181)
T 2fn4_A            6 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICSV-DGIPARLDILDTAGQEEFGAMREQYMRAGHGF   84 (181)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEEEEEEE-TTEEEEEEEEECCCTTTTSCCHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEEEEEEE-CCEEEEEEEEECCCchhhHHHHHHHHhhCCEE
Confidence            45679999999999999999999999998888888888777777777 77788999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      ++|||++++.++..+..|+..+.. ....++|+++|+||+|+... .+..+.+..++. ..+++++++||++|.|++++|
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~gv~~l~  163 (181)
T 2fn4_A           85 LLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGA-SHHVAYFEASAKLRLNVDEAF  163 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHH-HcCCeEEEecCCCCCCHHHHH
Confidence            999999999999999999988855 34467999999999999765 566777777777 567899999999999999999


Q ss_pred             HHHHHHHHHhc
Q psy549          204 KELLAQAKVQY  214 (253)
Q Consensus       204 ~~l~~~~~~~~  214 (253)
                      ++|.+.+....
T Consensus       164 ~~l~~~~~~~~  174 (181)
T 2fn4_A          164 EQLVRAVRKYQ  174 (181)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhh
Confidence            99999987654

>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=99.98  E-value=1.1e-30  Score=201.53  Aligned_cols=168  Identities=33%  Similarity=0.577  Sum_probs=144.9

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      ......++|+|+|++|||||||+++|++..+...+.+++...+...+.+ ++..+.+.+||+||++++..++..+++.+|
T Consensus        13 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   91 (187)
T 2a9k_A           13 QNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRSGE   91 (187)
T ss_dssp             ----CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEEEEEEEE-TTEEEEEEEEECCCTTCCHHHHHHHHHHCS
T ss_pred             CCCCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEEEEEEEE-CCEEEEEEEEECCCCcccHHHHHHHhccCC
Confidence            3345679999999999999999999999998888888887777777777 777889999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      ++++|||++++.++..+..|+..+..... .++|+++|+||+|+.+. .+..+.+..+.. ..+++++++||+++.|+++
T Consensus        92 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~  170 (187)
T 2a9k_A           92 GFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAE-QWNVNYVETSAKTRANVDK  170 (187)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHH-HcCCeEEEeCCCCCCCHHH
Confidence            99999999999999999999888877543 47999999999999765 556666777776 5678999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy549          202 VFKELLAQAKVQ  213 (253)
Q Consensus       202 l~~~l~~~~~~~  213 (253)
                      +|++|.+.+...
T Consensus       171 l~~~l~~~i~~~  182 (187)
T 2a9k_A          171 VFFDLMREIRAR  182 (187)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999988654

>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=99.98  E-value=4.7e-31  Score=206.72  Aligned_cols=168  Identities=23%  Similarity=0.357  Sum_probs=139.8

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      .....++|+|+|++|||||||+++|.++.+...+..|.. ++....+.+ ++..+.+.+||+||++++..++..+++.+|
T Consensus        25 ~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d  103 (201)
T 2hup_A           25 QYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEI-QGKRVKLQIWDTAGQERFRTITQSYYRSAN  103 (201)
T ss_dssp             -CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEE-TTEEEEEEEECCTTCGGGHHHHHHHHTTCS
T ss_pred             ccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEE-CCEEEEEEEEECCCcHhHHHHHHHHHhhCC
Confidence            345679999999999999999999999988666655554 555667777 777789999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCC-cEEEeccCCCCCHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQC-GFVECSAKENYNIVQ  201 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~  201 (253)
                      ++|+|||++++.+|..+..|+..+......++|+++|+||+|+... .+..+.++.++. ..++ ++++|||+++.||++
T Consensus       104 ~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~~SA~~g~gi~~  182 (201)
T 2hup_A          104 GAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAE-HYDILCAIETSAKDSSNVEE  182 (201)
T ss_dssp             EEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCSEEEECBTTTTBSHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHH-HcCCCEEEEEeCCCCCCHHH
Confidence            9999999999999999999999888876678999999999999764 566677777777 4566 999999999999999


Q ss_pred             HHHHHHHHHHHhc
Q psy549          202 VFKELLAQAKVQY  214 (253)
Q Consensus       202 l~~~l~~~~~~~~  214 (253)
                      +|++|++.+....
T Consensus       183 l~~~l~~~i~~~~  195 (201)
T 2hup_A          183 AFLRVATELIMRH  195 (201)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999987653

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.98  E-value=3e-31  Score=209.25  Aligned_cols=165  Identities=24%  Similarity=0.387  Sum_probs=140.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|+|||||+++|.++.+...+.+|+.+.+...+.+ ++..+.+.+||+||+++|..++..+++++|++|
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   85 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVAV-DGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFV   85 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCEEEEEEC-SSCEEEEEEECCCCCCCCCC--CGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeEEEEEEE-CCEEEEEEEEECCCcHHHHHHHHhhccCCCEEE
Confidence            4579999999999999999999999998878888888777777777 778899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCcc---------ccHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          127 LVYAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFKD---------VRREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~~---------~~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      +|||++++.+|..+. .|+..+.... +++|+++|+||+|+.+..         +..+.+..++......+++++||++|
T Consensus        86 lv~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g  164 (212)
T 2j0v_A           86 LAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQ  164 (212)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTTC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCCC
Confidence            999999999999986 7888777654 579999999999987652         25666777776444458999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy549          197 YNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       197 ~~i~~l~~~l~~~~~~~  213 (253)
                      .|++++|++|++.+...
T Consensus       165 ~gi~~l~~~l~~~~~~~  181 (212)
T 2j0v_A          165 QNVKAVFDTAIKVVLQP  181 (212)
T ss_dssp             TTHHHHHHHHHHHHHCC
T ss_pred             CCHHHHHHHHHHHHhhh
Confidence            99999999999988654

>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=99.98  E-value=3e-31  Score=205.49  Aligned_cols=163  Identities=26%  Similarity=0.399  Sum_probs=138.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....+||+|+|++|||||||+++|+++.+...+.+|+...+...+.+ ++..+.+++||++|++++..+ ..+++.+|++
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~   95 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEETV-DHQPVHLRVMDTADLDTPRNC-ERYLNWAHAF   95 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEE-TTEEEEEEEEECCC---CCCT-HHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceeeEEEEE-CCEEEEEEEEECCCCCcchhH-HHHHhhCCEE
Confidence            45679999999999999999999999998888888888776667777 778899999999999998875 5688999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhc---CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEecc-CCCCCHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKR---GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSA-KENYNIV  200 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa-~~~~~i~  200 (253)
                      ++|||++++.+|..+..|+..+....   ..++|+++|+||+|+... .+..+.+..++. ..++++++||| +++.||+
T Consensus        96 ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~Sa~~~g~gv~  174 (187)
T 3c5c_A           96 LVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAG-RFGCLFFEVSACLDFEHVQ  174 (187)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHH-HHTCEEEECCSSSCSHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHH-HcCCcEEEEeecCccccHH
Confidence            99999999999999999998887753   257999999999999764 566777777877 55689999999 8999999


Q ss_pred             HHHHHHHHHHH
Q psy549          201 QVFKELLAQAK  211 (253)
Q Consensus       201 ~l~~~l~~~~~  211 (253)
                      ++|++|++.+.
T Consensus       175 ~lf~~l~~~i~  185 (187)
T 3c5c_A          175 HVFHEAVREAR  185 (187)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998874

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.98  E-value=3.7e-31  Score=205.75  Aligned_cols=171  Identities=27%  Similarity=0.406  Sum_probs=139.7

Q ss_pred             CCCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcc
Q psy549           42 GVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS  120 (253)
Q Consensus        42 ~~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~  120 (253)
                      .+.+....++|+|+|++|||||||+++|+++.+...+..+.. +.....+.+ ++..+.+.+||+||++++...+..+++
T Consensus        19 ~p~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~~~~~~~~~~~~   97 (192)
T 2il1_A           19 SPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVEL-RGKKIRLQIWDTAGQERFNSITSAYYR   97 (192)
T ss_dssp             ---CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEE-TTEEEEEEEEEECCSGGGHHHHHHHHH
T ss_pred             CCcccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEE-CCeEEEEEEEeCCCcHHHHHHHHHHhc
Confidence            344566789999999999999999999999887655555543 666667777 777889999999999999999999999


Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       121 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      .+|++|+|||++++.++..+..|+..+......++|+++|+||+|+... .+..+.++.++....+.+++++||++|.|+
T Consensus        98 ~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi  177 (192)
T 2il1_A           98 SAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNV  177 (192)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSH
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCH
Confidence            9999999999999999999999998888776678999999999999765 566777778887445789999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy549          200 VQVFKELLAQAKVQ  213 (253)
Q Consensus       200 ~~l~~~l~~~~~~~  213 (253)
                      +++|++|++.+.++
T Consensus       178 ~~l~~~l~~~i~~~  191 (192)
T 2il1_A          178 DEIFLKLVDDILKK  191 (192)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999988653

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.98  E-value=3.1e-31  Score=211.01  Aligned_cols=168  Identities=24%  Similarity=0.360  Sum_probs=137.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...++|+|+|++|||||||+++|.+..+...+.++.. ++....+.+ ++..+.+.|||+||+++|..++..+++.+|++
T Consensus        11 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~v   89 (223)
T 3cpj_B           11 DLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEI-EGKRIKAQIWDTAGQERYRAITSAYYRGAVGA   89 (223)
T ss_dssp             CEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEE-TTEEEEEEEECCTTTTTTTCCCGGGTTTCCEE
T ss_pred             CeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEE-CCEEEEEEEEECCCccchhhhHHHHhccCCEE
Confidence            5579999999999999999999999988665555544 555566777 77788999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |+|||++++.+|..+..|+..+......++|+++|+||+|+... .+..+.+..++. ..+++++++||+++.||+++|+
T Consensus        90 ilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~  168 (223)
T 3cpj_B           90 LIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQ-ENQLLFTETSALNSENVDKAFE  168 (223)
T ss_dssp             EEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHH-HTTCEEEECCCC-CCCHHHHHH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999888776667999999999999764 566667777776 5678999999999999999999


Q ss_pred             HHHHHHHHhccc
Q psy549          205 ELLAQAKVQYNL  216 (253)
Q Consensus       205 ~l~~~~~~~~~~  216 (253)
                      +|++.+......
T Consensus       169 ~l~~~i~~~~~~  180 (223)
T 3cpj_B          169 ELINTIYQKVSK  180 (223)
T ss_dssp             HHHHHHTTCC--
T ss_pred             HHHHHHHHHhhh
Confidence            999998765443

>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=99.98  E-value=4.3e-31  Score=203.10  Aligned_cols=165  Identities=27%  Similarity=0.544  Sum_probs=145.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|||||||+++|+++.+...+.+|+...+...+.+ ++..+.+.+||+||++++..++..+++.+|+++
T Consensus         4 ~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i   82 (181)
T 3t5g_A            4 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITV-NGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYI   82 (181)
T ss_dssp             EEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEE-TTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccEEEEEEE-CCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEE
Confidence            3578999999999999999999999988888888888777777777 888899999999999999988899999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      +|||++++.+|+.+..|+..+.... ..++|+++|+||+|+... .+..+.++.++. ..+++++++||+++.|++++|+
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~l~~  161 (181)
T 3t5g_A           83 LVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAE-SWNAAFLESSAKENQTAVDVFR  161 (181)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHH-HTTCEEEECCTTSHHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHH-HhCCcEEEEecCCCCCHHHHHH
Confidence            9999999999999999998887643 357999999999999755 677778888887 6788999999999999999999


Q ss_pred             HHHHHHHHh
Q psy549          205 ELLAQAKVQ  213 (253)
Q Consensus       205 ~l~~~~~~~  213 (253)
                      +|++.+...
T Consensus       162 ~l~~~~~~~  170 (181)
T 3t5g_A          162 RIILEAEKM  170 (181)
T ss_dssp             HHHHHHHTC
T ss_pred             HHHHHHHHh
Confidence            999998655

>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=99.98  E-value=4.5e-31  Score=207.26  Aligned_cols=169  Identities=28%  Similarity=0.445  Sum_probs=144.3

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|++..+...+..+.. +.....+.+ ++..+.+.+||+||++++..++..+++.+|+
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMV-DDRLVTMQIWDTAGQERFQSLGVAFYRGADC   83 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEES-SSCEEEEEEEEECSSGGGSCSCCGGGTTCSE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEE-CCEEEEEEEEeCCCcHHHHHhHHHHHhCCcE
Confidence            34679999999999999999999999988666665553 666667777 7778899999999999999888889999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcC----CCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRG----LMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~----~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      +|+|||++++.++..+..|+..+.....    .++|+++|+||+|+....+..+.+..+.....+++++++||++|.|++
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  163 (207)
T 1vg8_A           84 CVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVE  163 (207)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHHHHHHHHTTSCCEEECBTTTTBSHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcccccCHHHHHHHHHhcCCceEEEEeCCCCCCHH
Confidence            9999999999999999999888776543    468999999999998666677777777765677899999999999999


Q ss_pred             HHHHHHHHHHHHhcc
Q psy549          201 QVFKELLAQAKVQYN  215 (253)
Q Consensus       201 ~l~~~l~~~~~~~~~  215 (253)
                      ++|++|++.+.....
T Consensus       164 ~l~~~l~~~~~~~~~  178 (207)
T 1vg8_A          164 QAFQTIARNALKQET  178 (207)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999877643

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.98  E-value=1.5e-30  Score=202.44  Aligned_cols=168  Identities=29%  Similarity=0.417  Sum_probs=146.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|+++.+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|+
T Consensus        13 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   91 (196)
T 3tkl_A           13 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQERFRTITSSYYRGAHG   91 (196)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEE-TTEEEEEEEEEECCSGGGCTTHHHHHTTCSE
T ss_pred             cccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEE-CCEEEEEEEEECCCcHhhhhhHHHHHhhCCE
Confidence            35679999999999999999999999887665555544 666677777 7778899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|+|||++++.++..+..|+..+......++|+++|+||+|+... .+..+.++.++. ..+++++++||++|.|++++|
T Consensus        92 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~g~gv~~l~  170 (196)
T 3tkl_A           92 IIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD-SLGIPFLETSAKNATNVEQSF  170 (196)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHH-HTTCCEEEECTTTCTTHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHHHHHHHH-HcCCcEEEEeCCCCCCHHHHH
Confidence            999999999999999999999988877778999999999999765 566677777877 667899999999999999999


Q ss_pred             HHHHHHHHHhcc
Q psy549          204 KELLAQAKVQYN  215 (253)
Q Consensus       204 ~~l~~~~~~~~~  215 (253)
                      ++|++.+.....
T Consensus       171 ~~l~~~i~~~~~  182 (196)
T 3tkl_A          171 MTMAAEIKKRMG  182 (196)
T ss_dssp             HHHHHHHHHHC-
T ss_pred             HHHHHHHHHHhc
Confidence            999999977644

>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=99.98  E-value=1.6e-30  Score=196.96  Aligned_cols=162  Identities=39%  Similarity=0.641  Sum_probs=142.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..++|+|+|++|||||||+++|.++.+...+.+|....+...+.+ ++..+.+.+||+||++++..++..+++.+|++++
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   80 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEV-DCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEES-SSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEEEEEEE-CCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            358999999999999999999999988877778877777777777 7788999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |||++++.++..+..|+..+... ...++|+++|+||+|+.+. .+..+.+..++....+.+++++||++|.|++++|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (167)
T 1c1y_A           81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYD  160 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHH
Confidence            99999999999999998888774 3457999999999999765 456677777777444789999999999999999999


Q ss_pred             HHHHH
Q psy549          206 LLAQA  210 (253)
Q Consensus       206 l~~~~  210 (253)
                      |++.+
T Consensus       161 l~~~i  165 (167)
T 1c1y_A          161 LVRQI  165 (167)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99876

>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=99.97  E-value=1.6e-30  Score=198.93  Aligned_cols=167  Identities=24%  Similarity=0.433  Sum_probs=142.2

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      .....++|+|+|++|+|||||+++|+++.+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|
T Consensus         3 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (177)
T 1wms_A            3 GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVTMQIWDTAGQERFRSLRTPFYRGSD   81 (177)
T ss_dssp             CCEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEE-TTEEEEEEEEECCCCGGGHHHHGGGGTTCS
T ss_pred             CccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEE-CCEEEEEEEEeCCCchhhhhhHHHHHhcCC
Confidence            345679999999999999999999999887665555554 555667777 777889999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcC----CCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRG----LMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~----~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      ++++|||++++.++..+..|+..+.....    .++|+++|+||+|+....+..+.+..++......+++++||++|.|+
T Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (177)
T 1wms_A           82 CCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEAQAWCRDNGDYPYFETSAKDATNV  161 (177)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCSSCHHHHHHHHHHTTCCCEEECCTTTCTTH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCcccccccCHHHHHHHHHhcCCceEEEEeCCCCCCH
Confidence            99999999999999999999988877543    67899999999999866777777788877567889999999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy549          200 VQVFKELLAQAKV  212 (253)
Q Consensus       200 ~~l~~~l~~~~~~  212 (253)
                      +++|+++++.+.+
T Consensus       162 ~~l~~~l~~~~~~  174 (177)
T 1wms_A          162 AAAFEEAVRRVLA  174 (177)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998854

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.97  E-value=8.6e-31  Score=204.89  Aligned_cols=168  Identities=24%  Similarity=0.399  Sum_probs=135.4

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      ......++|+|+|++|||||||+++|+++.+...+.+|+.+.+...+.+ ++..+.+.+||+||++++..++..+++++|
T Consensus        15 ~~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   93 (201)
T 2q3h_A           15 GAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSAVVSV-DGRPVRLQLCDTAGQDEFDKLRPLCYTNTD   93 (201)
T ss_dssp             -----CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEEEEEEEE-TTEEEEEEEEECCCSTTCSSSGGGGGTTCS
T ss_pred             CCCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEE-CCEEEEEEEEECCCCHHHHHHhHhhcCCCc
Confidence            3456789999999999999999999999888888888888777777777 778889999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEE
Q psy549          124 AFVLVYAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFV  189 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~  189 (253)
                      ++|+|||++++.+|..+. .|+..+.... .++|+++|+||+|+...             .+..+.+..++......+++
T Consensus        94 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  172 (201)
T 2q3h_A           94 IFLLCFSVVSPSSFQNVSEKWVPEIRCHC-PKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYI  172 (201)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHHC-SSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEE
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEE
Confidence            999999999999999986 6888777654 57999999999998752             45666777777744445899


Q ss_pred             EeccCCCCCHHHHHHHHHHHHHHh
Q psy549          190 ECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       190 ~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      +|||++|.|++++|++|++.+...
T Consensus       173 ~~Sa~~g~gi~~l~~~l~~~~~~~  196 (201)
T 2q3h_A          173 ECSALTQKNLKEVFDAAIVAGIQY  196 (201)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             EEecCCCCCHHHHHHHHHHHHhcc
Confidence            999999999999999999988654

>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=99.97  E-value=1.6e-30  Score=202.18  Aligned_cols=164  Identities=24%  Similarity=0.391  Sum_probs=142.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....++|+|+|++|||||||+++|.++.+...+.+|+.+.+...+.+ ++..+.+.+||+||++++..++..+++++|++
T Consensus        15 ~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   93 (194)
T 2atx_A           15 GALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTV-GGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVF   93 (194)
T ss_dssp             EEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCEEEEEES-SSCEEEEEEECCCCSSSSTTTGGGGCTTCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEE-CCEEEEEEEEECCCCcchhHHHHHhcCCCCEE
Confidence            34679999999999999999999999998888888887777777777 77889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEe
Q psy549          126 VLVYAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVEC  191 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~  191 (253)
                      |+|||++++.+|..+. .|+..+.... +++|+++|+||+|+...             .+..+.+..++......+++++
T Consensus        94 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  172 (194)
T 2atx_A           94 LICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVEC  172 (194)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEEe
Confidence            9999999999999987 7888777653 47999999999999763             4556777777774443489999


Q ss_pred             ccCCCCCHHHHHHHHHHHHH
Q psy549          192 SAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       192 Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      ||++|.|++++|++|++.+.
T Consensus       173 Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          173 SALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             CTTTCTTHHHHHHHHHHHHH
T ss_pred             eCCCCCCHHHHHHHHHHHHh
Confidence            99999999999999998874

>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=99.97  E-value=2.9e-31  Score=209.92  Aligned_cols=168  Identities=22%  Similarity=0.300  Sum_probs=142.5

Q ss_pred             CCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccC
Q psy549           43 VGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTA  122 (253)
Q Consensus        43 ~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~  122 (253)
                      .......+||+|+|++|||||||+++|+++.+...+.+|....+...+.+ ++..+.+.+||++|++++..++..+++.+
T Consensus        21 ~~~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~   99 (214)
T 3q3j_B           21 PQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLET-EEQRVELSLWDTSGSPYYDNVRPLCYSDS   99 (214)
T ss_dssp             ------CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEC---CEEEEEEEEECCSGGGTTTGGGGCTTC
T ss_pred             CCCccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeEEEEEEE-CCEEEEEEEEECCCCHhHHHHHHHHcCCC
Confidence            34456789999999999999999999999999888888888777777777 77889999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCCEEEEEecCCCCC-------------ccccHHHHHHHHHhcCCC-c
Q psy549          123 DAFVLVYAVDDASTWDV-VKDLREQIVNKRGLMVPIVVVGNKCELEF-------------KDVRREIAETIALYDWQC-G  187 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~-------------~~~~~~~~~~~~~~~~~~-~  187 (253)
                      |++|+|||++++.+|.. +..|+..+.... .++|+++|+||+|+..             ..+..+.+..++. ..++ +
T Consensus       100 d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-~~~~~~  177 (214)
T 3q3j_B          100 DAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAK-QLGAEI  177 (214)
T ss_dssp             SEEEEEEETTCTHHHHHHHTHHHHHHHHHC-TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHH-HHTCSE
T ss_pred             eEEEEEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHH-HcCCCE
Confidence            99999999999999998 688988887764 6799999999999975             3577788888888 4456 9


Q ss_pred             EEEeccCCCCC-HHHHHHHHHHHHHHh
Q psy549          188 FVECSAKENYN-IVQVFKELLAQAKVQ  213 (253)
Q Consensus       188 ~~~~Sa~~~~~-i~~l~~~l~~~~~~~  213 (253)
                      +++|||++|.| |+++|+++++.+...
T Consensus       178 ~~e~SA~~g~g~v~~lf~~l~~~~~~~  204 (214)
T 3q3j_B          178 YLEGSAFTSEKSIHSIFRTASMLCLNK  204 (214)
T ss_dssp             EEECCTTTCHHHHHHHHHHHHHHHHC-
T ss_pred             EEEeccCCCcccHHHHHHHHHHHHhcc
Confidence            99999999998 999999999988654

>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=99.97  E-value=1.3e-30  Score=199.63  Aligned_cols=164  Identities=27%  Similarity=0.367  Sum_probs=142.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|.++.+...+..+.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|+
T Consensus        12 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   90 (179)
T 1z0f_A           12 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-SGQKIKLQIWDTAGQERFRAVTRSYYRGAAG   90 (179)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEE-TTEEEEEEEEECTTGGGTCHHHHHHHHTCSE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEE-CCeEEEEEEEECCCChHhhhhHHHHhccCCE
Confidence            45679999999999999999999999988766666655 455566666 7778899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +++|||++++.++..+..|+..+......++|+++|+||+|+... .+..+.++.++. ..+++++++||++|.|++++|
T Consensus        91 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~  169 (179)
T 1z0f_A           91 ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAE-ENGLLFLEASAKTGENVEDAF  169 (179)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHH
Confidence            999999999999999999999888877678999999999999754 556667777776 567899999999999999999


Q ss_pred             HHHHHHHH
Q psy549          204 KELLAQAK  211 (253)
Q Consensus       204 ~~l~~~~~  211 (253)
                      +++++.+.
T Consensus       170 ~~l~~~i~  177 (179)
T 1z0f_A          170 LEAAKKIY  177 (179)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHh
Confidence            99998874

>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=99.97  E-value=1.7e-30  Score=199.35  Aligned_cols=167  Identities=24%  Similarity=0.424  Sum_probs=134.1

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCC-CCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTA  122 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~  122 (253)
                      .....++|+|+|++|||||||+++|++..+. ..+.+++. +.....+.+ ++..+.+.+||+||++++...+..+++.+
T Consensus         6 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~   84 (180)
T 2g6b_A            6 FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDV-DGVKVKLQMWDTAGQERFRSVTHAYYRDA   84 (180)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEE-TTEEEEEEEEECCCC--------CCGGGC
T ss_pred             cCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEE-CCEEEEEEEEeCCCcHHHHHHHHHHccCC
Confidence            4567899999999999999999999998874 34444444 555555566 77788999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      |++++|||++++.++..+..|+..+......++|+++|+||+|+... .+..+..+.++. ..+++++++||+++.|+++
T Consensus        85 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~  163 (180)
T 2g6b_A           85 HALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAK-EYGLPFMETSAKTGLNVDL  163 (180)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHH-HHTCCEEECCTTTCTTHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHH-HcCCeEEEEeCCCCCCHHH
Confidence            99999999999999999999999888876678999999999999865 556667777776 4567999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy549          202 VFKELLAQAKVQ  213 (253)
Q Consensus       202 l~~~l~~~~~~~  213 (253)
                      +|+++.+.+...
T Consensus       164 l~~~l~~~~~~~  175 (180)
T 2g6b_A          164 AFTAIAKELKRR  175 (180)
T ss_dssp             HHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHH
Confidence            999999988543

>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=2.5e-30  Score=195.82  Aligned_cols=162  Identities=34%  Similarity=0.605  Sum_probs=139.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..++|+|+|++|+|||||+++|.++.+...+.+++...+...+.+ ++..+.+.+||+||++++...+..+++.+|++++
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEE-TTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEEEEEEEE-CCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEE
Confidence            458999999999999999999999988777777777777777777 7778899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |||++++.++..+..|+..+..... .++|+++|+||+|+.+. .+..+.+..+.. ..+++++++||++|.|++++|++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~  160 (168)
T 1u8z_A           82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAD-QWNVNYVETSAKTRANVDKVFFD  160 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHH-HHTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHH-HcCCeEEEeCCCCCCCHHHHHHH
Confidence            9999999999999999988887543 47999999999999765 556666777766 45689999999999999999999


Q ss_pred             HHHHHH
Q psy549          206 LLAQAK  211 (253)
Q Consensus       206 l~~~~~  211 (253)
                      +.+.+.
T Consensus       161 l~~~i~  166 (168)
T 1u8z_A          161 LMREIR  166 (168)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999875

>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=99.97  E-value=2.6e-30  Score=199.47  Aligned_cols=169  Identities=22%  Similarity=0.288  Sum_probs=145.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|+++.+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|+
T Consensus         7 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   85 (186)
T 2bme_A            7 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQIWDTAGQERFRSVTRSYYRGAAG   85 (186)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEE-TTEEEEEEEEEECCSGGGHHHHHTTSTTCSE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEE-CCEEEEEEEEeCCCcHHHHHHHHHHHhcCCE
Confidence            34579999999999999999999999988666555555 556666777 7778899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|+|||++++.++..+..|+..+......++|+++|+||+|+... .+..+.+..++. ..+++++++||++|.|++++|
T Consensus        86 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~  164 (186)
T 2bme_A           86 ALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQ-ENELMFLETSALTGENVEEAF  164 (186)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHH-HcCCEEEEecCCCCCCHHHHH
Confidence            999999999999999999998888776678999999999999754 566666777776 567899999999999999999


Q ss_pred             HHHHHHHHHhccc
Q psy549          204 KELLAQAKVQYNL  216 (253)
Q Consensus       204 ~~l~~~~~~~~~~  216 (253)
                      +++++.+......
T Consensus       165 ~~l~~~~~~~~~~  177 (186)
T 2bme_A          165 VQCARKILNKIES  177 (186)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHhhh
Confidence            9999998776443

>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=99.97  E-value=1.3e-30  Score=198.20  Aligned_cols=163  Identities=25%  Similarity=0.386  Sum_probs=134.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...++|+|+|++|||||||+++|++..+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|++
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1z08_A            4 AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNI-GGKRVNLAIWDTAGQERFHALGPIYYRDSNGA   82 (170)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEES-SSCEEEEEEEECCCC-------CCSSTTCSEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEE-CCEEEEEEEEECCCcHhhhhhHHHHhccCCEE
Confidence            4579999999999999999999999888665555554 555567777 77889999999999999999988899999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ++|||++++.++..+..|+..+......++|+++|+||+|+... .+..+.++.++. ..+++++++||++|.|++++|+
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~  161 (170)
T 1z08_A           83 ILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAE-SVGAKHYHTSAKQNKGIEELFL  161 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEEEBTTTTBSHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHHHHHHHHH-HcCCeEEEecCCCCCCHHHHHH
Confidence            99999999999999999998887765567999999999999765 566677777777 5678999999999999999999


Q ss_pred             HHHHHHH
Q psy549          205 ELLAQAK  211 (253)
Q Consensus       205 ~l~~~~~  211 (253)
                      +|++.+.
T Consensus       162 ~l~~~~~  168 (170)
T 1z08_A          162 DLCKRMI  168 (170)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9998875

>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=99.97  E-value=3.3e-30  Score=197.61  Aligned_cols=161  Identities=25%  Similarity=0.341  Sum_probs=135.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...+||+|+|++|||||||+++|.++.+.. +.+|..+.+...+.+ ++..+.+++||++|+++     ..+++++|++|
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~i   77 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQYKKEMLV-DGQTHLVLIREEAGAPD-----AKFSGWADAVI   77 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEEEEEEEE-TTEEEEEEEEECSSSCC-----HHHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeEEEEEEE-CCEEEEEEEEECCCCch-----hHHHHhCCEEE
Confidence            357999999999999999999999998865 566766667777777 77889999999999987     45778899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc---CCCCCEEEEEecCCCCC---ccccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR---GLMVPIVVVGNKCELEF---KDVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      +|||++++.+|..+..|+..+....   ..++|+++|+||+|+..   ..+..+.++.++....+++++++||++|.|++
T Consensus        78 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  157 (178)
T 2iwr_A           78 FVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVD  157 (178)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHH
Confidence            9999999999999999876665543   25799999999999842   35677777777764557899999999999999


Q ss_pred             HHHHHHHHHHHHhc
Q psy549          201 QVFKELLAQAKVQY  214 (253)
Q Consensus       201 ~l~~~l~~~~~~~~  214 (253)
                      ++|+++++.+....
T Consensus       158 ~lf~~l~~~~~~~~  171 (178)
T 2iwr_A          158 RVFQEVAQKVVTLR  171 (178)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999887653

>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=99.97  E-value=1.4e-30  Score=197.88  Aligned_cols=164  Identities=24%  Similarity=0.434  Sum_probs=139.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..++|+|+|++|+|||||+++|+++.+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|+++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i   80 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQIWDTAGQERFRTITTAYYRGAMGII   80 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEES-SSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEeCCCChhhhhhHHHHhccCCEEE
Confidence            358999999999999999999999888655555544 555666777 777889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      +|||++++.++..+..|+..+......++|+++|+||+|+....+..+..+.++. ..+++++++||++|.|++++|++|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gv~~l~~~l  159 (170)
T 1g16_A           81 LVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVVTADQGEALAK-ELGIPFIESSAKNDDNVNEIFFTL  159 (170)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCCSCHHHHHHHHH-HHTCCEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCCcCccCHHHHHHHHH-HcCCeEEEEECCCCCCHHHHHHHH
Confidence            9999999999999999999888876678999999999999666677777777777 456799999999999999999999


Q ss_pred             HHHHHHh
Q psy549          207 LAQAKVQ  213 (253)
Q Consensus       207 ~~~~~~~  213 (253)
                      .+.+.+.
T Consensus       160 ~~~~~~~  166 (170)
T 1g16_A          160 AKLIQEK  166 (170)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHH
Confidence            9988654

>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=99.97  E-value=3.1e-30  Score=196.98  Aligned_cols=164  Identities=28%  Similarity=0.424  Sum_probs=128.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC--ChhhHHHhcccCCEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ--FPAMRELSISTADAF  125 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~--~~~~~~~~~~~~d~~  125 (253)
                      ..++|+|+|++|||||||+++|.+..+...+..+..+.....+.+ ++..+.+.+||+||++.  +..+...+++.+|++
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~   81 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDLHEQLGEDVYERTLTV-DGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAY   81 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-----CCCSSSSEEEEEEEE-TTEEEEEEEECCC-------CHHHHHTTTSCSEE
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCccccCccccceeEEEEEE-CCEEEEEEEEecCCCCccchhhhHHhhcccCCEE
Confidence            468999999999999999999999887544444434556667777 77888999999999988  667777889999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      ++|||++++.+|..+..|+..+.... ..++|+++|+||+|+.+. .+..+.++.++. ..+++++++||++|.|++++|
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~g~gi~~l~  160 (175)
T 2nzj_A           82 VIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAV-VFDCKFIETSATLQHNVAELF  160 (175)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHH-HHTSEEEECBTTTTBSHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHH-HcCCeEEEEecCCCCCHHHHH
Confidence            99999999999999999988877642 357999999999999764 566666777776 456899999999999999999


Q ss_pred             HHHHHHHHHh
Q psy549          204 KELLAQAKVQ  213 (253)
Q Consensus       204 ~~l~~~~~~~  213 (253)
                      ++|++.+...
T Consensus       161 ~~l~~~~~~~  170 (175)
T 2nzj_A          161 EGVVRQLRLR  170 (175)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999988654

>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=99.97  E-value=3.4e-30  Score=200.25  Aligned_cols=167  Identities=24%  Similarity=0.336  Sum_probs=143.4

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|++..+...+..+.. +.....+.+ ++..+.+.+||+||++++..++..+++.+|+
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~  100 (193)
T 2oil_A           22 YNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVML-GTAAVKAQIWDTAGLERYRAITSAYYRGAVG  100 (193)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEE-TTEEEEEEEEEESCCCTTCTTHHHHHTTCCE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEeCCCchhhhhhhHHHhccCCE
Confidence            45679999999999999999999999888666555544 455556666 6778899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|+|||++++.++..+..|+..+......++|+++|+||+|+... .+..+.+..++. ..+++++++||++|.|++++|
T Consensus       101 vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~  179 (193)
T 2oil_A          101 ALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAE-NNGLLFLETSALDSTNVELAF  179 (193)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEEECTTTCTTHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHH
Confidence            999999999999999999998887766677999999999999764 556677777776 567899999999999999999


Q ss_pred             HHHHHHHHHhc
Q psy549          204 KELLAQAKVQY  214 (253)
Q Consensus       204 ~~l~~~~~~~~  214 (253)
                      ++|++.+.+..
T Consensus       180 ~~l~~~i~~~~  190 (193)
T 2oil_A          180 ETVLKEIFAKV  190 (193)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999887653

>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=99.97  E-value=1.4e-30  Score=202.60  Aligned_cols=167  Identities=22%  Similarity=0.360  Sum_probs=143.5

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      ......+||+|+|++|||||||+++|.++.+...+.+|....+...+.+ ++..+.+.+||+||++++...+..+++++|
T Consensus        18 ~~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   96 (194)
T 3reg_A           18 ENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMKY-KNEEFILHLWDTAGQEEYDRLRPLSYADSD   96 (194)
T ss_dssp             ---CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGTTTGGGGCTTCS
T ss_pred             cccceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeEEEEEE-CCEEEEEEEEECCCcHHHHHHhHhhccCCc
Confidence            3456789999999999999999999999999888888888777777777 788899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCCEEEEEecCCCCC---ccccHHHHHHHHHhcCCCc-EEEeccCCCCC
Q psy549          124 AFVLVYAVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEF---KDVRREIAETIALYDWQCG-FVECSAKENYN  198 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~  198 (253)
                      ++++|||++++.+|..+ ..|+..+... ..++|+++|+||+|+..   ..+..+.+..++. ..+++ ++++||++|.|
T Consensus        97 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~Sa~~~~g  174 (194)
T 3reg_A           97 VVLLCFAVNNRTSFDNISTKWEPEIKHY-IDTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQ-KLGCVAYIEASSVAKIG  174 (194)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHH-CTTSEEEEEEECGGGCCTTTTCCCHHHHHHHHH-HHTCSCEEECBTTTTBS
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEEChhhccCCCCcccHHHHHHHHH-hcCCCEEEEeecCCCCC
Confidence            99999999999999997 6677766654 36799999999999975   3567777888887 44555 99999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy549          199 IVQVFKELLAQAKVQ  213 (253)
Q Consensus       199 i~~l~~~l~~~~~~~  213 (253)
                      ++++|++|++.+...
T Consensus       175 i~~l~~~l~~~i~~~  189 (194)
T 3reg_A          175 LNEVFEKSVDCIFSN  189 (194)
T ss_dssp             HHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999988654

>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=99.97  E-value=4e-31  Score=203.63  Aligned_cols=166  Identities=28%  Similarity=0.477  Sum_probs=115.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...++|+|+|++|||||||+++|.++.+...+.++.. ++....+.+ ++..+.+.+||+||++++...+..+++++|++
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (183)
T 2fu5_C            6 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL-DGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   84 (183)
T ss_dssp             SEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEE-TTEEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEE-CCEEEEEEEEcCCCChhhhhhHHHHHhcCCEE
Confidence            4579999999999999999999998887665555554 555667777 77788999999999999999888899999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |+|||++++.+|..+..|+..+......++|+++|+||+|+.+. .+..+.++.++. ..+++++++||++|.|++++|+
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~~i~~l~~  163 (183)
T 2fu5_C           85 MLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLAL-DYGIKFMETSAKANINVENAFF  163 (183)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHH-HHTCEEEECCC---CCHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999888876678999999999999765 566677777776 4568999999999999999999


Q ss_pred             HHHHHHHHhc
Q psy549          205 ELLAQAKVQY  214 (253)
Q Consensus       205 ~l~~~~~~~~  214 (253)
                      +|.+.+....
T Consensus       164 ~l~~~i~~~~  173 (183)
T 2fu5_C          164 TLARDIKAKM  173 (183)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999987653

>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=99.97  E-value=1.7e-30  Score=204.74  Aligned_cols=167  Identities=25%  Similarity=0.380  Sum_probs=134.8

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC-ChhhHHHhccc
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ-FPAMRELSIST  121 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~-~~~~~~~~~~~  121 (253)
                      .....+||+|+|++|||||||+++|.+..  +...+..+..+.+...+.+ ++..+.+.+|||+|.+. +..+...+++.
T Consensus        33 ~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~~~~g~d~~~~~i~~-~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~  111 (211)
T 2g3y_A           33 SGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMV-DGESATIILLDMWENKGENEWLHDHCMQV  111 (211)
T ss_dssp             --CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEE-TTEEEEEEEECCTTTTHHHHHHHHCCCCC
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcCCccceeeEEEEEEE-CCeeeEEEEeecCCCcchhhhHHHHHHhh
Confidence            34567999999999999999999999643  4555555555667777777 88888999999999887 55566667889


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          122 ADAFVLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       122 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      +|++|+|||+++..+|+.+..|+..+... ...++|+++|+||+|+... .+..+.++.++. ..++++++|||++|.||
T Consensus       112 a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~-~~~~~~~e~SAk~g~~v  190 (211)
T 2g3y_A          112 GDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAV-VFDCKFIETSAAVQHNV  190 (211)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCEEEECBTTTTBSH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHH-HcCCEEEEEeCCCCCCH
Confidence            99999999999999999999998877653 2357999999999999754 566666677766 55689999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy549          200 VQVFKELLAQAKVQ  213 (253)
Q Consensus       200 ~~l~~~l~~~~~~~  213 (253)
                      +++|++|++.+...
T Consensus       191 ~elf~~l~~~i~~~  204 (211)
T 2g3y_A          191 KELFEGIVRQVRLR  204 (211)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999988654

>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=99.97  E-value=3.4e-30  Score=194.87  Aligned_cols=163  Identities=36%  Similarity=0.654  Sum_probs=142.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..++|+|+|++|+|||||+++|.++.+...+.+++.+.+...+.+ ++..+.+.+||+||++++..++..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~   80 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEV-DSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEE-TTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeEEEEEEE-CCEEEEEEEEECCCchhhHHHHHHHhccCCEEEE
Confidence            358999999999999999999999988777777777777777777 7778889999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |||++++.++..+..|+..+.... ..++|+++|+||+|+... ++..+....++. ..+++++++||++|.|++++|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~  159 (167)
T 1kao_A           81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAE-EWGCPFMETSAKSKTMVDELFAE  159 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-HHTSCEEEECTTCHHHHHHHHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHH-HhCCCEEEecCCCCcCHHHHHHH
Confidence            999999999999999988887753 357999999999998654 566667777776 45779999999999999999999


Q ss_pred             HHHHHHH
Q psy549          206 LLAQAKV  212 (253)
Q Consensus       206 l~~~~~~  212 (253)
                      |.+.+.+
T Consensus       160 l~~~~~~  166 (167)
T 1kao_A          160 IVRQMNY  166 (167)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhh
Confidence            9988743

>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=99.97  E-value=2.7e-30  Score=201.49  Aligned_cols=167  Identities=23%  Similarity=0.322  Sum_probs=136.9

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCC-CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh-hHHHhcccC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA-MRELSISTA  122 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~-~~~~~~~~~  122 (253)
                      +....++|+|+|++|||||||+++|.+.... ...+.++.+.+...+.+ ++..+.+.+||++|++.+.. ++..+++.+
T Consensus        19 ~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~   97 (195)
T 3cbq_A           19 QKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMV-DKEEVTLVVYDIWEQGDAGGWLRDHCLQTG   97 (195)
T ss_dssp             ---CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEE-TTEEEEEEEECCCCCSGGGHHHHHHHHHHC
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEE-CCEEEEEEEEecCCCccchhhhHHHhhccC
Confidence            3456799999999999999999999864432 22233444666777777 88889999999999998765 777789999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      |++|+|||++++.+|..+..|+..+..... .++|+++|+||+|+... .+..+.++.++. ..+++++++||+++.|++
T Consensus        98 d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~-~~~~~~~e~Sa~~~~~v~  176 (195)
T 3cbq_A           98 DAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAG-TLSCKHIETSAALHHNTR  176 (195)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHH-HTTCEEEEEBTTTTBSHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHH-HhCCEEEEEcCCCCCCHH
Confidence            999999999999999999999988877543 47999999999999764 566777778877 456899999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy549          201 QVFKELLAQAKVQ  213 (253)
Q Consensus       201 ~l~~~l~~~~~~~  213 (253)
                      ++|+++++.+...
T Consensus       177 ~lf~~l~~~i~~~  189 (195)
T 3cbq_A          177 ELFEGAVRQIRLR  189 (195)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988543

>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=99.97  E-value=3.6e-30  Score=197.71  Aligned_cols=165  Identities=22%  Similarity=0.364  Sum_probs=141.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|+|||||+++|+++.+...+..+.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|+
T Consensus         9 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   87 (181)
T 2efe_B            9 KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAV-NDATVKFEIWDTAGQERYHSLAPMYYRGAAA   87 (181)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEE-TTEEEEEEEEECCCSGGGGGGTHHHHTTCSE
T ss_pred             CccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEE-CCEEEEEEEEeCCCChhhhhhhHHHhccCCE
Confidence            45679999999999999999999999988666555544 455566666 6778899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|+|||++++.+|..+..|+..+.....+++|+++|+||+|+.+. .+..+.++.++. ..+++++++||++|.|++++|
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~g~gi~~l~  166 (181)
T 2efe_B           88 AIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQ-ENGLFFMETSAKTATNVKEIF  166 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHH-HTTCEEEECCSSSCTTHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHH-HcCCEEEEEECCCCCCHHHHH
Confidence            999999999999999999999888876678999999999999754 556677777776 567899999999999999999


Q ss_pred             HHHHHHHHH
Q psy549          204 KELLAQAKV  212 (253)
Q Consensus       204 ~~l~~~~~~  212 (253)
                      ++|++.+..
T Consensus       167 ~~l~~~~~~  175 (181)
T 2efe_B          167 YEIARRLPR  175 (181)
T ss_dssp             HHHHHTCC-
T ss_pred             HHHHHHHHh
Confidence            999887643

>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=99.97  E-value=6.7e-30  Score=198.01  Aligned_cols=165  Identities=32%  Similarity=0.546  Sum_probs=134.3

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|||||||+++|+++.+...+..++...+...+.+ ++..+.+.+||+||++++...+..+++.+|+++
T Consensus        19 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   97 (190)
T 3con_A           19 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   97 (190)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEE-TTEEEEEEEEECCC-----------CTTCSEEE
T ss_pred             cceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEEEEEEEE-CCEEEEEEEEECCChHHHHHHHHHhhCcCCEEE
Confidence            4569999999999999999999999988777777777777777777 777889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||+++..++..+..|+..+..... .++|+++|+||+|+.......+.++.++. ..+++++++||+++.|++++|++
T Consensus        98 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~  176 (190)
T 3con_A           98 CVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPTRTVDTKQAHELAK-SYGIPFIETSAKTRQGVEDAFYT  176 (190)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCCSCHHHHHHHHH-HHTCCEEECCTTTCTTHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCcccCCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999888777543 46999999999999876666777777777 45679999999999999999999


Q ss_pred             HHHHHHHh
Q psy549          206 LLAQAKVQ  213 (253)
Q Consensus       206 l~~~~~~~  213 (253)
                      |.+.+...
T Consensus       177 l~~~~~~~  184 (190)
T 3con_A          177 LVREIRQY  184 (190)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988654

>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=99.97  E-value=3.2e-30  Score=195.72  Aligned_cols=162  Identities=23%  Similarity=0.362  Sum_probs=139.3

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...++|+|+|++|+|||||+++|+++.+...+..+.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|++
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1r2q_A            4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWDTAGQERYHSLAPMYYRGAQAA   82 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEE-TTEEEEEEEEEECCSGGGGGGHHHHHTTCSEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEE-CCEEEEEEEEeCCCcHHhhhhhHHhccCCCEE
Confidence            3568999999999999999999999887665555544 444556666 67788999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ++|||++++.++..+..|+..+.....+++|+++|+||+|+... .+..+.+..++. ..+++++++||++|.|++++|+
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~g~gi~~l~~  161 (170)
T 1r2q_A           83 IVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYAD-DNSLLFMETSAKTSMNVNEIFM  161 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999888876678999999999998764 555666777776 5678999999999999999999


Q ss_pred             HHHHHH
Q psy549          205 ELLAQA  210 (253)
Q Consensus       205 ~l~~~~  210 (253)
                      +|++.+
T Consensus       162 ~i~~~~  167 (170)
T 1r2q_A          162 AIAKKL  167 (170)
T ss_dssp             HHHHTS
T ss_pred             HHHHHH
Confidence            998765

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.97  E-value=8.5e-31  Score=205.11  Aligned_cols=166  Identities=28%  Similarity=0.448  Sum_probs=140.3

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....+||+|+|++|||||||+++|+++.+...+.+|....+...+.+ ++..+.+.+||+||++++..++..+++.+|++
T Consensus        21 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   99 (201)
T 3oes_A           21 LVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYSKIVTL-GKDEFHLHLVDTAGQDEYSILPYSFIIGVHGY   99 (201)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEEEEEEC-----CEEEEEEEECCCCTTCCCCGGGTTTCCEE
T ss_pred             CCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEEEEEEEE-CCEEEEEEEEECCCccchHHHHHHHHhcCCEE
Confidence            35689999999999999999999999998888878887766666666 67778999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      ++|||++++.+|..+..|+..+.... ..++|+++|+||+|+... .+....+..++. ..+++++++||++|.|++++|
T Consensus       100 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~l~  178 (201)
T 3oes_A          100 VLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAE-SWGATFMESSARENQLTQGIF  178 (201)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCEEEECCTTCHHHHHHHH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHH-HhCCeEEEEeCCCCCCHHHHH
Confidence            99999999999999999998887642 356899999999998765 666777778877 567899999999999999999


Q ss_pred             HHHHHHHHHh
Q psy549          204 KELLAQAKVQ  213 (253)
Q Consensus       204 ~~l~~~~~~~  213 (253)
                      ++|++.+...
T Consensus       179 ~~l~~~i~~~  188 (201)
T 3oes_A          179 TKVIQEIARV  188 (201)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhh
Confidence            9999998665

>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=99.97  E-value=2.2e-31  Score=206.78  Aligned_cols=168  Identities=24%  Similarity=0.389  Sum_probs=145.0

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....+||+|+|++|||||||+++|+++.+...+..+.. +.....+.+ ++..+.+.|||+||++.+..++..+++.+|+
T Consensus        20 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   98 (191)
T 3dz8_A           20 FDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYR-HEKRVKLQIWDTAGQERYRTITTAYYRGAMG   98 (191)
T ss_dssp             EEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEE-TTTTEEEEEECHHHHHHCHHHHHHHHTTCCE
T ss_pred             cCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEE-CCEEEEEEEEeCCChHHHHHHHHHHHccCCE
Confidence            45679999999999999999999999887666655554 555566666 6677899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|+|||++++.+|+.+..|+..+......++|+++|+||+|+... .+..+.++.++. ..+++++++||++|.|++++|
T Consensus        99 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~  177 (191)
T 3dz8_A           99 FILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAE-QLGFDFFEASAKENISVRQAF  177 (191)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHH-HcCCeEEEEECCCCCCHHHHH
Confidence            999999999999999999999988877678999999999999765 566777777877 567899999999999999999


Q ss_pred             HHHHHHHHHhcc
Q psy549          204 KELLAQAKVQYN  215 (253)
Q Consensus       204 ~~l~~~~~~~~~  215 (253)
                      ++|++.+.+...
T Consensus       178 ~~l~~~i~~~~~  189 (191)
T 3dz8_A          178 ERLVDAICDKMS  189 (191)
T ss_dssp             HHHHHHHHHHC-
T ss_pred             HHHHHHHHHhcc
Confidence            999999876643

>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=99.97  E-value=4.6e-30  Score=194.43  Aligned_cols=162  Identities=25%  Similarity=0.359  Sum_probs=118.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+|+|++|||||||+++|.+...... ..+....+...+.+ ++..+.+.+||++|++++..++..+++.+|++++|
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPE-AEAAGHTYDRSIVV-DGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   79 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEEEEEEEE-TTEEEEEEEEECC---------------CCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCC-CCccccceEEEEEE-CCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEE
Confidence            58999999999999999999997665322 23333444556666 78889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      ||++++.+|..+..|+..+... ...++|+++|+||+|+.+. .+..+.++.++. ..+++++++||++|.|++++|++|
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~l  158 (166)
T 3q72_A           80 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAV-VFDCKFIETSAALHHNVQALFEGV  158 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHH-HTTCEEEECBGGGTBSHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHH-HhCCcEEEeccCCCCCHHHHHHHH
Confidence            9999999999999999888764 3467999999999999765 677777788877 667899999999999999999999


Q ss_pred             HHHHHHh
Q psy549          207 LAQAKVQ  213 (253)
Q Consensus       207 ~~~~~~~  213 (253)
                      ++.+..+
T Consensus       159 ~~~~~~~  165 (166)
T 3q72_A          159 VRQIRLR  165 (166)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            9988654

>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=99.97  E-value=6.2e-30  Score=196.35  Aligned_cols=168  Identities=27%  Similarity=0.422  Sum_probs=131.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|+++.+...+.++.. +.....+.+.++..+.+.+||+||++++...+..+++.+|+
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   84 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADC   84 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCE
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCE
Confidence            34679999999999999999999999887666655553 66666777743667899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcC----CCCCEEEEEecCCCCCc--cccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRG----LMVPIVVVGNKCELEFK--DVRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~----~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                      +|+|||++++.++..+..|+..+.....    .++|+++|+||+|+...  .+..+.+..++......+++++||++|.|
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~g  164 (182)
T 1ky3_A           85 CVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAIN  164 (182)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBS
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCCC
Confidence            9999999999999999999988877543    67899999999999644  45677777777656778999999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy549          199 IVQVFKELLAQAKVQ  213 (253)
Q Consensus       199 i~~l~~~l~~~~~~~  213 (253)
                      ++++|++|++.+.+.
T Consensus       165 i~~l~~~l~~~~~~~  179 (182)
T 1ky3_A          165 VDTAFEEIARSALQQ  179 (182)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999988765

>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=99.97  E-value=5.1e-30  Score=200.36  Aligned_cols=164  Identities=27%  Similarity=0.424  Sum_probs=132.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|+++.+...+..+.. +.....+.+ ++..+.+.|||+||++++...+..+++.+|+
T Consensus        25 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~  103 (199)
T 2p5s_A           25 SQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIV-DGERTVLQLWDTAGQERFRSIAKSYFRKADG  103 (199)
T ss_dssp             ---CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEE-TTEEEEEEEEECTTCTTCHHHHHHHHHHCSE
T ss_pred             cCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEE-CCEEEEEEEEECCCCcchhhhHHHHHhhCCE
Confidence            45679999999999999999999999988665555554 455566777 7778899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC-------ccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-------KDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      +|+|||++++.++..+..|+..+......++|+++|+||+|+..       ..+..+.++.++. ..+++++++||++|.
T Consensus       104 iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~-~~~~~~~~~SA~~g~  182 (199)
T 2p5s_A          104 VLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAM-TYGALFCETSAKDGS  182 (199)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHH-HHTCEEEECCTTTCT
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHH-HcCCeEEEeeCCCCC
Confidence            99999999999999999999888776656799999999999862       2566777777777 457899999999999


Q ss_pred             CHHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQAK  211 (253)
Q Consensus       198 ~i~~l~~~l~~~~~  211 (253)
                      |++++|.+|++.+.
T Consensus       183 gv~el~~~l~~~i~  196 (199)
T 2p5s_A          183 NIVEAVLHLAREVK  196 (199)
T ss_dssp             THHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999998874

>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=99.97  E-value=2.4e-30  Score=203.35  Aligned_cols=165  Identities=25%  Similarity=0.386  Sum_probs=140.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....+||+|+|++|||||||+++|.++.+...+.+|....+...+.+ ++..+.+.|||++|+++|..++..+++.+|++
T Consensus        25 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  103 (205)
T 1gwn_A           25 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI-DTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV  103 (205)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEES-SSSEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEE-CCEEEEEEEEeCCCcHhhhHHHHhhccCCCEE
Confidence            45679999999999999999999999998777777777666667777 77889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHH-HHHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEe
Q psy549          126 VLVYAVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVEC  191 (253)
Q Consensus       126 i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~  191 (253)
                      |+|||++++.+|..+ ..|+..+.... .++|+++|+||+|+...             .+..+.++.++......++++|
T Consensus       104 ilv~D~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~  182 (205)
T 1gwn_A          104 LICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIEC  182 (205)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEEe
Confidence            999999999999998 67888776653 57999999999999742             4566777788774445789999


Q ss_pred             ccC-CCCCHHHHHHHHHHHHHH
Q psy549          192 SAK-ENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       192 Sa~-~~~~i~~l~~~l~~~~~~  212 (253)
                      ||+ ++.|++++|+++++.+.+
T Consensus       183 SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          183 SALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             CTTTCHHHHHHHHHHHHHHHHH
T ss_pred             eeccCCcCHHHHHHHHHHHHhh
Confidence            999 689999999999998764

>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=99.97  E-value=8.6e-30  Score=199.50  Aligned_cols=167  Identities=25%  Similarity=0.401  Sum_probs=143.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...++|+|+|++|||||||+++|++..+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|++
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   84 (203)
T 1zbd_A            6 DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYR-NDKRIKLQIWDTAGLERYRTITTAYYRGAMGF   84 (203)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGHHHHHTTGGGCSEE
T ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEE-CCeEEEEEEEECCCchhhcchHHHhhcCCCEE
Confidence            4568999999999999999999999988665555554 444556666 77788999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |+|||++++.+|..+..|+..+......++|+++|+||+|+... .+..+.++.++. ..+++++++||++|.|++++|+
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~  163 (203)
T 1zbd_A           85 ILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLAD-HLGFEFFEASAKDNINVKQTFE  163 (203)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHHHHHHHHH-HHTCEEEECBTTTTBSSHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHHHHHHHHH-HCCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999999888776667999999999999765 566677777777 4567999999999999999999


Q ss_pred             HHHHHHHHhcc
Q psy549          205 ELLAQAKVQYN  215 (253)
Q Consensus       205 ~l~~~~~~~~~  215 (253)
                      +|.+.+.....
T Consensus       164 ~l~~~i~~~~~  174 (203)
T 1zbd_A          164 RLVDVICEKMS  174 (203)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998876543

>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=99.97  E-value=2.6e-30  Score=196.19  Aligned_cols=161  Identities=25%  Similarity=0.358  Sum_probs=139.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      +.++|+|+|++|||||||+++|+++.+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|+++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i   80 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTI-NEHTVKFEIWDTAGQERFASLAPXYYRNAQAAL   80 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEE-TTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEECCCChhhhhhhhhhhccCcEEE
Confidence            358999999999999999999999988665555554 455566677 777889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc----cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK----DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|||++++.++..+..|+..+......++|+++|+||+|+...    .+..+..+.++. ..+++++++||++|.|++++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l  159 (170)
T 1ek0_A           81 VVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAE-EKGLLFFETSAKTGENVNDV  159 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHH-HHTCEEEECCTTTCTTHHHH
T ss_pred             EEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHH
Confidence            9999999999999999999888876678999999999998653    566677777776 56789999999999999999


Q ss_pred             HHHHHHHH
Q psy549          203 FKELLAQA  210 (253)
Q Consensus       203 ~~~l~~~~  210 (253)
                      |++|.+.+
T Consensus       160 ~~~l~~~i  167 (170)
T 1ek0_A          160 FLGIGEKI  167 (170)
T ss_dssp             HHHHHTTS
T ss_pred             HHHHHHHH
Confidence            99998765

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.97  E-value=3.4e-30  Score=197.35  Aligned_cols=166  Identities=23%  Similarity=0.327  Sum_probs=139.4

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|.++.+...+.+|.. +.....+.+.++..+.+++||+||++++...+..+++++|+
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   82 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQG   82 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCE
Confidence            34679999999999999999999999888665555654 67777788744467899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcC--CCCC-EEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRG--LMVP-IVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p-iilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      +++|||++++.++..+..|+..+.....  ...| +++|+||+|+.+. .+..+.++.++. ..+++++++||++|.|++
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~  161 (178)
T 2hxs_A           83 VLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQ-ENGFSSHFVSAKTGDSVF  161 (178)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHH-HHTCEEEEECTTTCTTHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHH-HcCCcEEEEeCCCCCCHH
Confidence            9999999999999999899888776321  2345 8999999999764 566677777776 456899999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy549          201 QVFKELLAQAKV  212 (253)
Q Consensus       201 ~l~~~l~~~~~~  212 (253)
                      ++|++|++.+..
T Consensus       162 ~l~~~l~~~~~~  173 (178)
T 2hxs_A          162 LCFQKVAAEILG  173 (178)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998844

>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=99.97  E-value=1e-29  Score=198.07  Aligned_cols=165  Identities=32%  Similarity=0.540  Sum_probs=143.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|||||||+++|+++.+...+.+|....+...+.+ ++..+.+.+||+||+++ ...+..+++.+|+++
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~ii  103 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATI-DDEVVSMEILDTAGQED-TIQREGHMRWGEGFV  103 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEE-TTEEEEEEEEECCCCCC-CHHHHHHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceEEEEEEE-CCEEEEEEEEECCCCCc-ccchhhhhccCCEEE
Confidence            4679999999999999999999999998777777777666666777 77788999999999998 778888999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCC-CHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENY-NIVQVF  203 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~i~~l~  203 (253)
                      +|||++++.+|..+..|+..+.... ..++|+++|+||+|+... .+..+.+..++. ..+++++++||++|. |++++|
T Consensus       104 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~g~~gi~~l~  182 (196)
T 2atv_A          104 LVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLAT-ELACAFYECSACTGEGNITEIF  182 (196)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-HHTSEEEECCTTTCTTCHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHH-HhCCeEEEECCCcCCcCHHHHH
Confidence            9999999999999999988887743 367999999999999764 566777777776 457899999999999 999999


Q ss_pred             HHHHHHHHHhc
Q psy549          204 KELLAQAKVQY  214 (253)
Q Consensus       204 ~~l~~~~~~~~  214 (253)
                      ++|++.+.+..
T Consensus       183 ~~l~~~i~~~~  193 (196)
T 2atv_A          183 YELCREVRRRR  193 (196)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHhhc
Confidence            99999987653

>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=99.97  E-value=5e-30  Score=202.15  Aligned_cols=168  Identities=23%  Similarity=0.422  Sum_probs=142.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|++..+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|+
T Consensus        17 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   95 (213)
T 3cph_A           17 YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQLWDTAGQERFRTITTAYYRGAMG   95 (213)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEE-TTEEEEEEEECCTTGGGGTCCCHHHHTTCSE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEE-CCEEEEEEEEeCCCcHHHHHHHHHHhccCCE
Confidence            45679999999999999999999999887655555544 555666777 7777899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      +|+|||++++.++..+..|+..+......++|+++|+||+|+....+..+....++. ..+++++++||+++.|++++|+
T Consensus        96 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~  174 (213)
T 3cph_A           96 IILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVVTADQGEALAK-ELGIPFIESSAKNDDNVNEIFF  174 (213)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCSSCCSCHHHHHHHHH-HHTCCEEECBTTTTBSSHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccccCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999999999998888876667999999999999666677777777776 4567999999999999999999


Q ss_pred             HHHHHHHHhcc
Q psy549          205 ELLAQAKVQYN  215 (253)
Q Consensus       205 ~l~~~~~~~~~  215 (253)
                      +|.+.+.+...
T Consensus       175 ~l~~~~~~~~~  185 (213)
T 3cph_A          175 TLAKLIQEKID  185 (213)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999877643

>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=99.97  E-value=7.1e-30  Score=193.94  Aligned_cols=163  Identities=23%  Similarity=0.317  Sum_probs=128.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCC-ccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh-hHHHhcccCCEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISR-YKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA-MRELSISTADAFV  126 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~-~~~~~~~~~d~~i  126 (253)
                      .+||+|+|++|||||||+++|.+..+... ...++.+.....+.+ ++..+.+.+||++|++++.. ++..+++.+|+++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i   80 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMV-DKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFL   80 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEE-TTEEEEEEEECCCCC--------CHHHHHCSEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEE-CCeEEEEEEEECCCccccchhhhhhhhccCCEEE
Confidence            47999999999999999999997665332 233345677777777 88889999999999998876 6666788999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      +|||++++.+|..+..|+..+..... .++|+++|+||+|+.+. .+..+.+..++. ..+++++++||++|.|++++|+
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~l~~  159 (169)
T 3q85_A           81 IVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAG-TLSCKHIETSAALHHNTRELFE  159 (169)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHH-HcCCcEEEecCccCCCHHHHHH
Confidence            99999999999999999998887553 47999999999999754 677778888887 6678999999999999999999


Q ss_pred             HHHHHHHHh
Q psy549          205 ELLAQAKVQ  213 (253)
Q Consensus       205 ~l~~~~~~~  213 (253)
                      ++++.+..+
T Consensus       160 ~l~~~i~~~  168 (169)
T 3q85_A          160 GAVRQIRLR  168 (169)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHhc
Confidence            999988654

>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=99.97  E-value=9e-30  Score=193.35  Aligned_cols=162  Identities=25%  Similarity=0.367  Sum_probs=140.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...++|+|+|++|+|||||+++|.++.+...+.++.. +.....+.+ ++..+.+.+||+||.+++...+..+++.+|++
T Consensus         4 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~   82 (170)
T 1z0j_A            4 LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQY-QNELHKFLIWDTAGLERFRALAPMYYRGSAAA   82 (170)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEE-CCeEEEEEEEcCCCchhhhcccHhhCcCCCEE
Confidence            3568999999999999999999999987666555555 444556666 67778999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ++|||++++.++..+..|+..+.....+.+|+++|+||+|+... ++..+....++. ..+.+++++||+++.|++++|+
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~~i~~l~~  161 (170)
T 1z0j_A           83 IIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYAD-SIHAIFVETSAKNAININELFI  161 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHHHHHHHHH-HcCCEEEEEeCCCCcCHHHHHH
Confidence            99999999999999999999888876778999999999999764 566777777777 5678999999999999999999


Q ss_pred             HHHHHH
Q psy549          205 ELLAQA  210 (253)
Q Consensus       205 ~l~~~~  210 (253)
                      +|.+.+
T Consensus       162 ~i~~~i  167 (170)
T 1z0j_A          162 EISRRI  167 (170)
T ss_dssp             HHHHHC
T ss_pred             HHHHHH
Confidence            998875

>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=99.97  E-value=2.3e-30  Score=202.57  Aligned_cols=168  Identities=21%  Similarity=0.295  Sum_probs=136.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|+++.+...+..+.. +.....+.+ ++..+.+.|||+||++++...+..+++.+|+
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~  100 (200)
T 2o52_A           22 SDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNV-GGKTVKLQIWDTAGQERFRSVTRSYYRGAAG  100 (200)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEE-TTEEEEEEEECCTTHHHHSCCCHHHHTTCSE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEE-CCeeeEEEEEcCCCcHhHHHHHHHHhccCCE
Confidence            35679999999999999999999999887655555544 555666677 7777899999999999888888899999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|+|||++++.++..+..|+..+......++|+++|+||+|+... .+....+..++. ..++++++|||++|.|++++|
T Consensus       101 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~SA~~g~gi~~l~  179 (200)
T 2o52_A          101 ALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQ-ENELMFLETSALTGENVEEAF  179 (200)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEEECTTTCTTHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHH
Confidence            999999999999999999999888776678999999999999754 566666777776 567899999999999999999


Q ss_pred             HHHHHHHHHhcc
Q psy549          204 KELLAQAKVQYN  215 (253)
Q Consensus       204 ~~l~~~~~~~~~  215 (253)
                      ++|++.+.....
T Consensus       180 ~~l~~~i~~~~~  191 (200)
T 2o52_A          180 LKCARTILNKID  191 (200)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999876543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.97  E-value=3.5e-30  Score=197.61  Aligned_cols=166  Identities=25%  Similarity=0.326  Sum_probs=140.4

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|||||||+++|+++.+...+.++.. +.....+.+ ++..+.+.+||+||++.+...+..+++.+|+
T Consensus         6 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   84 (181)
T 3tw8_B            6 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI-NGEKVKLQIWDTAGQERFRTITSTYYRGTHG   84 (181)
T ss_dssp             CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEE-TTEEEEEEEEEETTGGGCSSCCGGGGTTCSE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEE-CCEEEEEEEEcCCCchhhhhhHHHHhccCCE
Confidence            34679999999999999999999999887655544444 666677777 7778899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +++|||++++.++..+..|+..+.... .++|+++|+||+|+... .+..+....++. ..+++++++||++|.|++++|
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~  162 (181)
T 3tw8_B           85 VIVVYDVTSAESFVNVKRWLHEINQNC-DDVCRILVGNKNDDPERKVVETEDAYKFAG-QMGIQLFETSAKENVNVEEMF  162 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHC-TTSEEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCCEEECBTTTTBSHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCCCchhcccCHHHHHHHHH-HcCCeEEEEECCCCCCHHHHH
Confidence            999999999999999999998887754 57999999999998765 456667777777 556899999999999999999


Q ss_pred             HHHHHHHHHhc
Q psy549          204 KELLAQAKVQY  214 (253)
Q Consensus       204 ~~l~~~~~~~~  214 (253)
                      ++|.+.+....
T Consensus       163 ~~l~~~~~~~~  173 (181)
T 3tw8_B          163 NCITELVLRAK  173 (181)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999887653

>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=99.97  E-value=2.6e-29  Score=189.72  Aligned_cols=161  Identities=30%  Similarity=0.542  Sum_probs=141.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .++|+++|++|+|||||+++|.++.+...+.++....+...+.+ ++..+.+.+||+||++++...+..+++.+|++++|
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEE-TTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEEEEEEEE-CCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEE
Confidence            58999999999999999999999988777777777766777777 77788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||+++..++..+..|+..+..... .++|+++|+||+|+.......+..+.++. ..+++++++|++++.|++++|++|.
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~l~  160 (166)
T 2ce2_X           82 FAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAARTVESRQAQDLAR-SYGIPYIETSAKTRQGVEDAFYTLV  160 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCCSCHHHHHHHHH-HHTCCEEEECTTTCTTHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhhcccCHHHHHHHHH-HcCCeEEEecCCCCCCHHHHHHHHH
Confidence            999999999999999888777543 47999999999999876667777777776 4567999999999999999999999


Q ss_pred             HHHH
Q psy549          208 AQAK  211 (253)
Q Consensus       208 ~~~~  211 (253)
                      +.+.
T Consensus       161 ~~~~  164 (166)
T 2ce2_X          161 REIR  164 (166)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8874

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.97  E-value=3.6e-30  Score=202.14  Aligned_cols=164  Identities=23%  Similarity=0.389  Sum_probs=139.3

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      .....+||+|+|++|||||||+++|+++.+...+.+++.+.+...+.+ ++..+.+.+||+||++++...+..+++.+|+
T Consensus        26 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~  104 (204)
T 4gzl_A           26 FQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDRLRPLSYPQTDV  104 (204)
T ss_dssp             ----CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEEEEEEEEEC-C-CEEEEEEEEECCSGGGTTTGGGGCTTCSE
T ss_pred             hcCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeecceeEEEEEE-CCEEEEEEEEECCCchhhHHHHHHHhccCCE
Confidence            345679999999999999999999999999888888888888888888 8888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCcc-------------ccHHHHHHHHHhcCCCcEEE
Q psy549          125 FVLVYAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFKD-------------VRREIAETIALYDWQCGFVE  190 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~~-------------~~~~~~~~~~~~~~~~~~~~  190 (253)
                      +++|||++++.+|..+. .|+..+.... .++|+++|+||+|+....             +..+.+..++......++++
T Consensus       105 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  183 (204)
T 4gzl_A          105 FLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLE  183 (204)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEE
Confidence            99999999999999986 6877777654 679999999999987652             55667777777555567999


Q ss_pred             eccCCCCCHHHHHHHHHHHH
Q psy549          191 CSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      +||++|.|++++|++|.+.+
T Consensus       184 ~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          184 CSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             CCTTTCTTHHHHHHHHHHTT
T ss_pred             eeCCCCCCHHHHHHHHHHHh
Confidence            99999999999999998754

>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=99.97  E-value=1.7e-29  Score=195.86  Aligned_cols=167  Identities=23%  Similarity=0.331  Sum_probs=140.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eee-eeeEEcCCCc---------EEEEEEEeCCCCCCChhh
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELH-RGEYELPDGA---------QLTLDILDTSGAYQFPAM  114 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~-~~~~~~~~~~---------~~~~~l~D~~g~~~~~~~  114 (253)
                      ....++|+|+|++|||||||+++|+++.+...+.+|.. +.. ...+.+ ++.         .+.+.+||+||++++...
T Consensus         8 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   86 (195)
T 3bc1_A            8 YDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYR-ANGPDGAVGRGQRIHLQLWDTAGLERFRSL   86 (195)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEEC-TTSCCCSSCCCEEEEEEEEEECCSGGGHHH
T ss_pred             cceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEe-cCCcccccccCcEEEEEEEeCCCcHHHHHH
Confidence            45679999999999999999999999888666655555 333 345555 544         789999999999999999


Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEec
Q psy549          115 RELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECS  192 (253)
Q Consensus       115 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~S  192 (253)
                      +..+++.+|++|+|||++++.++..+..|+..+..... .++|+++|+||+|+... .+..+.++.++. ..+++++++|
T Consensus        87 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~S  165 (195)
T 3bc1_A           87 TTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAE-KYGIPYFETS  165 (195)
T ss_dssp             HHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCCEEECC
T ss_pred             HHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHH-HcCCCEEEEE
Confidence            99999999999999999999999999999988877654 67999999999999764 566677777776 4567999999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhc
Q psy549          193 AKENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       193 a~~~~~i~~l~~~l~~~~~~~~  214 (253)
                      |+++.|++++|++|.+.+.+..
T Consensus       166 a~~~~~v~~l~~~l~~~~~~~~  187 (195)
T 3bc1_A          166 AANGTNISHAIEMLLDLIMKRM  187 (195)
T ss_dssp             TTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999987654

>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=99.97  E-value=7.7e-30  Score=198.27  Aligned_cols=164  Identities=24%  Similarity=0.330  Sum_probs=141.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....++|+|+|++|+|||||+++|+++.+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|+
T Consensus        20 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   98 (192)
T 2fg5_A           20 AIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPC-GNELHKFLIWDTAGQERFHSLAPMYYRGSAA   98 (192)
T ss_dssp             -CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEEC-SSSEEEEEEEEECCSGGGGGGTHHHHTTCSE
T ss_pred             cCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEe-CCEEEEEEEEcCCCchhhHhhhHHhhccCCE
Confidence            45689999999999999999999999987655555555 444556666 6778899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|+|||++++.++..+..|+..+......++|+++|+||+|+... .+..+.++.++. ..+++++++||+++.|++++|
T Consensus        99 iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~  177 (192)
T 2fg5_A           99 AVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAE-SIGAIVVETSAKNAINIEELF  177 (192)
T ss_dssp             EEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-TTTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHH-HcCCEEEEEeCCCCcCHHHHH
Confidence            999999999999999999999888876678999999999999763 566677777877 567899999999999999999


Q ss_pred             HHHHHHHH
Q psy549          204 KELLAQAK  211 (253)
Q Consensus       204 ~~l~~~~~  211 (253)
                      ++|.+.+.
T Consensus       178 ~~l~~~i~  185 (192)
T 2fg5_A          178 QGISRQIP  185 (192)
T ss_dssp             HHHHHTCC
T ss_pred             HHHHHHHH
Confidence            99988763

>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=99.97  E-value=8.3e-30  Score=197.48  Aligned_cols=164  Identities=24%  Similarity=0.431  Sum_probs=137.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCCh-hhHHHhcccCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFP-AMRELSISTAD  123 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-~~~~~~~~~~d  123 (253)
                      ....++|+|+|++|||||||+++|+++.+...+..+.. +.....+.+ ++..+.+.+||+||++++. .++..+++.+|
T Consensus        17 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d   95 (189)
T 1z06_A           17 RSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI-DGERIKIQLWDTAGQERFRKSMVQHYYRNVH   95 (189)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEE-TTEEEEEEEEECCCSHHHHTTTHHHHHTTCC
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEE-CCEEEEEEEEECCCchhhhhhhhHHHhcCCC
Confidence            45679999999999999999999999888665555554 556667777 7778899999999999988 88888999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCC---CC
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKEN---YN  198 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~---~~  198 (253)
                      ++|+|||++++.+|..+..|+..+.... ..++|+++|+||+|+... .+..+..+.++. ..+++++++||+++   .|
T Consensus        96 ~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~~~~~  174 (189)
T 1z06_A           96 AVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFAD-THSMPLFETSAKNPNDNDH  174 (189)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCCEEECCSSSGGGGSC
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHH-HcCCEEEEEeCCcCCcccC
Confidence            9999999999999999999998887754 467999999999999765 566777788877 56789999999999   99


Q ss_pred             HHHHHHHHHHHHH
Q psy549          199 IVQVFKELLAQAK  211 (253)
Q Consensus       199 i~~l~~~l~~~~~  211 (253)
                      +.++|++|++.+.
T Consensus       175 i~~l~~~l~~~i~  187 (189)
T 1z06_A          175 VEAIFMTLAHKLK  187 (189)
T ss_dssp             HHHHHHHHC----
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988764

>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=99.97  E-value=4.8e-30  Score=198.05  Aligned_cols=164  Identities=25%  Similarity=0.382  Sum_probs=140.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|||||||+++|.++.+...+.+|....+...+.+ ++..+.+.+||+||+++|..++..+++.+|++|
T Consensus         5 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i   83 (184)
T 1m7b_A            5 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI-DTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVL   83 (184)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEC-SSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEE-CCEEEEEEEEECCCChhhhhhHHhhcCCCcEEE
Confidence            4579999999999999999999999998777777777666667777 778899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHH-HHHHHHHHHhcCCCCCEEEEEecCCCCC-------------ccccHHHHHHHHHhcCCCcEEEec
Q psy549          127 LVYAVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEF-------------KDVRREIAETIALYDWQCGFVECS  192 (253)
Q Consensus       127 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~-------------~~~~~~~~~~~~~~~~~~~~~~~S  192 (253)
                      +|||++++.+|..+ ..|+..+.... +++|+++|+||+|+.+             ..+..+.+..++......++++||
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  162 (184)
T 1m7b_A           84 ICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS  162 (184)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECB
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEee
Confidence            99999999999988 67887776653 5799999999999974             246667777887744457999999


Q ss_pred             cC-CCCCHHHHHHHHHHHHHH
Q psy549          193 AK-ENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       193 a~-~~~~i~~l~~~l~~~~~~  212 (253)
                      |+ ++.|++++|+++++.+.+
T Consensus       163 a~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          163 ALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             TTTBHHHHHHHHHHHHHHHHT
T ss_pred             ecCCCcCHHHHHHHHHHHHhc
Confidence            99 689999999999998753

>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=99.97  E-value=2.5e-29  Score=196.80  Aligned_cols=167  Identities=26%  Similarity=0.432  Sum_probs=138.7

Q ss_pred             CCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccC
Q psy549           43 VGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTA  122 (253)
Q Consensus        43 ~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~  122 (253)
                      .++....+||+|+|++|||||||+++|.++.+...+.++....+...+.+ ++..+.+.+||+||++++..++..+++.+
T Consensus        19 ~~m~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~   97 (201)
T 2gco_A           19 SHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDT   97 (201)
T ss_dssp             ---CCEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCEEEEEE-TTEEEEEEEECCCCSGGGTTTGGGGCTTC
T ss_pred             CCCcccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEEEEEEE-CCEEEEEEEEECCCchhHHHHHHHhcCCC
Confidence            34456789999999999999999999999998777777776555566677 77788999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcE
Q psy549          123 DAFVLVYAVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGF  188 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~  188 (253)
                      |++++|||++++.++..+ ..|+..+.... .++|+++|+||+|+...             .+..+.+..++......++
T Consensus        98 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  176 (201)
T 2gco_A           98 DVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGY  176 (201)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEE
Confidence            999999999999999988 56777666643 57999999999999764             2455666777764444489


Q ss_pred             EEeccCCCCCHHHHHHHHHHHHH
Q psy549          189 VECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       189 ~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      +++||++|.|++++|++|++.+.
T Consensus       177 ~~~SA~~g~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          177 LECSAKTKEGVREVFEMATRAGL  199 (201)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHh
Confidence            99999999999999999998774

>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=99.97  E-value=8.4e-30  Score=193.14  Aligned_cols=162  Identities=28%  Similarity=0.434  Sum_probs=139.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...++|+|+|++|||||||+++|.++.+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|++
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   81 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQV-NDEDVRLMLWDTAGQEEFDAITKAYYRGAQAC   81 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEE-TTEEEEEEEECCTTGGGTTCCCHHHHTTCCEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEE-CCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEE
Confidence            3568999999999999999999999888766666654 566667777 77788999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ++|||++++.++..+..|+..+.... .++|+++|+||+|+.+. .+..+.++.++. ..+++++++||+++.|++++|+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~i~~l~~  159 (168)
T 1z2a_A           82 VLVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAK-RLKLRFYRTSVKEDLNVSEVFK  159 (168)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHH-HHTCEEEECBTTTTBSSHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccCcccccCHHHHHHHHH-HcCCeEEEEecCCCCCHHHHHH
Confidence            99999999999999999998887755 67999999999999764 555666777776 4567999999999999999999


Q ss_pred             HHHHHHH
Q psy549          205 ELLAQAK  211 (253)
Q Consensus       205 ~l~~~~~  211 (253)
                      +|.+.+.
T Consensus       160 ~l~~~~~  166 (168)
T 1z2a_A          160 YLAEKHL  166 (168)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9998875

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.97  E-value=1.4e-29  Score=192.47  Aligned_cols=161  Identities=41%  Similarity=0.656  Sum_probs=137.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..++|+++|++|||||||+++|+++.+...+.++....+...+.. ++..+.+.+||+||++++...+..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISC-DKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   80 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEEEEEE-TTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEEEEEEE-CCEEEEEEEEECCCchhhHHHHHHhcccCCEEEE
Confidence            468999999999999999999999888766666666555566666 7777899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC--CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRG--LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |||++++.++..+..|+..+.....  .++|+++|+||+|+... .+.......++. .++++++++||++|.|++++|+
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~  159 (172)
T 2erx_A           81 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALAR-TWKCAFMETSAKLNHNVKELFQ  159 (172)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHH-HHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHH-HhCCeEEEecCCCCcCHHHHHH
Confidence            9999999999988888887776432  46899999999998765 556666677776 5678999999999999999999


Q ss_pred             HHHHHH
Q psy549          205 ELLAQA  210 (253)
Q Consensus       205 ~l~~~~  210 (253)
                      +|.+.+
T Consensus       160 ~l~~~~  165 (172)
T 2erx_A          160 ELLNLE  165 (172)
T ss_dssp             HHHHTC
T ss_pred             HHHHHH
Confidence            998766

>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=99.97  E-value=5.9e-30  Score=195.97  Aligned_cols=162  Identities=30%  Similarity=0.489  Sum_probs=139.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...++|+|+|++|||||||+++|+++.+...+.++.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|++
T Consensus        12 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   90 (179)
T 2y8e_A           12 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYL-EDRTVRLQLWDTAGQERFRSLIPSYIRDSTVA   90 (179)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGGGGSHHHHHTCSEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEE-CCeEEEEEEEECCCcHHHHHHHHHHhcCCCEE
Confidence            4569999999999999999999999888665555554 666677777 77788999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ++|||++++.++..+..|+..+......++|+++|+||+|+.+. .+..+....+.. ..+++++++||+++.|++++|+
T Consensus        91 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~i~~l~~  169 (179)
T 2y8e_A           91 VVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAK-ELNVMFIETSAKAGYNVKQLFR  169 (179)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHH-HHTCEEEEEBTTTTBSHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999998888766678999999999998764 555666666666 4568999999999999999999


Q ss_pred             HHHHHH
Q psy549          205 ELLAQA  210 (253)
Q Consensus       205 ~l~~~~  210 (253)
                      +|.+.+
T Consensus       170 ~l~~~~  175 (179)
T 2y8e_A          170 RVAAAL  175 (179)
T ss_dssp             HHHHTC
T ss_pred             HHHHHH
Confidence            998765

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.97  E-value=5.8e-29  Score=194.40  Aligned_cols=164  Identities=24%  Similarity=0.311  Sum_probs=137.9

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcE----------------------------
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQ----------------------------   97 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~----------------------------   97 (253)
                      ...++|+|+|++|||||||+++|++..+...+.++.. +.....+.+ ++..                            
T Consensus         5 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (208)
T 3clv_A            5 KSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNL-NDINIKNNSNNEKNNNINSINDDNNVIITNQH   83 (208)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEET-TC------------------------------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEe-cCcccccccccccccccccccccccccccccc
Confidence            4579999999999999999999999988766666654 555555666 4433                            


Q ss_pred             ---------EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549           98 ---------LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus        98 ---------~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                               +.+.|||+||++++...+..+++.+|++|+|||++++.++..+..|+..+.....  +|+++|+||+|+..
T Consensus        84 ~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~--~piilv~NK~D~~~  161 (208)
T 3clv_A           84 NNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN--YIIILVANKIDKNK  161 (208)
T ss_dssp             -CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--CEEEEEEECTTCC-
T ss_pred             ccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC--CcEEEEEECCCccc
Confidence                     7899999999999999999999999999999999999999999999988877643  89999999999544


Q ss_pred             ccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHHhc
Q psy549          169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  214 (253)
                      ..+..+.+..+.. ..+++++++||+++.|++++|++|.+.+.++.
T Consensus       162 ~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          162 FQVDILEVQKYAQ-DNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             CCSCHHHHHHHHH-HTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHH-HcCCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            4666677777777 56789999999999999999999999887653

>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=99.97  E-value=1.4e-29  Score=196.76  Aligned_cols=165  Identities=24%  Similarity=0.340  Sum_probs=142.0

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...++|+|+|++|||||||+++|++..+...+.++.. +.....+.+ ++..+.+.|||+||++++..++..+++.+|++
T Consensus        13 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   91 (195)
T 1x3s_A           13 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV-DGNKAKLAIWDTAGQERFRTLTPSYYRGAQGV   91 (195)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECSSGGGCCSHHHHHTTCCEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEE-CCeEEEEEEEeCCCchhhhhhhHHHhccCCEE
Confidence            4568999999999999999999999988666665554 555566667 77788999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |+|||++++.++..+..|+..+.... ..++|+++|+||+|+....+..+.+..++. ..+++++++||+++.|++++|+
T Consensus        92 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~  170 (195)
T 1x3s_A           92 ILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFAR-KHSMLFIEASAKTCDGVQCAFE  170 (195)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcccccCHHHHHHHHH-HcCCEEEEecCCCCCCHHHHHH
Confidence            99999999999999999988876643 256899999999999776777777777777 5678999999999999999999


Q ss_pred             HHHHHHHHh
Q psy549          205 ELLAQAKVQ  213 (253)
Q Consensus       205 ~l~~~~~~~  213 (253)
                      +|.+.+...
T Consensus       171 ~l~~~~~~~  179 (195)
T 1x3s_A          171 ELVEKIIQT  179 (195)
T ss_dssp             HHHHHHHTS
T ss_pred             HHHHHHHhh
Confidence            999998654

>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=99.97  E-value=1.6e-29  Score=199.87  Aligned_cols=166  Identities=26%  Similarity=0.358  Sum_probs=121.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....++|+|+|++|||||||+++|+++.+...+.+|+.+.+...+.+ ++..+.+.+||+||++++..++..+++++|++
T Consensus        31 ~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  109 (214)
T 2j1l_A           31 GVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVNLQV-KGKPVHLHIWDTAGQDDYDRLRPLFYPDASVL  109 (214)
T ss_dssp             -CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEEEEEEEE-TTEEEEEEEEEC---------------CEEEE
T ss_pred             CcceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEE-CCEEEEEEEEECCCchhhhHHHHHHhccCCEE
Confidence            34679999999999999999999999888777777777777777777 77888999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEe
Q psy549          126 VLVYAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVEC  191 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~  191 (253)
                      ++|||++++.+|..+. .|+..+.... .++|+++|+||+|+...             .+..+.+..++......++++|
T Consensus       110 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  188 (214)
T 2j1l_A          110 LLCFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLEC  188 (214)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEe
Confidence            9999999999999986 6887776643 67999999999999764             3455666777773333489999


Q ss_pred             ccCCCCCHHHHHHHHHHHHHHh
Q psy549          192 SAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       192 Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ||++|.|++++|++|++.+...
T Consensus       189 SA~~g~gi~el~~~l~~~~~~~  210 (214)
T 2j1l_A          189 SARLHDNVHAVFQEAAEVALSS  210 (214)
T ss_dssp             BTTTTBSHHHHHHHHHHHHHHC
T ss_pred             cCCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999988653

>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=99.97  E-value=2e-29  Score=194.27  Aligned_cols=162  Identities=22%  Similarity=0.362  Sum_probs=139.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..++|+|+|++|||||||+++|.++.+...+.+|+.+.+...+.+ ++..+.+++||+||++++...+..+++.+|++++
T Consensus         4 ~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   82 (186)
T 1mh1_A            4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLI   82 (186)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEEEEEEE-TTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCcccceeEEEEEE-CCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEE
Confidence            468999999999999999999999998877778877777777777 7888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEecc
Q psy549          128 VYAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSA  193 (253)
Q Consensus       128 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa  193 (253)
                      |||++++.++..+. .|+..+.... +++|+++|+||+|+...             .+..+.+..++......+++++||
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  161 (186)
T 1mh1_A           83 CFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  161 (186)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHS-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEECCChhhHHHHHHHHHHHHHHhC-CCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecC
Confidence            99999999999887 6877777654 47999999999998653             345566677777333349999999


Q ss_pred             CCCCCHHHHHHHHHHHHH
Q psy549          194 KENYNIVQVFKELLAQAK  211 (253)
Q Consensus       194 ~~~~~i~~l~~~l~~~~~  211 (253)
                      ++|.|++++|+++.+.+.
T Consensus       162 ~~g~gi~~l~~~l~~~~~  179 (186)
T 1mh1_A          162 LTQRGLKTVFDEAIRAVL  179 (186)
T ss_dssp             TTCTTHHHHHHHHHHHHS
T ss_pred             CCccCHHHHHHHHHHHHh
Confidence            999999999999999884

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.97  E-value=6.6e-30  Score=199.29  Aligned_cols=173  Identities=23%  Similarity=0.256  Sum_probs=130.7

Q ss_pred             CCCCCCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCC-CccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHH
Q psy549           39 SGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFIS-RYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMREL  117 (253)
Q Consensus        39 ~~~~~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~  117 (253)
                      .....++....++|+|+|++|||||||+++|+++.+.. .+.+|.. .....+.   +..+.+.+|||||++++..++..
T Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~-~~~~~~~---~~~~~~~i~Dt~G~~~~~~~~~~   82 (199)
T 4bas_A            7 HHHHMGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVG-YNVETFE---KGRVAFTVFDMGGAKKFRGLWET   82 (199)
T ss_dssp             ---------CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSS-EEEEEEE---ETTEEEEEEEECCSGGGGGGGGG
T ss_pred             ccccccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccc-eeEEEEE---eCCEEEEEEECCCCHhHHHHHHH
Confidence            33444567788999999999999999999999998866 5666655 2222333   34578999999999999999999


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcC--------CCCCEEEEEecCCCCCccccHHHHHHHHH----hcCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRG--------LMVPIVVVGNKCELEFKDVRREIAETIAL----YDWQ  185 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--------~~~piilv~nK~Dl~~~~~~~~~~~~~~~----~~~~  185 (253)
                      +++.+|++|+|||++++.+|..+..|+..+.....        .++|+++|+||+|+.......+..+.+..    ...+
T Consensus        83 ~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~  162 (199)
T 4bas_A           83 YYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTAAELVEILDLTTLMGDHP  162 (199)
T ss_dssp             GCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCHHHHHHHHTHHHHHTTSC
T ss_pred             HHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCHHHHHHHhcchhhccCCe
Confidence            99999999999999999999999888887766311        27899999999999876443444443321    2467


Q ss_pred             CcEEEeccCCCCCHHHHHHHHHHHHHHhcc
Q psy549          186 CGFVECSAKENYNIVQVFKELLAQAKVQYN  215 (253)
Q Consensus       186 ~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~  215 (253)
                      +++++|||++|.||+++|++|++.+.....
T Consensus       163 ~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~  192 (199)
T 4bas_A          163 FVIFASNGLKGTGVHEGFSWLQETASRQSG  192 (199)
T ss_dssp             EEEEECBTTTTBTHHHHHHHHHHHHHHHC-
T ss_pred             eEEEEeeCCCccCHHHHHHHHHHHHHHHhc
Confidence            789999999999999999999999977643

>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=99.97  E-value=4.4e-30  Score=203.28  Aligned_cols=169  Identities=19%  Similarity=0.318  Sum_probs=140.6

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCc----------EEEEEEEeCCCCCCChh
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGA----------QLTLDILDTSGAYQFPA  113 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~----------~~~~~l~D~~g~~~~~~  113 (253)
                      .....++|+|+|++|||||||+++|++..+...+..|.. ++....+.+ ++.          .+.+.|||+||++++..
T Consensus        21 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~   99 (217)
T 2f7s_A           21 DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVY-NAQGPNGSSGKAFKVHLQLWDTAGQERFRS   99 (217)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEE-EC-------CCEEEEEEEEEEEESHHHHHH
T ss_pred             CcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEE-CCccccccccCceeEEEEEEECCCcHhHHh
Confidence            345679999999999999999999999888665555554 444555666 444          68899999999999999


Q ss_pred             hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEe
Q psy549          114 MRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVEC  191 (253)
Q Consensus       114 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~  191 (253)
                      .+..+++.+|++|+|||++++.++..+..|+..+..... .++|+++|+||+|+... .+..+.++.++. ..+++++++
T Consensus       100 ~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~~  178 (217)
T 2f7s_A          100 LTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELAD-KYGIPYFET  178 (217)
T ss_dssp             HHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCCEEEE
T ss_pred             HHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHH-HCCCcEEEE
Confidence            999999999999999999999999998888877655433 57899999999999764 566777778877 567899999


Q ss_pred             ccCCCCCHHHHHHHHHHHHHHhcc
Q psy549          192 SAKENYNIVQVFKELLAQAKVQYN  215 (253)
Q Consensus       192 Sa~~~~~i~~l~~~l~~~~~~~~~  215 (253)
                      ||+++.|++++|++|++.+.+...
T Consensus       179 Sa~~g~gi~~l~~~l~~~i~~~~~  202 (217)
T 2f7s_A          179 SAATGQNVEKAVETLLDLIMKRME  202 (217)
T ss_dssp             BTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHHHHHHhh
Confidence            999999999999999999876543

>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=99.97  E-value=1.3e-29  Score=200.73  Aligned_cols=170  Identities=20%  Similarity=0.280  Sum_probs=141.1

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      .....+||+|+|++|||||||+++|+++.+...+..+.. ......+...++..+.+.+||+||++.+..++..++..+|
T Consensus         7 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (218)
T 4djt_A            7 RRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGAS   86 (218)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCS
T ss_pred             cccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCC
Confidence            355689999999999999999999999888766666655 3334444443455588999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      ++|+|||++++.++..+..|+..+......++|+++|+||+|+... .+..+....++. ..+++++++||++|.|++++
T Consensus        87 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~g~gv~~l  165 (218)
T 4djt_A           87 GAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLK-GKNYEYFEISAKTAHNFGLP  165 (218)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTT-TCCCEEEEEBTTTTBTTTHH
T ss_pred             EEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHH-HcCCcEEEEecCCCCCHHHH
Confidence            9999999999999999999999988877677999999999999876 677777777777 67889999999999999999


Q ss_pred             HHHHHHHHHHhcc
Q psy549          203 FKELLAQAKVQYN  215 (253)
Q Consensus       203 ~~~l~~~~~~~~~  215 (253)
                      |++|++.+.....
T Consensus       166 ~~~l~~~~~~~~~  178 (218)
T 4djt_A          166 FLHLARIFTGRPD  178 (218)
T ss_dssp             HHHHHHHHHCCTT
T ss_pred             HHHHHHHHhcccc
Confidence            9999999876543

>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=99.97  E-value=7.9e-30  Score=195.99  Aligned_cols=162  Identities=24%  Similarity=0.395  Sum_probs=123.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|+|||||+++|.++.+...+.+|+.+.+...+.+ ++..+.+++||+||++++...+..+++++|+++
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   84 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVV-NGATVNLGLWDTAGQEDYNRLRPLSYRGADVFI   84 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CBCCCC--------CEEECCCC-CTTTTTGGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEEEEEEE-CCEEEEEEEEECCCChhhhhhHHhhccCCCEEE
Confidence            3569999999999999999999999988777777777666555556 667788999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCcc-----------ccHHHHHHHHHhcCCCcEEEeccC
Q psy549          127 LVYAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFKD-----------VRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      +|||++++.++..+. .|+..+.... .++|+++|+||+|+.+..           +..+.+..++......+++++||+
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~  163 (182)
T 3bwd_D           85 LAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSK  163 (182)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECC
Confidence            999999999999987 6888777654 479999999999987642           356667777774443589999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q psy549          195 ENYNIVQVFKELLAQA  210 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~  210 (253)
                      +|.|++++|++|++.+
T Consensus       164 ~~~gi~~l~~~l~~~i  179 (182)
T 3bwd_D          164 SQENVKGVFDAAIRVV  179 (182)
T ss_dssp             TCTTHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            9999999999999876

>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=99.97  E-value=7e-29  Score=192.98  Aligned_cols=165  Identities=25%  Similarity=0.372  Sum_probs=131.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC--CCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC-ChhhHHHhcccCCE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD--RFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ-FPAMRELSISTADA  124 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~-~~~~~~~~~~~~d~  124 (253)
                      ..+||+|+|++|||||||+++|.+.  .+...+..+..+.+...+.+ ++..+.+.+||++|.+. +..+...+++.+|+
T Consensus         5 ~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~   83 (192)
T 2cjw_A            5 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMV-DGESATIILLDMWENKGENEWLHDHCMQVGDA   83 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHSCCC----GGGCTTEEEEEEEE-TTEEEEEEEECCCCC----CTTGGGHHHHCSE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCcCCcCccccccceeEEEEEEEE-CCeEEEEEEEEeccCcchhhhHHHhhcccCCE
Confidence            4689999999999999999999963  34555555555666777777 88888999999999876 45566678889999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +++|||+++..+|..+..|+..+.... ..++|+++|+||+|+... .+..+.+..++. ..++++++|||++|.||+++
T Consensus        84 ~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~-~~~~~~~e~SA~~g~~v~~l  162 (192)
T 2cjw_A           84 YLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAV-VFDXKFIETSAAVQHNVKEL  162 (192)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHH-HhCCceEEeccccCCCHHHH
Confidence            999999999999999999988777643 357999999999998754 556666667766 56789999999999999999


Q ss_pred             HHHHHHHHHHhc
Q psy549          203 FKELLAQAKVQY  214 (253)
Q Consensus       203 ~~~l~~~~~~~~  214 (253)
                      |+++++.+....
T Consensus       163 f~~l~~~~~~~~  174 (192)
T 2cjw_A          163 FEGIVRQVRLRR  174 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhc
Confidence            999999886553

>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=99.97  E-value=7.8e-29  Score=194.85  Aligned_cols=164  Identities=27%  Similarity=0.421  Sum_probs=132.9

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|||||||+++|.++.+...+.+++...+...+.+ ++..+.+.+||+||++++...+..+++.+|++|
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEEEEEEE-TTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEE
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEEEEEEE-CCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEE
Confidence            4578999999999999999999999998777777776666566667 777889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHH-HHHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEec
Q psy549          127 LVYAVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECS  192 (253)
Q Consensus       127 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~S  192 (253)
                      +|||++++.++..+ ..|+..+.... +++|+++|+||+|+...             .+..+.+..++......+++++|
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  180 (207)
T 2fv8_A          102 MCFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECS  180 (207)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEee
Confidence            99999999999988 56777766643 57999999999998754             24555666777633334899999


Q ss_pred             cCCCCCHHHHHHHHHHHHHH
Q psy549          193 AKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       193 a~~~~~i~~l~~~l~~~~~~  212 (253)
                      |++|.|++++|++|.+.+..
T Consensus       181 A~~g~gi~el~~~l~~~i~~  200 (207)
T 2fv8_A          181 AKTKEGVREVFETATRAALQ  200 (207)
T ss_dssp             TTTCTTHHHHHHHHHHHHHS
T ss_pred             CCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999998854

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.96  E-value=1.5e-29  Score=198.51  Aligned_cols=167  Identities=24%  Similarity=0.306  Sum_probs=109.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC--CCCCCccccce-eeeeeeEEcCCCc--EEEEEEEeCCCCCCChhhHHHhccc
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD--RFISRYKETVE-ELHRGEYELPDGA--QLTLDILDTSGAYQFPAMRELSIST  121 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~--~~~~~~~~t~~-~~~~~~~~~~~~~--~~~~~l~D~~g~~~~~~~~~~~~~~  121 (253)
                      ...++|+|+|++|||||||+++|+++  .+...+.+|+. +.....+.+ ++.  .+.+.+||+||++++...+..+++.
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   96 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTI-PDTTVSVELFLLDTAGSDLYKEQISQYWNG   96 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEEC-TTSSEEEEEEEEETTTTHHHHHHHSTTCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEE-CCcccEEEEEEEECCCcHHHHHHHHHHHhh
Confidence            45689999999999999999999998  77777777775 677778888 665  7899999999999999999999999


Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHHhcC---CCCCEEEEEecCCCCC-c-cccHHHHHHHHHhcCCCcEEEeccCC-
Q psy549          122 ADAFVLVYAVDDASTWDVVKDLREQIVNKRG---LMVPIVVVGNKCELEF-K-DVRREIAETIALYDWQCGFVECSAKE-  195 (253)
Q Consensus       122 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~-~-~~~~~~~~~~~~~~~~~~~~~~Sa~~-  195 (253)
                      +|++|+|||++++.+|..+..|+..+.....   .++|+++|+||+|+.. . .+..+.+..++. ..+++++++||++ 
T Consensus        97 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~-~~~~~~~~~Sa~~~  175 (208)
T 2yc2_C           97 VYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWAT-TNTLDFFDVSANPP  175 (208)
T ss_dssp             CCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHH-HTTCEEEECCC---
T ss_pred             CcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHH-HcCCEEEEeccCCC
Confidence            9999999999999999999999999888765   5799999999999986 3 666677777777 5678999999999 


Q ss_pred             CCCHHHHHHHHHHHHHHhcc
Q psy549          196 NYNIVQVFKELLAQAKVQYN  215 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~~~~~  215 (253)
                      +.|++++|++|++.+.....
T Consensus       176 ~~gi~~l~~~i~~~~~~~~~  195 (208)
T 2yc2_C          176 GKDADAPFLSIATTFYRNYE  195 (208)
T ss_dssp             ----CHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHHHH
Confidence            99999999999998876543

>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=99.96  E-value=1.8e-29  Score=195.52  Aligned_cols=169  Identities=22%  Similarity=0.259  Sum_probs=129.4

Q ss_pred             CCCCCCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHh
Q psy549           39 SGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELS  118 (253)
Q Consensus        39 ~~~~~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~  118 (253)
                      .+.........++|+|+|++|||||||+++|+++.+...+.+|....+. .+..   ..+.+.+||+||++++...+..+
T Consensus        12 ~~~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~---~~~~~~l~Dt~G~~~~~~~~~~~   87 (188)
T 1zd9_A           12 SGLVPRGSKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR-KITK---GNVTIKLWDIGGQPRFRSMWERY   87 (188)
T ss_dssp             -------CCEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE-EEEE---TTEEEEEEEECCSHHHHTTHHHH
T ss_pred             ccccccCCCCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEE-EEEe---CCEEEEEEECCCCHhHHHHHHHH
Confidence            3333444567899999999999999999999998887666555553332 2333   34788999999999999999999


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccC
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAK  194 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~  194 (253)
                      ++.+|++|+|||++++.++..+..|+..+... ...++|+++|+||+|+.......+..+.+...   ....++++|||+
T Consensus        88 ~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~  167 (188)
T 1zd9_A           88 CRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCK  167 (188)
T ss_dssp             HTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTT
T ss_pred             HccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCCCHHHHHHHhChhhhccCCeeEEEEECC
Confidence            99999999999999999999988888877653 23679999999999997653333333433321   235678999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q psy549          195 ENYNIVQVFKELLAQAK  211 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~~  211 (253)
                      +|.|++++|++|++.+.
T Consensus       168 ~g~gv~~l~~~l~~~~~  184 (188)
T 1zd9_A          168 EKDNIDITLQWLIQHSK  184 (188)
T ss_dssp             TCTTHHHHHHHHHHTCC
T ss_pred             CCCCHHHHHHHHHHHHH
Confidence            99999999999988763

>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=99.96  E-value=1.3e-28  Score=191.39  Aligned_cols=165  Identities=18%  Similarity=0.168  Sum_probs=130.0

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCcc-----------ccce-eeeeeeE-EcCCCcEEEEEEEeCCCCCCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYK-----------ETVE-ELHRGEY-ELPDGAQLTLDILDTSGAYQF  111 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~-----------~t~~-~~~~~~~-~~~~~~~~~~~l~D~~g~~~~  111 (253)
                      .....+||+|+|++|||||||++++.+. +...+.           +|.. +.....+ .+ ++..+.+++|||||++++
T Consensus        10 ~~~~~~ki~vvG~~~~GKssL~~~l~~~-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~   87 (198)
T 3t1o_A           10 NREINFKIVYYGPGLSGKTTNLKWIYSK-VPEGRKGEMVSLATEDERTLFFDFLPLDIGEV-KGFKTRFHLYTVPGQVFY   87 (198)
T ss_dssp             TTEEEEEEEEECSTTSSHHHHHHHHHHT-SCGGGBCCCEEEECSSCEEEEEEECCSSCCCS-SSCEEEEEEEECCSCCSC
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHhh-ccccccccccccccccccceeeeecccccccc-cCCceEEEEEeCCChHHH
Confidence            3456799999999999999999766554 333322           2332 3333444 44 777899999999999999


Q ss_pred             hhhHHHhcccCCEEEEEEECC------ChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCC
Q psy549          112 PAMRELSISTADAFVLVYAVD------DASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQ  185 (253)
Q Consensus       112 ~~~~~~~~~~~d~~i~v~d~~------~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~  185 (253)
                      ..++..+++++|++|+|||++      +..+|..+..|+..+. ....++|+++|+||+|+.+. +..+.++.++. ..+
T Consensus        88 ~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~-~~~~~~piilv~NK~Dl~~~-~~~~~~~~~~~-~~~  164 (198)
T 3t1o_A           88 NASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYG-LTLDDVPIVIQVNKRDLPDA-LPVEMVRAVVD-PEG  164 (198)
T ss_dssp             SHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTT-CCTTSSCEEEEEECTTSTTC-CCHHHHHHHHC-TTC
T ss_pred             HHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhc-cccCCCCEEEEEEchhcccc-cCHHHHHHHHH-hcC
Confidence            999999999999999999999      4566767777776652 23467999999999999774 66666777776 456


Q ss_pred             C-cEEEeccCCCCCHHHHHHHHHHHHHHhc
Q psy549          186 C-GFVECSAKENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       186 ~-~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  214 (253)
                      + +++++||++|.|++++|++|++.+....
T Consensus       165 ~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~  194 (198)
T 3t1o_A          165 KFPVLEAVATEGKGVFETLKEVSRLVLARV  194 (198)
T ss_dssp             CSCEEECBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             CceEEEEecCCCcCHHHHHHHHHHHHHHHh
Confidence            6 9999999999999999999999987764

>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=99.96  E-value=3.2e-28  Score=188.63  Aligned_cols=164  Identities=17%  Similarity=0.222  Sum_probs=128.4

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCC-CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccC
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDR-FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTA  122 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~  122 (253)
                      ......++|+|+|++|||||||+++|.+.. +...+..|.. .....+.+ ++  +.+.+||+||++++...+..+++++
T Consensus        16 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~-~~~~~~~~-~~--~~~~l~Dt~G~~~~~~~~~~~~~~~   91 (190)
T 2h57_A           16 PRGSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG-FSIEKFKS-SS--LSFTVFDMSGQGRYRNLWEHYYKEG   91 (190)
T ss_dssp             -----CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS-EEEEEEEC-SS--CEEEEEEECCSTTTGGGGGGGGGGC
T ss_pred             cCCCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc-eeEEEEEE-CC--EEEEEEECCCCHHHHHHHHHHHhcC
Confidence            345678999999999999999999999887 4555554443 55556666 43  5789999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhcC---CCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCC
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKRG---LMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKEN  196 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~  196 (253)
                      |++|+|||++++.+|..+..|+..+.....   .++|+++|+||+|+.......+..+.+...   ..+++++++||++|
T Consensus        92 d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  171 (190)
T 2h57_A           92 QAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVTSVKVSQLLCLENIKDKPWHICASDAIKG  171 (190)
T ss_dssp             SEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEECBTTTT
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccCCCHHHHHHHhChhhccCCceEEEEccCCCC
Confidence            999999999999999999889888777533   479999999999997643333333333211   23568999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q psy549          197 YNIVQVFKELLAQAK  211 (253)
Q Consensus       197 ~~i~~l~~~l~~~~~  211 (253)
                      .|++++|++|.+.+.
T Consensus       172 ~gi~~l~~~l~~~i~  186 (190)
T 2h57_A          172 EGLQEGVDWLQDQIQ  186 (190)
T ss_dssp             BTHHHHHHHHHHHC-
T ss_pred             cCHHHHHHHHHHHHH
Confidence            999999999998774

>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=99.96  E-value=4e-29  Score=198.42  Aligned_cols=168  Identities=22%  Similarity=0.362  Sum_probs=139.7

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccC
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTA  122 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~  122 (253)
                      ......+||+|+|++|||||||+++|+.+.+...+..+.. +.....+.+ ++..+.+.+|||||++.+..++..+++++
T Consensus        10 ~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   88 (221)
T 3gj0_A           10 GEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHT-NRGPIKFNVWDTAGQEKFGGLRDGYYIQA   88 (221)
T ss_dssp             TCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEE-TTEEEEEEEEEECSGGGTSCCCHHHHTTC
T ss_pred             CCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEeCCChHHHhHHHHHHHhcC
Confidence            3456779999999999999999999887776655555554 555556666 77789999999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      |++++|||++++.+|..+..|+..+.... .++|+++|+||+|+.+..... ....++. ..++++++|||++|.|++++
T Consensus        89 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~-~~~~~~~-~~~~~~~~~Sa~~~~gi~~l  165 (221)
T 3gj0_A           89 QCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKVKA-KSIVFHR-KKNLQYYDISAKSNYNFEKP  165 (221)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHHHS-TTCCEEEEEECTTSSSCSSCG-GGCCHHH-HHTCEEEECBGGGTBTTTHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCccccccccH-HHHHHHH-HcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999999888764 579999999999998764443 3333444 45679999999999999999


Q ss_pred             HHHHHHHHHHhcc
Q psy549          203 FKELLAQAKVQYN  215 (253)
Q Consensus       203 ~~~l~~~~~~~~~  215 (253)
                      |++|++.+.....
T Consensus       166 ~~~l~~~l~~~~~  178 (221)
T 3gj0_A          166 FLWLARKLIGDPN  178 (221)
T ss_dssp             HHHHHHHHHTCTT
T ss_pred             HHHHHHHHHhCcc
Confidence            9999999876543

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.96  E-value=8.3e-31  Score=204.85  Aligned_cols=165  Identities=29%  Similarity=0.421  Sum_probs=131.0

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ....+||+|+|++|||||||+++|+++.+...+..+.. +.....+.+ ++..+.+.+||+||++++...+..+++.+|+
T Consensus        30 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~  108 (199)
T 3l0i_B           30 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQERFRTITSSYYRGAHG  108 (199)
T ss_dssp             CSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEE-TTEEEEEEEECCTTCTTCCCCSCC--CCCSE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEE-CCEEEEEEEEECCCcHhHHHHHHHHhhcCCE
Confidence            34579999999999999999999999887665555544 566667777 7778899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +|+|||++++.+|..+..|+..+......++|+++|+||+|+... .+..+.++.++. ..+++++++||+++.|++++|
T Consensus       109 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~vSA~~g~gv~~l~  187 (199)
T 3l0i_B          109 IIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFAD-SLGIPFLETSAKNATNVEQSF  187 (199)
T ss_dssp             EEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC-CHHHH-TTTCCBCCCCC---HHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHHHHHHHH-HcCCeEEEEECCCCCCHHHHH
Confidence            999999999999999999999887766668999999999998765 344445566666 667899999999999999999


Q ss_pred             HHHHHHHHH
Q psy549          204 KELLAQAKV  212 (253)
Q Consensus       204 ~~l~~~~~~  212 (253)
                      ++|++.+..
T Consensus       188 ~~l~~~l~~  196 (199)
T 3l0i_B          188 MTMAAEIKK  196 (199)
T ss_dssp             HHHTTTTTT
T ss_pred             HHHHHHHHH
Confidence            999887643

>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=99.96  E-value=8.7e-28  Score=185.74  Aligned_cols=160  Identities=16%  Similarity=0.237  Sum_probs=125.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|||||||+++|.++.+. .+.+|.. .....+.+ ++  +.+.+||+||++++...+..+++++|+++
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~-~~~~~~~~-~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   88 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIG-SNVEEIVI-NN--TRFLMWDIGGQESLRSSWNTYYTNTEFVI   88 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSC-SSCEEEEE-TT--EEEEEEECCC----CGGGHHHHTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCc-cceEEEEE-CC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            35699999999999999999999988876 4444443 34445555 43  78899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|||++++.+|..+..|+..+.... ..++|+++|+||+|+.+.....+..+.+...   ..+++++++||++|.|++++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l  168 (187)
T 1zj6_A           89 VVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQG  168 (187)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCCCCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHHHH
Confidence            9999999999999999988877642 3579999999999998643334444444321   34568999999999999999


Q ss_pred             HHHHHHHHH
Q psy549          203 FKELLAQAK  211 (253)
Q Consensus       203 ~~~l~~~~~  211 (253)
                      |++|++.+.
T Consensus       169 ~~~l~~~~~  177 (187)
T 1zj6_A          169 LEWMMSRLK  177 (187)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            999998873

>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=99.96  E-value=7.5e-28  Score=181.84  Aligned_cols=157  Identities=13%  Similarity=0.201  Sum_probs=123.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+++|++|||||||+++|.++.+... .+|.. .....+..   ..+.+.+||+||++++...+..+++++|++++||
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~~-~~t~~-~~~~~~~~---~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   75 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG-FNVETVEY---KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCC-CCCSS-CCEEEEEC---SSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCcc-cCcCc-eeEEEEEE---CCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEE
Confidence            5899999999999999999998887543 33433 33344444   3368899999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |++++.+|..+..|+..+... ...++|+++|+||+|+.+.....+..+.+...   ..++++++|||++|.|++++|++
T Consensus        76 d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  155 (164)
T 1r8s_A           76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDW  155 (164)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHH
T ss_pred             ECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCCCHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHHHH
Confidence            999999999988888877653 33578999999999997753333343433321   13457999999999999999999


Q ss_pred             HHHHHH
Q psy549          206 LLAQAK  211 (253)
Q Consensus       206 l~~~~~  211 (253)
                      |++.+.
T Consensus       156 l~~~i~  161 (164)
T 1r8s_A          156 LSNQLR  161 (164)
T ss_dssp             HHHHC-
T ss_pred             HHHHHh
Confidence            998774

>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=99.96  E-value=2.1e-27  Score=180.52  Aligned_cols=161  Identities=17%  Similarity=0.229  Sum_probs=128.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|+|||||+++|.++.+.. +.+|. ......+.+ +  .+.+.+||+||++++...+..+++.+|+++
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~-~~~t~-~~~~~~~~~-~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   79 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVVT-TIPTI-GFNVETVTY-K--NLKFQVWDLGGLTSIRPYWRCYYSNTDAVI   79 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCS-SEEEEEEEE-T--TEEEEEEEECCCGGGGGGGGGGCTTCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCC-cCCcC-ccceEEEEE-C--CEEEEEEECCCChhhhHHHHHHhccCCEEE
Confidence            456999999999999999999999988754 33333 333445555 3  368899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|||++++.+|..+..|+..+.... ..++|+++|+||+|+.+.....+..+.+...   ..+++++++||++|.|++++
T Consensus        80 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  159 (171)
T 1upt_A           80 YVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEA  159 (171)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCCHHHHHHHhCchhccCCceEEEECcCCCCcCHHHH
Confidence            9999999999999888887776532 2578999999999998754334444444321   23568999999999999999


Q ss_pred             HHHHHHHHHH
Q psy549          203 FKELLAQAKV  212 (253)
Q Consensus       203 ~~~l~~~~~~  212 (253)
                      |++|++.+.+
T Consensus       160 ~~~l~~~i~~  169 (171)
T 1upt_A          160 MEWLVETLKS  169 (171)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhh
Confidence            9999998854

>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=99.95  E-value=5.1e-28  Score=188.99  Aligned_cols=157  Identities=17%  Similarity=0.228  Sum_probs=119.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+++|++|||||||+++|.++.+. .+.+|... ....+.+ ++  +.+.+|||||++++...+..+++.+|+++
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~-~~~~~~~-~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   97 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHP-TSEELTI-AG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   97 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCC-SCEEEEE-TT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCc-eeEEEEE-CC--EEEEEEECCCcHhhHHHHHHHHhcCCEEE
Confidence            45689999999999999999999988764 23334332 3456666 44  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh----------------cCCCcEE
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY----------------DWQCGFV  189 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~----------------~~~~~~~  189 (253)
                      +|||++++.+|..+..|+..+... ...++|+++|+||+|+.+ .+..+.+..+...                ...++++
T Consensus        98 ~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (198)
T 1f6b_A           98 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE-AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVF  176 (198)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT-CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc-cCCHHHHHHHhCcccccccccccccccccCceEEEE
Confidence            999999999999999998887763 235799999999999976 4444444444331                1356799


Q ss_pred             EeccCCCCCHHHHHHHHHHH
Q psy549          190 ECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       190 ~~Sa~~~~~i~~l~~~l~~~  209 (253)
                      +|||++|.|++++|++|++.
T Consensus       177 ~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          177 MCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             ECBTTTTBSHHHHHHHHHTT
T ss_pred             EEECCCCCCHHHHHHHHHHh
Confidence            99999999999999999764

>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=99.95  E-value=3.6e-28  Score=187.01  Aligned_cols=162  Identities=15%  Similarity=0.217  Sum_probs=123.9

Q ss_pred             CCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccC
Q psy549           43 VGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTA  122 (253)
Q Consensus        43 ~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~  122 (253)
                      .......++|+|+|++|||||||+++|.++.+ ..+..|.. .....+.+ ++  +.+.+||+||++++...+..+++.+
T Consensus        15 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~-~~~~~~~~-~~--~~~~i~Dt~G~~~~~~~~~~~~~~~   89 (181)
T 2h17_A           15 VPRGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIG-SNVEEIVI-NN--TRFLMWDIGGQESLRSSWNTYYTNT   89 (181)
T ss_dssp             ------CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSS-SSCEEEEE-TT--EEEEEEEESSSGGGTCGGGGGGTTC
T ss_pred             cCCCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCc-eeeEEEEE-CC--EEEEEEECCCCHhHHHHHHHHhccC
Confidence            33456779999999999999999999999887 33333333 33345555 43  7899999999999999999999999


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCcEEEeccCCCCC
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCGFVECSAKENYN  198 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~  198 (253)
                      |++++|||++++.+|..+..|+..+.... ..++|+++|+||+|+.......+..+.+..   ...+++++++||++|.|
T Consensus        90 d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~g  169 (181)
T 2h17_A           90 EFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEG  169 (181)
T ss_dssp             CEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBT
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccCCCHHHHHHHhCcccccCCceEEEEccCCCCcC
Confidence            99999999999999999888888776532 367999999999999764333333333322   12355899999999999


Q ss_pred             HHHHHHHHHHH
Q psy549          199 IVQVFKELLAQ  209 (253)
Q Consensus       199 i~~l~~~l~~~  209 (253)
                      ++++|++|++.
T Consensus       170 i~~l~~~l~~~  180 (181)
T 2h17_A          170 LCQGLEWMMSR  180 (181)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHhh
Confidence            99999998764

>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=99.95  E-value=8.7e-28  Score=184.99  Aligned_cols=161  Identities=16%  Similarity=0.254  Sum_probs=124.9

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+++|++|||||||+++|.+..+. .+.+|.. .....+.+ +  .+.+.+||+||++.+...+..+++.+|+++
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~~-~~~~t~g-~~~~~~~~-~--~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   88 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDIS-HITPTQG-FNIKSVQS-Q--GFKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCE-EEEEETT-EEEEEEEE-T--TEEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCC-cccCcCC-eEEEEEEE-C--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            45699999999999999999999987652 2333333 33344555 4  368899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|||++++.+|..+..|+..+... ...++|+++|+||+|+.+.....+..+.+...   ...+++++|||++|.|++++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l  168 (181)
T 1fzq_A           89 YVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDG  168 (181)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCCHHHHHHHhCchhccCCceEEEEccCCCCCCHHHH
Confidence            999999999999988888776553 23578999999999998754333333333221   23567999999999999999


Q ss_pred             HHHHHHHHHH
Q psy549          203 FKELLAQAKV  212 (253)
Q Consensus       203 ~~~l~~~~~~  212 (253)
                      |++|++.+.+
T Consensus       169 ~~~l~~~~~~  178 (181)
T 1fzq_A          169 MNWVCKNVNA  178 (181)
T ss_dssp             HHHHHHTC--
T ss_pred             HHHHHHHHHh
Confidence            9999987743

>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=99.95  E-value=9.3e-28  Score=186.29  Aligned_cols=157  Identities=16%  Similarity=0.233  Sum_probs=124.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      .+.++|+++|++|||||||+++|.++.+.. +.+|.. .....+.+ ++  +.+.+||+||++++...+..+++.+|+++
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~~-~~~t~~-~~~~~~~~-~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   95 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLAT-LQPTWH-PTSEELAI-GN--IKFTTFDLGGHIQARRLWKDYFPEVNGIV   95 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCCS-CEEEEEEE-TT--EEEEEEECCCSGGGTTSGGGGCTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCc-cccCCC-CCeEEEEE-CC--EEEEEEECCCCHHHHHHHHHHHhcCCEEE
Confidence            456899999999999999999999988743 333333 34556666 54  78999999999999999989999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh-----------cCCCcEEEeccC
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY-----------DWQCGFVECSAK  194 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----------~~~~~~~~~Sa~  194 (253)
                      +|||++++.+|..+..|+..+... ...++|+++|+||+|+.. .+..+........           ...+++++|||+
T Consensus        96 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  174 (190)
T 1m2o_B           96 FLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN-AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVV  174 (190)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT-CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTT
T ss_pred             EEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC-CCCHHHHHHHhCCccccccccccccceEEEEEeECC
Confidence            999999999999999998887653 236799999999999987 3444434333221           245689999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy549          195 ENYNIVQVFKELLAQ  209 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~  209 (253)
                      +|.|++++|++|++.
T Consensus       175 ~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          175 MRNGYLEAFQWLSQY  189 (190)
T ss_dssp             TTBSHHHHHHHHHTT
T ss_pred             cCCCHHHHHHHHHhh
Confidence            999999999998753

>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=99.95  E-value=1.3e-27  Score=184.39  Aligned_cols=162  Identities=17%  Similarity=0.230  Sum_probs=129.0

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+++|++|||||||+++|.++. ...+.+|.. .....+.+ +  .+.+.+|||||++++...+..+++++|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~-~~~~~~~~-~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   90 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLG-FNIKTLEH-R--GFKLNIWDVGGQKSLRSYWRNYFESTDGLI   90 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSS-EEEEEEEE-T--TEEEEEEEECCSHHHHTTGGGGCTTCSEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCc-cceEEEEE-C--CEEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            467999999999999999999999887 445555544 33445555 3  368899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|||++++.++..+..|+..+... ...++|+++|+||+|+.+.....+..+.+...   ..+++++++||++|.|++++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  170 (186)
T 1ksh_A           91 WVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPG  170 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCCCHHHHHHHhChhhccCCceEEEEeeCCCCCCHHHH
Confidence            999999999999988888877663 23579999999999997753333333433321   24568999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy549          203 FKELLAQAKVQ  213 (253)
Q Consensus       203 ~~~l~~~~~~~  213 (253)
                      |++|.+.+.+.
T Consensus       171 ~~~l~~~i~~~  181 (186)
T 1ksh_A          171 IDWLLDDISSR  181 (186)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHhc
Confidence            99999988543

>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=99.95  E-value=9.2e-28  Score=187.14  Aligned_cols=170  Identities=16%  Similarity=0.148  Sum_probs=119.1

Q ss_pred             CCCCCCCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH---
Q psy549           39 SGTGVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR---  115 (253)
Q Consensus        39 ~~~~~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~---  115 (253)
                      .+....+....+||+|+|++|||||||++++.+....................+.++..+.+++||++|+++|....   
T Consensus        10 ~~~~~~~~~~~~ki~~vG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~   89 (196)
T 3llu_A           10 GRENLYFQGSKPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDY   89 (196)
T ss_dssp             ----------CCEEEEEESTTSSHHHHHHHHHSCCCGGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCH
T ss_pred             CCCCCcccCcceEEEEECCCCCCHHHHHHHHHhcCCCcceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhc
Confidence            33444566788999999999999999999887754332111111122222223324566889999999999988777   


Q ss_pred             HHhcccCCEEEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc--------cccHHHHHHHHHh---
Q psy549          116 ELSISTADAFVLVYAVDDA--STWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK--------DVRREIAETIALY---  182 (253)
Q Consensus       116 ~~~~~~~d~~i~v~d~~~~--~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--------~~~~~~~~~~~~~---  182 (253)
                      ..+++++|++|+|||++++  +++..+..|+..+.. ...++|+++|+||+|+.+.        .+..+..+.++..   
T Consensus        90 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~  168 (196)
T 3llu_A           90 EMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYK-VNPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLE  168 (196)
T ss_dssp             HHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHH-HCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCT
T ss_pred             ccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHh-cCCCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhh
Confidence            7899999999999999997  566666667666543 3367999999999998763        3334445555552   


Q ss_pred             cCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          183 DWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       183 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ..++++++|||++ .||+++|..+++.+
T Consensus       169 ~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          169 KLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             TSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             cCCcceEEEEech-hhHHHHHHHHHHHh
Confidence            3567899999999 99999999998864

>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=99.95  E-value=6.5e-27  Score=182.74  Aligned_cols=167  Identities=25%  Similarity=0.375  Sum_probs=139.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...++|+|+|++|||||||+++|.+..+...+.++.. +...+.+.+ ++..+.+.+||++|++++...+..+++.++++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~-~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~   81 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGQERYRRITSAYYRGAVGA   81 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEE-TTEEEEEEEEECSSGGGTTCCCHHHHTTCSEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEECCCchhhhhhhHHHHhcCCEE
Confidence            3468999999999999999999999887655555543 566677778 88888999999999999988888899999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ++|||+++..++..+..|+..+........|+++|+||+|+.+. ....+.+..++. ..++.++++|++++.+++++|+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~-~~~~~~~d~Sal~~~~i~~l~~  160 (199)
T 2f9l_A           82 LLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAE-KNNLSFIETSALDSTNVEEAFK  160 (199)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHHHHHHHH-HcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999988888888776655567899999999999764 455666777777 5678899999999999999999


Q ss_pred             HHHHHHHHhcc
Q psy549          205 ELLAQAKVQYN  215 (253)
Q Consensus       205 ~l~~~~~~~~~  215 (253)
                      +|.+.+.....
T Consensus       161 ~l~~~~~~~~~  171 (199)
T 2f9l_A          161 NILTEIYRIVS  171 (199)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999876543

>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=99.95  E-value=1.7e-27  Score=185.11  Aligned_cols=161  Identities=12%  Similarity=0.187  Sum_probs=121.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....++|+|+|++|||||||+++|+++.+.. +.+|.. .....+..   ..+.+.+||+||++++...+..+++.+|++
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~-~~~t~~-~~~~~~~~---~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i  100 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG-FNVETVEY---KNICFTVWDVGGQDKIRPLWRHYFQNTQGL  100 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCSSCCEE-EEEETT-EEEEEEEE---TTEEEEEEECC-----CTTHHHHHHTCCEE
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHhCCccc-cCCcCc-eeEEEEEE---CCEEEEEEECCCCHhHHHHHHHHhccCCEE
Confidence            3567999999999999999999999888753 223332 33344444   337899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~  201 (253)
                      ++|||++++.+|..+..|+..+... ...++|+++|+||+|+.+.....+..+.+...   ..++++++|||++|.|+++
T Consensus       101 ilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~~  180 (192)
T 2b6h_A          101 IFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAMPVSELTDKLGLQHLRSRTWYVQATCATQGTGLYD  180 (192)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCCCHHHHHHHhCcccccCCceEEEECcCCCcCCHHH
Confidence            9999999999999988888877652 23569999999999997653334444443321   2345799999999999999


Q ss_pred             HHHHHHHHHH
Q psy549          202 VFKELLAQAK  211 (253)
Q Consensus       202 l~~~l~~~~~  211 (253)
                      +|++|++.+.
T Consensus       181 l~~~l~~~i~  190 (192)
T 2b6h_A          181 GLDWLSHELS  190 (192)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHh
Confidence            9999998763

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.95  E-value=3.6e-27  Score=186.07  Aligned_cols=161  Identities=18%  Similarity=0.216  Sum_probs=117.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh-hHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA-MRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~-~~~~~~~~~d~~  125 (253)
                      ...++|+|+|++|||||||+++|+++.+...+.++..+...  +.+.+...+.+.+|||||++++.. ++..+++.+|++
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~   82 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSITDSSAI--YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAV   82 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCCSCEEEE--EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccCCcceeeEE--EEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCEE
Confidence            45789999999999999999999999987777665544443  666333357899999999999987 788889999999


Q ss_pred             EEEEECCChh-hHHHHHHHHHHHHHh---cCCCCCEEEEEecCCCCCccccHHHHHHHHHh-------------------
Q psy549          126 VLVYAVDDAS-TWDVVKDLREQIVNK---RGLMVPIVVVGNKCELEFKDVRREIAETIALY-------------------  182 (253)
Q Consensus       126 i~v~d~~~~~-s~~~~~~~~~~~~~~---~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-------------------  182 (253)
                      |+|||+++.. ++.....|+..+...   ...++|+++|+||+|+..........+.+...                   
T Consensus        83 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~~  162 (214)
T 2fh5_B           83 VFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSS  162 (214)
T ss_dssp             EEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC----------
T ss_pred             EEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhccchhccccccCCc
Confidence            9999999854 455555544443332   24568999999999998763333232222210                   


Q ss_pred             -----cC-------------CCcEEEeccCCC------CCHHHHHHHHHHH
Q psy549          183 -----DW-------------QCGFVECSAKEN------YNIVQVFKELLAQ  209 (253)
Q Consensus       183 -----~~-------------~~~~~~~Sa~~~------~~i~~l~~~l~~~  209 (253)
                           ..             .+++++|||++|      .||+++|++|.+.
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          163 TAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             --CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             cccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence                 11             667999999999      9999999999875

>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=99.91  E-value=7.9e-30  Score=199.99  Aligned_cols=162  Identities=23%  Similarity=0.412  Sum_probs=135.3

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....++|+|+|++|||||||+++|+++.+...+.+|+.+.+...+.+ ++..+.+++||+||++++...+..+++++|++
T Consensus        27 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~i  105 (204)
T 3th5_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVF  105 (204)
Confidence            35679999999999999999999999888777777877777777777 77778899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCC-cEEE
Q psy549          126 VLVYAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQC-GFVE  190 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~-~~~~  190 (253)
                      ++|||++++.++..+. .|+..+.... .++|+++|+||+|+...             .+..+.+..++. ..+. ++++
T Consensus       106 ilv~D~~~~~s~~~~~~~~~~~l~~~~-~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-~~~~~~~~~  183 (204)
T 3th5_A          106 LICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAK-EIGAVKYLE  183 (204)
Confidence            9999999999999876 6777666543 37899999999999754             233344555555 3444 8999


Q ss_pred             eccCCCCCHHHHHHHHHHHH
Q psy549          191 CSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      +||++|.|++++|++|++.+
T Consensus       184 vSA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          184 CSALTQRGLKTVFDEAIRAV  203 (204)
Confidence            99999999999999998765

>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=99.95  E-value=2.5e-26  Score=178.41  Aligned_cols=164  Identities=26%  Similarity=0.377  Sum_probs=139.5

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      .....++|+|+|++|||||||+++|.+..+...+.+|.. ++..+.+.+ ++..+.+.+||++|.+++...+..+++.++
T Consensus        25 ~~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~-~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~  103 (191)
T 1oix_A           25 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGLERYRAITSAYYRGAV  103 (191)
T ss_dssp             CCSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEE-TTEEEEEEEEEECSCCSSSCCCHHHHTTCC
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEE-CCEEEEEEEEECCCCcchhhhhHHHhhcCC
Confidence            345578999999999999999999999887665555554 556777888 888888999999999999988888999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      ++++|||+++..+|+.+..|+..+......+.|+++|+||+|+.+. ......+..++. ..++.++++|++++.+++++
T Consensus       104 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~-~~~~~~ld~Sald~~~v~~l  182 (191)
T 1oix_A          104 GALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAE-KNGLSFIETSALDSTNVEAA  182 (191)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHH-HcCCEEEEEeCCCCCCHHHH
Confidence            9999999999999988888887776655567899999999999764 556677788887 56789999999999999999


Q ss_pred             HHHHHHHH
Q psy549          203 FKELLAQA  210 (253)
Q Consensus       203 ~~~l~~~~  210 (253)
                      |++|.+.+
T Consensus       183 ~~~l~~~i  190 (191)
T 1oix_A          183 FQTILTEI  190 (191)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998765

>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=99.95  E-value=1.1e-26  Score=194.89  Aligned_cols=163  Identities=23%  Similarity=0.380  Sum_probs=140.9

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|+|||||+++|.++.+...+.+|+.+.+...+.+ ++..+.+.+||+||++++...+..+++.+|+++
T Consensus       153 ~~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i  231 (332)
T 2wkq_A          153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFL  231 (332)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEEEEEEEE-TTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEE
T ss_pred             cceeEEEEECCCCCChHHHHHHHHhCCCCcccCCcccceeEEEEEE-CCEEEEEEEEeCCCchhhhHHHHHhccCCCEEE
Confidence            3558999999999999999999999998888888888887777777 888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEec
Q psy549          127 LVYAVDDASTWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECS  192 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~S  192 (253)
                      +|||++++.+|..+. .|+..+.... .++|+++|+||+|+...             .+..+.+..++......++++||
T Consensus       232 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  310 (332)
T 2wkq_A          232 ICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  310 (332)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhhC-CCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEec
Confidence            999999999999886 6777776654 47999999999998653             45566777777744334899999


Q ss_pred             cCCCCCHHHHHHHHHHHHH
Q psy549          193 AKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       193 a~~~~~i~~l~~~l~~~~~  211 (253)
                      |++|.|++++|++|++.+.
T Consensus       311 a~~~~gi~~l~~~l~~~~~  329 (332)
T 2wkq_A          311 ALTQRGLKTVFDEAIRAVL  329 (332)
T ss_dssp             TTTCTTHHHHHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHHHHh
Confidence            9999999999999998874

>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=99.95  E-value=2e-27  Score=182.72  Aligned_cols=162  Identities=16%  Similarity=0.204  Sum_probs=123.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+|+|++|||||||+++|.++.+ ..+.+|.. .....+.+ ++  +.+.+||+||++++...+..+++.+|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~-~~~~~~~~-~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   90 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIG-FNVETLSY-KN--LKLNVWDLGGQTSIRPYWRCYYADTAAVI   90 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTT-CCEEEEEE-TT--EEEEEEEEC----CCTTGGGTTTTEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCc-cceEEEEE-CC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            4679999999999999999999998776 33333333 33445555 33  68899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|+|++++.++..+..|+..+.... ..++|+++|+||+|+.+.....+..+.+...   ..+++++++||++|.|++++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  170 (183)
T 1moz_A           91 FVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEG  170 (183)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCCCCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHH
Confidence            9999999999999888888776532 3679999999999997653333333333221   23457999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy549          203 FKELLAQAKVQ  213 (253)
Q Consensus       203 ~~~l~~~~~~~  213 (253)
                      |++|.+.+.+.
T Consensus       171 ~~~l~~~~~~~  181 (183)
T 1moz_A          171 LDWLIDVIKEE  181 (183)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            99999988654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.94  E-value=6.7e-27  Score=180.99  Aligned_cols=162  Identities=20%  Similarity=0.256  Sum_probs=127.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...++|+++|++|||||||+++|.++.+.. +.+|.. .....+.+ +  .+.+.+|||||++++...+..+++.+|+++
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~-~~~~~~~~-~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   94 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVG-VNLETLQY-K--NISFEVWDLGGQTGVRPYWRCYFSDTDAVI   94 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTT-CCEEEEEE-T--TEEEEEEEECCSSSSCCCCSSSSTTCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCc-eEEEEEEE-C--CEEEEEEECCCCHhHHHHHHHHhhcCCEEE
Confidence            467999999999999999999999887753 333333 33444555 3  368899999999999998888999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|+|++++.++..+..|+..+.... ..++|+++|+||+|+.+.....+..+.+...   ..++++++|||+++.|++++
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (189)
T 2x77_A           95 YVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAASEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEG  174 (189)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCCHHHHHHHhChhhccCCceEEEEccCCCccCHHHH
Confidence            9999999999999888887776532 3579999999999997753334444433321   23457999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy549          203 FKELLAQAKVQ  213 (253)
Q Consensus       203 ~~~l~~~~~~~  213 (253)
                      |++|.+.+.+.
T Consensus       175 ~~~l~~~i~~~  185 (189)
T 2x77_A          175 MDWLVERLREQ  185 (189)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhc
Confidence            99999988654

>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=99.94  E-value=1.9e-27  Score=192.92  Aligned_cols=171  Identities=22%  Similarity=0.275  Sum_probs=125.5

Q ss_pred             CCCCCCCCCcceEEEECCC---------CCCHHHHHHHHHh---CCCCCCccccc--eeeeeeeEEc-------------
Q psy549           40 GTGVGLQKDKRRVVVMGGA---------RVGKSSIISQFLY---DRFISRYKETV--EELHRGEYEL-------------   92 (253)
Q Consensus        40 ~~~~~~~~~~~~I~iiG~~---------~~GKSsLi~~l~~---~~~~~~~~~t~--~~~~~~~~~~-------------   92 (253)
                      +.........+||+|+|++         |||||||+++|++   +.+...+.+++  .++....+.+             
T Consensus        10 ~~~~~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~   89 (255)
T 3c5h_A           10 GRENLYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSL   89 (255)
T ss_dssp             -CTTSSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC---
T ss_pred             ccCCCCCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccc
Confidence            3344456678999999999         9999999999999   55655565554  2333333221             


Q ss_pred             CCCcEEEEEEEe-----------------------CCCCCCChhhHHHhcc---------------------cCCEEEEE
Q psy549           93 PDGAQLTLDILD-----------------------TSGAYQFPAMRELSIS---------------------TADAFVLV  128 (253)
Q Consensus        93 ~~~~~~~~~l~D-----------------------~~g~~~~~~~~~~~~~---------------------~~d~~i~v  128 (253)
                      .++..+.++|||                       ++|+++|..++..+++                     ++|++|+|
T Consensus        90 ~~~~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV  169 (255)
T 3c5h_A           90 EDCVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLG  169 (255)
T ss_dssp             ------CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEE
T ss_pred             cCCcEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEE
Confidence            156778999999                       5666666666666666                     79999999


Q ss_pred             EECCCh--hhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          129 YAVDDA--STWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       129 ~d~~~~--~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      ||++++  .+|+.+..|+..+... ...++|+++|+||+|+...... +..+.++....+++++++||++|.|++++|++
T Consensus       170 ~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v-~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~  248 (255)
T 3c5h_A          170 IDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI-RDAHTFALSKKNLQVVETSARSNVNVDLAFST  248 (255)
T ss_dssp             EECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH-HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHH
T ss_pred             EECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHH-HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHH
Confidence            999998  9999999999888764 3467999999999998654222 45566665345789999999999999999999


Q ss_pred             HHHHHH
Q psy549          206 LLAQAK  211 (253)
Q Consensus       206 l~~~~~  211 (253)
                      |++.+.
T Consensus       249 l~~~l~  254 (255)
T 3c5h_A          249 LVQLID  254 (255)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            998763

>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=99.94  E-value=7.9e-27  Score=180.05  Aligned_cols=162  Identities=15%  Similarity=0.276  Sum_probs=117.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC--CCCCCccccce-eeeeeeEEcC--CCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD--RFISRYKETVE-ELHRGEYELP--DGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~--~~~~~~~~t~~-~~~~~~~~~~--~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      .+||+|+|++|||||||+++|.+.  .+...+.+|.. +.....+.+.  ++..+.+.+||++|+++|..++..++++++
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRA   81 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCc
Confidence            489999999999999999999985  34444455543 4333333321  335678999999999999888888999999


Q ss_pred             EEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcccc----HHHHHHHHHhcCCCc----EEEeccC
Q psy549          124 AFVLVYAVDDA-STWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR----REIAETIALYDWQCG----FVECSAK  194 (253)
Q Consensus       124 ~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~----~~~~Sa~  194 (253)
                      ++++|||++++ .+|..+..|+..+.... +++|+++|+||+|+.+....    .+..+.++. ..+++    ++++||+
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~Sa~  159 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKARA-SSSPVILVGTHLDVSDEKQRKACMSKITKELLN-KRGFPAIRDYHFVNAT  159 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHHC-TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTT-CTTSCEEEEEEECCTT
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhhC-CCCcEEEEEECCCcccchhhHHHHHHHHHHHHH-hcCCcchhheEEEecc
Confidence            99999999997 57888899998877653 57899999999998765221    233444544 34565    8999999


Q ss_pred             CCC-CHHHHHHHHHHHHHH
Q psy549          195 ENY-NIVQVFKELLAQAKV  212 (253)
Q Consensus       195 ~~~-~i~~l~~~l~~~~~~  212 (253)
                      ++. ++.++++.+.+.+..
T Consensus       160 ~~~~~~~~l~~~i~~~~~~  178 (184)
T 2zej_A          160 EESDALAKLRKTIINESLN  178 (184)
T ss_dssp             SCCHHHHHHHHHHHHHHHC
T ss_pred             cCchhHHHHHHHHHHHHhc
Confidence            997 999999999887743

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.94  E-value=4.6e-26  Score=191.08  Aligned_cols=161  Identities=14%  Similarity=0.207  Sum_probs=122.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....++|+|+|++|||||||+++|.++.+....+ |. ......+..   ..+.++||||||++.+..++..+++.+|++
T Consensus       162 ~~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~~p-T~-~~~~~~~~~---~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~v  236 (329)
T 3o47_A          162 GKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIP-TI-GFNVETVEY---KNISFTVWDVGGQDKIRPLWRHYFQNTQGL  236 (329)
T ss_dssp             -CCSEEEEEEESTTSSHHHHHHHTCSSCCEEEEE-ET-TEEEEEEEE---TTEEEEEEECC-----CCSHHHHHTTEEEE
T ss_pred             ccCcceEEEECCCCccHHHHHHHHhCCCCCCccc-cc-ceEEEEEec---CcEEEEEEECCCCHhHHHHHHHHhccCCEE
Confidence            3567899999999999999999999988754432 22 222333333   347899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~  201 (253)
                      |+|||++++.+|..+..|+..+... ...++|+++|+||+|+.+.....+....+...   ..++++++|||++|.||++
T Consensus       237 ilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~e  316 (329)
T 3o47_A          237 IFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYE  316 (329)
T ss_dssp             EEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHH
T ss_pred             EEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccCHHHHHHHhchhhhhcCCCEEEEEECCCCcCHHH
Confidence            9999999999999988887776653 33579999999999998765444455544431   2356799999999999999


Q ss_pred             HHHHHHHHHH
Q psy549          202 VFKELLAQAK  211 (253)
Q Consensus       202 l~~~l~~~~~  211 (253)
                      +|++|++.+.
T Consensus       317 l~~~l~~~l~  326 (329)
T 3o47_A          317 GLDWLSNQLR  326 (329)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            9999999874

>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=99.93  E-value=1.6e-25  Score=169.72  Aligned_cols=151  Identities=19%  Similarity=0.261  Sum_probs=111.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh------hhHHHhcc-
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP------AMRELSIS-  120 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~------~~~~~~~~-  120 (253)
                      .++|+++|++|||||||+++|.+..+ ...++.++.+.....+.+ ++  ..+.+|||||++++.      .+...+++ 
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~   79 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEY-NG--EKFKVVDLPGVYSLTANSIDEIIARDYIIN   79 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEE-TT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEE-CC--cEEEEEECCCcccCCCcchhHHHHHHHHhc
Confidence            58999999999999999999998765 344444445555666666 44  578999999998875      33445554 


Q ss_pred             -cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          121 -TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       121 -~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                       ++|++++|+|+++.+   ....|+..+..   .++|+++|+||+|+... .+.. ..+.++. ..+++++++||++|.|
T Consensus        80 ~~~~~~i~v~D~~~~~---~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~-~~~~~~~~~SA~~~~~  151 (165)
T 2wji_A           80 EKPDLVVNIVDATALE---RNLYLTLQLME---MGANLLLALNKMDLAKSLGIEI-DVDKLEK-ILGVKVVPLSAAKKMG  151 (165)
T ss_dssp             HCCSEEEEEEETTCHH---HHHHHHHHHHH---TTCCEEEEEECHHHHHHTTCCC-CHHHHHH-HHTSCEEECBGGGTBS
T ss_pred             CCCCEEEEEecCCchh---HhHHHHHHHHh---cCCCEEEEEEchHhccccChhh-HHHHHHH-HhCCCEEEEEcCCCCC
Confidence             899999999998854   33456666554   46899999999998643 2221 2455555 3457899999999999


Q ss_pred             HHHHHHHHHHHH
Q psy549          199 IVQVFKELLAQA  210 (253)
Q Consensus       199 i~~l~~~l~~~~  210 (253)
                      ++++|+++.+.+
T Consensus       152 v~~l~~~l~~~~  163 (165)
T 2wji_A          152 IEELKKAISIAV  163 (165)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998765

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.93  E-value=2.1e-25  Score=185.44  Aligned_cols=160  Identities=14%  Similarity=0.166  Sum_probs=126.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC-----hhhHHHhcc
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF-----PAMRELSIS  120 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~-----~~~~~~~~~  120 (253)
                      ..+||+++|++|||||||+++|+++.  +......++.......+.+ ++ .+.+.+||+||++.+     ...+..+++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~~~~-~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~   79 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRF-LG-NMTLNLWDCGGQDVFMENYFTKQKDHIFQ   79 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEEEEE-TT-TEEEEEEEECCSHHHHHHHHTTTHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEEEEe-CC-ceEEEEEECCCcHHHhhhhhhhHHHHHhc
Confidence            45899999999999999999999874  3344455555555556665 44 478999999999988     677788899


Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHHh--cCCCCCEEEEEecCCCCCc---c----ccHHHHHHHHHhcC--CCcEE
Q psy549          121 TADAFVLVYAVDDASTWDVVKDLREQIVNK--RGLMVPIVVVGNKCELEFK---D----VRREIAETIALYDW--QCGFV  189 (253)
Q Consensus       121 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~--~~~~~piilv~nK~Dl~~~---~----~~~~~~~~~~~~~~--~~~~~  189 (253)
                      ++|++|+|||++++.+|+.+..|...+...  ..+++|+++|+||+|+...   .    +..+.++.++....  .++++
T Consensus        80 ~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~~  159 (307)
T 3r7w_A           80 MVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGF  159 (307)
T ss_dssp             TCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEEE
T ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEEE
Confidence            999999999999999999988776555442  2467999999999999872   2    44566777777333  38999


Q ss_pred             EeccCCCCCHHHHHHHHHHHH
Q psy549          190 ECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       190 ~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      +|||++ .++.++|..++..+
T Consensus       160 ~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          160 PTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             ECCTTS-SHHHHHHHHHHHTT
T ss_pred             EeeecC-ChHHHHHHHHHHHH
Confidence            999999 88999998887643

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.93  E-value=7e-25  Score=167.64  Aligned_cols=161  Identities=20%  Similarity=0.317  Sum_probs=117.8

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccc-cceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKE-TVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~-t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      .....++|+|+|++|||||||+++|.+..+...+.+ ++.+.....+.+ ++  ..+.+|||||++++...+..++..+|
T Consensus         4 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d   80 (178)
T 2lkc_A            4 MVERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTV-ND--KKITFLDTPGHEAFTTMRARGAQVTD   80 (178)
T ss_dssp             TCCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEE-TT--EEEEESCCCSSSSSSCSCCSSCCCCC
T ss_pred             cCCCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEe-CC--ceEEEEECCCCHHHHHHHHHHHhhCC
Confidence            355779999999999999999999999887554433 334555566666 54  35789999999999988888899999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhc-----C--CCcEEEeccCCC
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYD-----W--QCGFVECSAKEN  196 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~-----~--~~~~~~~Sa~~~  196 (253)
                      ++++|+|++++....... ++   ......++|+++|+||+|+.... ..+....+....     +  .++++++||++|
T Consensus        81 ~~i~v~d~~~~~~~~~~~-~l---~~~~~~~~p~ilv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  155 (178)
T 2lkc_A           81 IVILVVAADDGVMPQTVE-AI---NHAKAANVPIIVAINKMDKPEAN-PDRVMQELMEYNLVPEEWGGDTIFCKLSAKTK  155 (178)
T ss_dssp             EEEEEEETTCCCCHHHHH-HH---HHHGGGSCCEEEEEETTTSSCSC-HHHHHHHHTTTTCCBTTTTSSEEEEECCSSSS
T ss_pred             EEEEEEECCCCCcHHHHH-HH---HHHHhCCCCEEEEEECccCCcCC-HHHHHHHHHhcCcChhHcCCcccEEEEecCCC
Confidence            999999998843322222 11   22222568999999999997631 122223332211     1  258999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy549          197 YNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       197 ~~i~~l~~~l~~~~~~~  213 (253)
                      .|++++|++|++.+...
T Consensus       156 ~gv~~l~~~l~~~~~~~  172 (178)
T 2lkc_A          156 EGLDHLLEMILLVSEME  172 (178)
T ss_dssp             HHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHhhhhh
Confidence            99999999999988654

>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=99.93  E-value=1.6e-24  Score=172.69  Aligned_cols=164  Identities=16%  Similarity=0.128  Sum_probs=114.8

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCC-CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCC------CC---hhhH
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVEELHRGEYELPDGAQLTLDILDTSGAY------QF---PAMR  115 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~------~~---~~~~  115 (253)
                      ....++|+|+|++|||||||+++|++..+. .....++.......+.. ++  +.+.+|||||+.      ..   ....
T Consensus        26 ~~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~  102 (228)
T 2qu8_A           26 NPHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDH-KL--NKYQIIDTPGLLDRAFENRNTIEMTTI  102 (228)
T ss_dssp             CTTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEE-TT--EEEEEEECTTTTTSCGGGCCHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeec-CC--CeEEEEECCCCcCcccchhhhHHHHHH
Confidence            456799999999999999999999998763 33344444555555544 32  678999999983      31   1122


Q ss_pred             HHhcccCCEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHH---HHHHHHHhcCC--Cc
Q psy549          116 ELSISTADAFVLVYAVDDASTWDV--VKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRRE---IAETIALYDWQ--CG  187 (253)
Q Consensus       116 ~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~---~~~~~~~~~~~--~~  187 (253)
                      ..++..+|++|+|||++++.+|..  ...|+..+... ..++|+++|+||+|+... .+...   ....+.. ..+  ++
T Consensus       103 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~  180 (228)
T 2qu8_A          103 TALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSV-FSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILD-NVKNPIK  180 (228)
T ss_dssp             HHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTC-C-CCCEEEEEECGGGCC--CCCHHHHHHHHHHHH-HCCSCEE
T ss_pred             HHhhccccEEEEEEecccccCcchHHHHHHHHHHHHh-hcCCcEEEEEeCcccCCchhhHHHHHHHHHHHHH-hcCCCce
Confidence            345778899999999999887652  22344444332 247999999999999765 33333   3445554 334  78


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHHHHhc
Q psy549          188 FVECSAKENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       188 ~~~~Sa~~~~~i~~l~~~l~~~~~~~~  214 (253)
                      +++|||++|.||+++|++|++.+....
T Consensus       181 ~~~~SA~~g~gi~~l~~~l~~~i~~~~  207 (228)
T 2qu8_A          181 FSSFSTLTGVGVEQAKITACELLKNDQ  207 (228)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EEEEecccCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999887654

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.93  E-value=1.6e-25  Score=170.92  Aligned_cols=153  Identities=19%  Similarity=0.256  Sum_probs=117.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH--------HH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR--------EL  117 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~--------~~  117 (253)
                      ..++|+|+|++|||||||+++|.+...  ...++.++.+.....+.+ ++.  .+.+|||||++++....        ..
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~-~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~   79 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHI-DGM--PLHIIDTAGLREASDEVERIGIERAWQ   79 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEE-TTE--EEEEEECCCCSCCSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEE-CCe--EEEEEECCCcccchhHHHHHHHHHHHH
Confidence            458999999999999999999998764  455667777777788887 553  57899999987643211        23


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      +++.+|++++|+|++++.++.. ..|+..+......++|+++|+||+|+......      ++. ..+.++++|||++|.
T Consensus        80 ~~~~ad~~i~v~D~~~~~s~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~------~~~-~~~~~~~~~SA~~g~  151 (172)
T 2gj8_A           80 EIEQADRVLFMVDGTTTDAVDP-AEIWPEFIARLPAKLPITVVRNKADITGETLG------MSE-VNGHALIRLSARTGE  151 (172)
T ss_dssp             HHHTCSEEEEEEETTTCCCCSH-HHHCHHHHHHSCTTCCEEEEEECHHHHCCCCE------EEE-ETTEEEEECCTTTCT
T ss_pred             HHHhCCEEEEEEECCCCCCHHH-HHHHHHHHHhcccCCCEEEEEECccCCcchhh------hhh-ccCCceEEEeCCCCC
Confidence            5789999999999999888763 56777776665567999999999998543110      111 245689999999999


Q ss_pred             CHHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQAK  211 (253)
Q Consensus       198 ~i~~l~~~l~~~~~  211 (253)
                      |++++|++|.+.+.
T Consensus       152 gv~~l~~~l~~~~~  165 (172)
T 2gj8_A          152 GVDVLRNHLKQSMG  165 (172)
T ss_dssp             THHHHHHHHHHHC-
T ss_pred             CHHHHHHHHHHHhh
Confidence            99999999988764

>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=99.92  E-value=4.2e-24  Score=177.63  Aligned_cols=164  Identities=20%  Similarity=0.185  Sum_probs=131.0

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh---------
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP---------  112 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~---------  112 (253)
                      ++..+.-.|+|+|.+|||||||+|+|++..+  ....+.++.......+.. + ..+.+.||||||+..+.         
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~-~-~~~~i~lvDTPG~~~~~~~~~l~~~~   82 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNI-P-NEAQIIFLDTPGIYEPKKSDVLGHSM   82 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE-T-TTEEEEEEECCCCCCCCTTCHHHHHH
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEec-C-CCCeEEEEECcCCCccccchhHHHHH
Confidence            3455678999999999999999999999886  456667777776666666 3 13578999999987654         


Q ss_pred             -hhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCC-CccccHHHHHHHHHhc-CCCcEE
Q psy549          113 -AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE-FKDVRREIAETIALYD-WQCGFV  189 (253)
Q Consensus       113 -~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~-~~~~~~  189 (253)
                       .....+++.+|++++|+|++++.++.....|+..+..   .++|+++|+||+|+. +........+.+.... ...+++
T Consensus        83 ~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~---~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~  159 (308)
T 3iev_A           83 VEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKP---LNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIV  159 (308)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGG---GCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEE
T ss_pred             HHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHh---cCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEE
Confidence             4555678899999999999998888877766766655   458999999999998 5566677777777744 457899


Q ss_pred             EeccCCCCCHHHHHHHHHHHHHH
Q psy549          190 ECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       190 ~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      ++||++|.|++++|+++.+.+..
T Consensus       160 ~vSA~~g~gv~~L~~~l~~~l~~  182 (308)
T 3iev_A          160 PISALKGANLDELVKTILKYLPE  182 (308)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHSCB
T ss_pred             EEeCCCCCCHHHHHHHHHHhCcc
Confidence            99999999999999999988743

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.91  E-value=5.4e-25  Score=181.94  Aligned_cols=154  Identities=18%  Similarity=0.199  Sum_probs=112.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCC---CccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh---hHHHhcccCCE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFIS---RYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA---MRELSISTADA  124 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~---~~~~~~~~~d~  124 (253)
                      ||+++|+.|||||||++++.++.++.   .+.+|....+. .  + + ..+++++|||+|+++|..   .+..+++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~-~--v-~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLE-H--F-S-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCE-E--E-C-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeE-E--E-c-cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            68999999999999999888664432   13334332221 1  2 2 237899999999999964   46889999999


Q ss_pred             EEEEEECCChhhHHHHHH---HHHHHHHhcCCCCCEEEEEecCCCCCc--------cccHHHHHHHHHhc---CCCcEEE
Q psy549          125 FVLVYAVDDASTWDVVKD---LREQIVNKRGLMVPIVVVGNKCELEFK--------DVRREIAETIALYD---WQCGFVE  190 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~---~~~~~~~~~~~~~piilv~nK~Dl~~~--------~~~~~~~~~~~~~~---~~~~~~~  190 (253)
                      +|+|||+++. .+.....   |+..+.. ..+++|+++|+||+|+...        ++..+.++.+++..   .++++++
T Consensus        76 ~IlV~Ditd~-~~~~~~~l~~~l~~~~~-~~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~e  153 (331)
T 3r7w_B           76 LVYVIDSQDE-YINAITNLAMIIEYAYK-VNPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYL  153 (331)
T ss_dssp             EEEECCCSSC-TTHHHHHHHHHHHHHHH-HCTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEEC
T ss_pred             EEEEEECCch-HHHHHHHHHHHHHHHhh-cCCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEE
Confidence            9999999998 3333333   3333333 3468999999999999764        34555666677632   5789999


Q ss_pred             eccCCCCCHHHHHHHHHHHHHH
Q psy549          191 CSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      |||++ .+|.++|..+++.+..
T Consensus       154 TSAkd-~nV~eAFs~iv~~li~  174 (331)
T 3r7w_B          154 TSIFD-HSIYEAFSRIVQKLIP  174 (331)
T ss_dssp             CCSSS-SHHHHHHHHHHTTSST
T ss_pred             eccCC-CcHHHHHHHHHHHHHh
Confidence            99998 5899999999876543

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.91  E-value=3.1e-24  Score=165.65  Aligned_cols=156  Identities=19%  Similarity=0.236  Sum_probs=117.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh------hhHHHhcc
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP------AMRELSIS  120 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~------~~~~~~~~  120 (253)
                      ..++|+|+|++|||||||+++|++..+ ...++.++.+.....+.+ ++  +.+.+|||||++.+.      .+...++.
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   82 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEY-NG--EKFKVVDLPGVYSLTANSIDEIIARDYII   82 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEE-TT--EEEEEEECCCCSCCSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEe-CC--cEEEEEECCCcCccccccHHHHHHHHHHh
Confidence            568999999999999999999998664 333444455666666666 43  678999999999874      34455554


Q ss_pred             --cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          121 --TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       121 --~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                        .+|++++|+|.++   +.....|+..+..   .++|+++|+||+|+..........+.++. ..+++++++||+++.|
T Consensus        83 ~~~~~~~i~v~d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~  155 (188)
T 2wjg_A           83 NEKPDLVVNIVDATA---LERNLYLTLQLME---MGANLLLALNKMDLAKSLGIEIDVDKLEK-ILGVKVVPLSAAKKMG  155 (188)
T ss_dssp             HHCCSEEEEEEEGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTTCCCCHHHHHH-HHTSCEEECBGGGTBS
T ss_pred             ccCCCEEEEEecchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhccccccchHHHHHHHH-HhCCCeEEEEecCCCC
Confidence              4999999999875   4555667766554   56899999999998654211133455655 4467999999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy549          199 IVQVFKELLAQAKVQ  213 (253)
Q Consensus       199 i~~l~~~l~~~~~~~  213 (253)
                      ++++|+++++.+...
T Consensus       156 v~~l~~~i~~~~~~~  170 (188)
T 2wjg_A          156 IEELKKAISIAVKDK  170 (188)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999988543

>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=99.91  E-value=2.9e-24  Score=166.71  Aligned_cols=157  Identities=18%  Similarity=0.231  Sum_probs=107.4

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCC----------CCCChhh
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSG----------AYQFPAM  114 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g----------~~~~~~~  114 (253)
                      ....++|+|+|++|||||||+++|++..+...+..+.. ......+.+ ++   .+.+|||||          ++.+..+
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~-~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~   95 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYII-ND---ELHFVDVPGYGFAKVSKSEREAWGRM   95 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEE-TT---TEEEEECCCBCCCSSCHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEE-CC---cEEEEECCCCCccccCHHHHHHHHHH
Confidence            34679999999999999999999999875433333322 111222333 33   578999999          5566667


Q ss_pred             HHHhcccC---CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCcE
Q psy549          115 RELSISTA---DAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCGF  188 (253)
Q Consensus       115 ~~~~~~~~---d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~  188 (253)
                      +..+++.+   |++++|+|++++.++.... ++..+..   .++|+++|+||+|+..........+.+..   .....++
T Consensus        96 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  171 (195)
T 1svi_A           96 IETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDEL  171 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEE
T ss_pred             HHHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCce
Confidence            77777777   9999999999987776532 2222222   56899999999999875333222222222   1456799


Q ss_pred             EEeccCCCCCHHHHHHHHHHHH
Q psy549          189 VECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       189 ~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      +++||++|.|++++|++|.+.+
T Consensus       172 ~~~Sa~~~~gv~~l~~~l~~~l  193 (195)
T 1svi_A          172 ILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHH
T ss_pred             EEEEccCCCCHHHHHHHHHHHh
Confidence            9999999999999999998876

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.91  E-value=2.2e-24  Score=162.13  Aligned_cols=150  Identities=15%  Similarity=0.184  Sum_probs=106.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC-------hhhHHHhcc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF-------PAMRELSIS  120 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~-------~~~~~~~~~  120 (253)
                      ++|+++|++|+|||||+++|.+..+  ....+.++.+.....+.. ++  ..+.+||+||...+       ...+..+++
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   78 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVET-DR--GRFLLVDTGGLWSGDKWEKKIQEKVDRALE   78 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEE-TT--EEEEEEECGGGCSSSSCCHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEe-CC--ceEEEEECCCCCCccchHHHHHHHHHHHHH
Confidence            6899999999999999999999874  345555566666667776 44  36889999998873       445566789


Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       121 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      .+|++++|+|++++.+...  .++..+...  .++|+++|+||+|+....   +....+.. ....+++++||++|.|++
T Consensus        79 ~~~~~i~v~d~~~~~~~~~--~~~~~~~~~--~~~p~ilv~nK~Dl~~~~---~~~~~~~~-~~~~~~~~~Sa~~~~gv~  150 (161)
T 2dyk_A           79 DAEVVLFAVDGRAELTQAD--YEVAEYLRR--KGKPVILVATKVDDPKHE---LYLGPLYG-LGFGDPIPTSSEHARGLE  150 (161)
T ss_dssp             TCSEEEEEEESSSCCCHHH--HHHHHHHHH--HTCCEEEEEECCCSGGGG---GGCGGGGG-GSSCSCEECBTTTTBSHH
T ss_pred             hCCEEEEEEECCCcccHhH--HHHHHHHHh--cCCCEEEEEECcccccch---HhHHHHHh-CCCCCeEEEecccCCChH
Confidence            9999999999998654332  222222222  458999999999987652   22233332 222379999999999999


Q ss_pred             HHHHHHHHHH
Q psy549          201 QVFKELLAQA  210 (253)
Q Consensus       201 ~l~~~l~~~~  210 (253)
                      ++|+++++.+
T Consensus       151 ~l~~~l~~~l  160 (161)
T 2dyk_A          151 ELLEAIWERL  160 (161)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhC
Confidence            9999998764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.91  E-value=1.6e-23  Score=162.28  Aligned_cols=155  Identities=14%  Similarity=0.115  Sum_probs=108.3

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCC----------CCCChhh
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSG----------AYQFPAM  114 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g----------~~~~~~~  114 (253)
                      ....++|+|+|++|||||||+++|++..+.. ...+.. ......... +.   .+.+|||||          ++.+..+
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~t~~~~~~~~-~~---~~~i~Dt~G~~~~~~~~~~~~~~~~~   94 (195)
T 3pqc_A           20 PPLKGEVAFVGRSNVGKSSLLNALFNRKIAF-VSKTPGKTRSINFYLV-NS---KYYFVDLPGYGYAKVSKKERMLWKRL   94 (195)
T ss_dssp             CCTTCEEEEEEBTTSSHHHHHHHHHTSCCSC-CCSSCCCCCCEEEEEE-TT---TEEEEECCCBSSSCCCHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHcCcccc-ccCCCCCccCeEEEEE-CC---cEEEEECCCCccccCChhhHHHHHHH
Confidence            4567899999999999999999999987422 112222 111112222 32   467999999          5556677


Q ss_pred             HHHhcccC---CEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCCEEEEEecCCCCCcc---ccHHHHHHHHHhcCCC
Q psy549          115 RELSISTA---DAFVLVYAVDDASTWDV--VKDLREQIVNKRGLMVPIVVVGNKCELEFKD---VRREIAETIALYDWQC  186 (253)
Q Consensus       115 ~~~~~~~~---d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~  186 (253)
                      +..+++.+   |++++|+|+++..+...  +..|+..      .++|+++|+||+|+.+..   ...+....+......+
T Consensus        95 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~------~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  168 (195)
T 3pqc_A           95 VEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKS------LNIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGEY  168 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH------TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCCS
T ss_pred             HHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHH------cCCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCCC
Confidence            77777766   99999999987644332  2333322      258999999999997652   2233344444433567


Q ss_pred             cEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          187 GFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       187 ~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      +++++||++|.|++++|++|.+.+.
T Consensus       169 ~~~~~Sa~~~~gv~~l~~~l~~~l~  193 (195)
T 3pqc_A          169 TIIPTSSVTGEGISELLDLISTLLK  193 (195)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             ceEEEecCCCCCHHHHHHHHHHHhh
Confidence            9999999999999999999998874

>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=99.91  E-value=2.7e-24  Score=166.07  Aligned_cols=156  Identities=20%  Similarity=0.156  Sum_probs=112.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCC-----------CCCChhhHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSG-----------AYQFPAMRELS  118 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g-----------~~~~~~~~~~~  118 (253)
                      ++|+|+|++|||||||+++|.+..+...+.+++ ......+.+ +    .+.+|||||           ++.+...+..+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~-t~~~~~~~~-~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~   75 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGV-TRKIIEIEW-K----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   75 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTC-TTSCEEEEE-T----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCc-cceeEEEec-C----CEEEEECCCccccccCCHHHHHHHHHHHHHH
Confidence            689999999999999999999988754433322 222233333 2    578999999           45566677777


Q ss_pred             ccc-CCEEEEEEECCChhhHHHH-HHHHHH--------H-HHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCC--
Q psy549          119 IST-ADAFVLVYAVDDASTWDVV-KDLREQ--------I-VNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQ--  185 (253)
Q Consensus       119 ~~~-~d~~i~v~d~~~~~s~~~~-~~~~~~--------~-~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~--  185 (253)
                      ++. ++++++|+++.+..++..+ ..|...        + ......++|+++|+||+|+....  .+..+.++.....  
T Consensus        76 ~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~  153 (190)
T 2cxx_A           76 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV--QEVINFLAEKFEVPL  153 (190)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH--HHHHHHHHHHHTCCG
T ss_pred             HHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH--HHHHHHHHHHhhhhh
Confidence            776 7877777777777788775 556542        1 22223579999999999997654  4455556552221  


Q ss_pred             ----CcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          186 ----CGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       186 ----~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                          .++++|||++|.|++++|++|++.+.+.
T Consensus       154 ~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~  185 (190)
T 2cxx_A          154 SEIDKVFIPISAKFGDNIERLKNRIFEVIRER  185 (190)
T ss_dssp             GGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             hccCCcEEEEecCCCCCHHHHHHHHHHhcchh
Confidence                2579999999999999999999988654

>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=99.90  E-value=1.2e-23  Score=170.53  Aligned_cols=154  Identities=15%  Similarity=0.195  Sum_probs=115.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh------hHHHhc-
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA------MRELSI-  119 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~------~~~~~~-  119 (253)
                      ..++|+++|++|||||||+|+|++..+ ...++.++.+.....+.. ++  +.+.+||+||...+..      ....++ 
T Consensus         4 ~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~-~~--~~~~l~DtpG~~~~~~~~~~e~v~~~~~~   80 (258)
T 3a1s_A            4 HMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTY-KG--YTINLIDLPGTYSLGYSSIDEKIARDYLL   80 (258)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEE-TT--EEEEEEECCCCSSCCSSSHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEE-CC--eEEEEEECCCcCccCCCCHHHHHHHHHHh
Confidence            468999999999999999999998765 444555565666666655 33  6889999999988764      224444 


Q ss_pred             -ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          120 -STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       120 -~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                       ..+|++++|+|+++.++.   ..|...+..   .++|+++|+||+|+..........+.++. ..+++++++||++|.|
T Consensus        81 ~~~~d~ii~V~D~t~~~~~---~~~~~~l~~---~~~pvilv~NK~Dl~~~~~i~~~~~~l~~-~lg~~vi~~SA~~g~g  153 (258)
T 3a1s_A           81 KGDADLVILVADSVNPEQS---LYLLLEILE---MEKKVILAMTAIDEAKKTGMKIDRYELQK-HLGIPVVFTSSVTGEG  153 (258)
T ss_dssp             HSCCSEEEEEEETTSCHHH---HHHHHHHHT---TTCCEEEEEECHHHHHHTTCCBCHHHHHH-HHCSCEEECCTTTCTT
T ss_pred             hcCCCEEEEEeCCCchhhH---HHHHHHHHh---cCCCEEEEEECcCCCCccchHHHHHHHHH-HcCCCEEEEEeeCCcC
Confidence             589999999999986543   335544443   46899999999998654211123455665 4568999999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy549          199 IVQVFKELLAQAK  211 (253)
Q Consensus       199 i~~l~~~l~~~~~  211 (253)
                      ++++|+++.+.+.
T Consensus       154 i~el~~~i~~~~~  166 (258)
T 3a1s_A          154 LEELKEKIVEYAQ  166 (258)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999998775

>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=99.90  E-value=3.4e-24  Score=173.60  Aligned_cols=150  Identities=18%  Similarity=0.232  Sum_probs=114.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh----------hHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA----------MRELS  118 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----------~~~~~  118 (253)
                      .+|+++|++|||||||+|+|++... +...+.++.+.....+.+ ++.  .+.+|||||...+..          ....+
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~-~~~--~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~   78 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLL-GEH--LIEITDLPGVYSLVANAEGISQDEQIAAQS   78 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEE-TTE--EEEEEECCCCSSCC------CHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEE-CCe--EEEEEeCCCcccccccccCCCHHHHHHHHH
Confidence            5899999999999999999998764 455666777777778877 443  789999999988764          34445


Q ss_pred             c--ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          119 I--STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       119 ~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      +  +.+|++|+|+|+++.+.+..+..++      ...++|+++|+||+|+............+.. ..+++++++||++|
T Consensus        79 ~~~~~~d~vi~VvDas~~~~~~~l~~~l------~~~~~pvilv~NK~Dl~~~~~~~~~~~~l~~-~lg~~vi~~SA~~g  151 (256)
T 3iby_A           79 VIDLEYDCIINVIDACHLERHLYLTSQL------FELGKPVVVALNMMDIAEHRGISIDTEKLES-LLGCSVIPIQAHKN  151 (256)
T ss_dssp             HHHSCCSEEEEEEEGGGHHHHHHHHHHH------TTSCSCEEEEEECHHHHHHTTCEECHHHHHH-HHCSCEEECBGGGT
T ss_pred             HhhCCCCEEEEEeeCCCchhHHHHHHHH------HHcCCCEEEEEEChhcCCcCCcHHHHHHHHH-HcCCCEEEEECCCC
Confidence            5  8899999999999865544333222      2246899999999998654222222344555 45789999999999


Q ss_pred             CCHHHHHHHHHHH
Q psy549          197 YNIVQVFKELLAQ  209 (253)
Q Consensus       197 ~~i~~l~~~l~~~  209 (253)
                      .|++++|+++.+.
T Consensus       152 ~gi~el~~~i~~~  164 (256)
T 3iby_A          152 IGIPALQQSLLHC  164 (256)
T ss_dssp             BSHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHhh
Confidence            9999999999875

>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=99.90  E-value=9.8e-24  Score=172.13  Aligned_cols=152  Identities=16%  Similarity=0.201  Sum_probs=112.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC-CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh------hhHHHhcc-
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR-FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP------AMRELSIS-  120 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~------~~~~~~~~-  120 (253)
                      .++|+++|++|||||||+|+|++.. ++..+++++.+.....+   +. .+.+.+|||||++.+.      .....++. 
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~~~~~~---~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~   78 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVERKSGLV---KK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLS   78 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSCEEEEC---TT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEEEEEEE---ec-CCeEEEEECCCcCccCCCChHHHHHHHHHhc
Confidence            5799999999999999999999865 45666655554433333   32 4578999999999875      34455565 


Q ss_pred             -cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          121 -TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       121 -~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                       .+|++++|+|+++.+.+   ..|...+..   .++|+++|+||+|+............++. ..+++++++||++|.|+
T Consensus        79 ~~~d~vi~V~D~t~~e~~---~~~~~~l~~---~~~p~ilv~NK~Dl~~~~~~~~~~~~l~~-~lg~~vi~~SA~~g~gi  151 (272)
T 3b1v_A           79 QRADSILNVVDATNLERN---LYLTTQLIE---TGIPVTIALNMIDVLDGQGKKINVDKLSY-HLGVPVVATSALKQTGV  151 (272)
T ss_dssp             TCCSEEEEEEEGGGHHHH---HHHHHHHHH---TCSCEEEEEECHHHHHHTTCCCCHHHHHH-HHTSCEEECBTTTTBSH
T ss_pred             CCCCEEEEEecCCchHhH---HHHHHHHHh---cCCCEEEEEEChhhCCcCCcHHHHHHHHH-HcCCCEEEEEccCCCCH
Confidence             69999999999886543   445555544   56899999999998654211123455655 45689999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy549          200 VQVFKELLAQAK  211 (253)
Q Consensus       200 ~~l~~~l~~~~~  211 (253)
                      +++|+++++.+.
T Consensus       152 ~el~~~i~~~~~  163 (272)
T 3b1v_A          152 DQVVKKAAHTTT  163 (272)
T ss_dssp             HHHHHHHHHSCT
T ss_pred             HHHHHHHHHHHh
Confidence            999999988653

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.90  E-value=6.8e-23  Score=169.58  Aligned_cols=156  Identities=21%  Similarity=0.187  Sum_probs=113.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC--------hhhHH
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF--------PAMRE  116 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~--------~~~~~  116 (253)
                      ....+|+|+|.+|||||||+|+|++..+  ....+.|+.+.....+.. +  ...+.||||||..+.        .....
T Consensus         5 ~~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~-~--~~~l~l~DTpG~~~~~~~l~~~~~~~~~   81 (301)
T 1wf3_A            5 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTE-G--RRQIVFVDTPGLHKPMDALGEFMDQEVY   81 (301)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE-T--TEEEEEEECCCCCCCCSHHHHHHHHHHH
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEe-C--CcEEEEecCccccchhhHHHHHHHHHHH
Confidence            3456899999999999999999999876  345556666655555544 3  367899999998873        44555


Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc-cHHHHHHHHHhcCCCcEEEeccCC
Q psy549          117 LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-RREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       117 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      .+++.+|++++|+|++++.+..  ..|+.........++|+++|+||+|+..... ..+..+.+   ....+++++||++
T Consensus        82 ~~l~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~---~~~~~~~~iSA~~  156 (301)
T 1wf3_A           82 EALADVNAVVWVVDLRHPPTPE--DELVARALKPLVGKVPILLVGNKLDAAKYPEEAMKAYHEL---LPEAEPRMLSALD  156 (301)
T ss_dssp             HHTSSCSEEEEEEETTSCCCHH--HHHHHHHHGGGTTTSCEEEEEECGGGCSSHHHHHHHHHHT---STTSEEEECCTTC
T ss_pred             HHHhcCCEEEEEEECCCCCChH--HHHHHHHHHhhcCCCCEEEEEECcccCCchHHHHHHHHHh---cCcCcEEEEeCCC
Confidence            6789999999999999875543  3444322222224689999999999875422 12222222   2345789999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQA  210 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~  210 (253)
                      |.|++++|+++.+.+
T Consensus       157 g~gv~~l~~~l~~~l  171 (301)
T 1wf3_A          157 ERQVAELKADLLALM  171 (301)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHHhc
Confidence            999999999998765

>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=99.89  E-value=1.4e-23  Score=171.71  Aligned_cols=154  Identities=15%  Similarity=0.217  Sum_probs=114.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh----------hHH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA----------MRE  116 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----------~~~  116 (253)
                      ..++|+|+|++|||||||+|+|++..+ +...+.++.+.....+.+ ++.  .+.+|||||...+..          ...
T Consensus         2 ~~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~-~~~--~~~liDtpG~~~~~~~~~~~~~~e~i~~   78 (274)
T 3i8s_A            2 KKLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFST-TDH--QVTLVDLPGTYSLTTISSQTSLDEQIAC   78 (274)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEEC-SSC--EEEEEECCCCSCSCC----CCHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEe-CCC--ceEEEECcCCCccccccccCCHHHHHHH
Confidence            358999999999999999999998775 445556666777777777 443  578999999988762          122


Q ss_pred             Hh--cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccC
Q psy549          117 LS--ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       117 ~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      .+  .+.+|++|+|+|+++.+....   |...+...   ++|+++|+||+|+..........+.+.. ..+++++++||+
T Consensus        79 ~~~~~~~~d~ii~VvD~~~~~~~~~---~~~~l~~~---~~p~ivv~NK~Dl~~~~~~~~~~~~l~~-~lg~~~i~~SA~  151 (274)
T 3i8s_A           79 HYILSGDADLLINVVDASNLERNLY---LTLQLLEL---GIPCIVALNMLDIAEKQNIRIEIDALSA-RLGCPVIPLVST  151 (274)
T ss_dssp             HHHHHTCCSEEEEEEEGGGHHHHHH---HHHHHHHH---TCCEEEEEECHHHHHHTTEEECHHHHHH-HHTSCEEECCCG
T ss_pred             HHHhhcCCCEEEEEecCCChHHHHH---HHHHHHhc---CCCEEEEEECccchhhhhHHHHHHHHHH-hcCCCEEEEEcC
Confidence            22  368999999999998654433   33333332   5899999999998654222222345555 456899999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q psy549          195 ENYNIVQVFKELLAQAK  211 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~~  211 (253)
                      +|.|++++|+++.+.+.
T Consensus       152 ~g~gi~el~~~i~~~~~  168 (274)
T 3i8s_A          152 RGRGIEALKLAIDRYKA  168 (274)
T ss_dssp             GGHHHHHHHHHHHTCCC
T ss_pred             CCCCHHHHHHHHHHHHh
Confidence            99999999999887663

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.89  E-value=5.9e-23  Score=162.82  Aligned_cols=162  Identities=14%  Similarity=0.115  Sum_probs=112.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC---CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC----------Ch
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR---FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ----------FP  112 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~---~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~----------~~  112 (253)
                      ....++|+|+|.+|+|||||+++|++..   .....+.++.......+..  .....+.||||||...          +.
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~~l~DtpG~~~~~~~~~~~~~~~  103 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGP--AAEPVAHLVDLPGYGYAEVPGAAKAHWE  103 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESC--TTSCSEEEEECCCCCSSCCCSTHHHHHH
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecC--CCCCcEEEEcCCCCCcccCChhhHHHHH
Confidence            3457899999999999999999999986   3444444544443333331  2235789999999543          34


Q ss_pred             hhHHHhccc---CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc----cHHHHHHHHHh---
Q psy549          113 AMRELSIST---ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV----RREIAETIALY---  182 (253)
Q Consensus       113 ~~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~~~~~~~~---  182 (253)
                      .+...+++.   +|++++|+|+++..+... ..|+..+..   .++|+++|+||+|+.....    .....+.+...   
T Consensus       104 ~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~-~~~~~~l~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~  179 (223)
T 4dhe_A          104 QLLSSYLQTRPQLCGMILMMDARRPLTELD-RRMIEWFAP---TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDA  179 (223)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHGG---GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcCcCEEEEEEeCCCCCCHHH-HHHHHHHHh---cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhc
Confidence            555556665   788999999987644222 334443333   5689999999999976522    22223334432   


Q ss_pred             --cCCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          183 --DWQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       183 --~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                        ....+++++||++|.|++++|++|.+.+...
T Consensus       180 ~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          180 GYAGKLTVQLFSALKRTGLDDAHALIESWLRPA  212 (223)
T ss_dssp             TCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC--
T ss_pred             ccCCCCeEEEeecCCCcCHHHHHHHHHHhcCcc
Confidence              3678899999999999999999999988443

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.89  E-value=2.3e-23  Score=185.64  Aligned_cols=163  Identities=15%  Similarity=0.146  Sum_probs=117.3

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeee-------eEEcC-CCcEEEEEEEeCCCCCCChhhHHH
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRG-------EYELP-DGAQLTLDILDTSGAYQFPAMREL  117 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~-------~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~  117 (253)
                      ....+||+++|.+|||||||+++|.+..+...+.+|....+..       .+.+. ++..+.+.+||+||++.+......
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~  117 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQF  117 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHH
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHH
Confidence            3567999999999999999999999988876666665533221       22221 234578999999999999999999


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      +++.+|++|+|||+++.   +.+..|+..+.... .++|+++|+||+|+... .+..+..+.+.. ..+.+++++||++|
T Consensus       118 ~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~-~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~-~~~~~~~~vSA~~g  192 (535)
T 3dpu_A          118 FMTRSSVYMLLLDSRTD---SNKHYWLRHIEKYG-GKSPVIVVMNKIDENPSYNIEQKKINERFP-AIENRFHRISCKNG  192 (535)
T ss_dssp             HHHSSEEEEEEECGGGG---GGHHHHHHHHHHHS-SSCCEEEEECCTTTCTTCCCCHHHHHHHCG-GGTTCEEECCC---
T ss_pred             HccCCcEEEEEEeCCCc---hhHHHHHHHHHHhC-CCCCEEEEEECCCcccccccCHHHHHHHHH-hcCCceEEEecCcc
Confidence            99999999999998765   45577888777754 46899999999999765 455666666665 55678999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy549          197 YNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       197 ~~i~~l~~~l~~~~~~~  213 (253)
                      .|++++|+++.+.+...
T Consensus       193 ~gi~eL~~~l~~~~~~~  209 (535)
T 3dpu_A          193 DGVESIAKSLKSAVLHP  209 (535)
T ss_dssp             --CTTHHHHHHHHHTCT
T ss_pred             cCHHHHHHHHHHHHhcc
Confidence            99999999999988553

>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=99.89  E-value=8e-23  Score=178.58  Aligned_cols=156  Identities=17%  Similarity=0.180  Sum_probs=99.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHH--------H
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRE--------L  117 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~--------~  117 (253)
                      ..++|+|+|.+|||||||+|+|++..  ++..++.|+.+.....+.+ ++  +.+.+|||||..++...+.        .
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~-~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~  308 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIH-DK--TMFRLTDTAGLREAGEEIEHEGIRRSRM  308 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC------------------CEEEEE-TT--EEEEEEC--------------------C
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEE-CC--eEEEEEECCCCCcchhHHHHHHHHHHHh
Confidence            45899999999999999999999875  4677788888888888888 55  5789999999987765443        2


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      +++.+|++++|+|++++.++..+..+...+...  .++|+++|+||+|+.......  .+.+.... ..+++++||++|.
T Consensus       309 ~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l--~~~piIvV~NK~Dl~~~~~~~--~~~l~~~~-~~~~i~vSAktg~  383 (476)
T 3gee_A          309 KMAEADLILYLLDLGTERLDDELTEIRELKAAH--PAAKFLTVANKLDRAANADAL--IRAIADGT-GTEVIGISALNGD  383 (476)
T ss_dssp             CCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHC--TTSEEEEEEECTTSCTTTHHH--HHHHHHHH-TSCEEECBTTTTB
T ss_pred             hcccCCEEEEEEECCCCcchhhhHHHHHHHHhc--CCCCEEEEEECcCCCCccchh--HHHHHhcC-CCceEEEEECCCC
Confidence            678899999999999988775333333222222  268999999999997653221  23444422 3789999999999


Q ss_pred             CHHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQAK  211 (253)
Q Consensus       198 ~i~~l~~~l~~~~~  211 (253)
                      |++++|++|.+.+.
T Consensus       384 GI~eL~~~i~~~~~  397 (476)
T 3gee_A          384 GIDTLKQHMGDLVK  397 (476)
T ss_dssp             SHHHHHHHHTHHHH
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999999886

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.89  E-value=5.5e-23  Score=178.78  Aligned_cols=160  Identities=18%  Similarity=0.209  Sum_probs=117.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCC----------CCChhh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGA----------YQFPAM  114 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~----------~~~~~~  114 (253)
                      ...++|+|+|++|||||||+|+|++...  ...++.++.+.....+.+ ++.  .+.||||||+          +.|...
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~-~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~  249 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTY-NQQ--EFVIVDTAGMRKKGKVYETTEKYSVL  249 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEE-TTE--EEEETTHHHHTCBTTBCCCCSHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEE-CCe--EEEEEECCCcCcCccccchHHHHHHH
Confidence            3568999999999999999999999775  567778888888888887 554  5799999997          445555


Q ss_pred             HH-HhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc-cc-HHHHHHHHHh---cCCCcE
Q psy549          115 RE-LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-VR-REIAETIALY---DWQCGF  188 (253)
Q Consensus       115 ~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~~-~~~~~~~~~~---~~~~~~  188 (253)
                      +. .+++.+|++++|+|++++.++++. .|...+..   .++|+++|+||+|+.+.. .. .+..+.+...   ....++
T Consensus       250 ~~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~  325 (436)
T 2hjg_A          250 RALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPI  325 (436)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCE
T ss_pred             HHHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCE
Confidence            44 378899999999999998888774 46655544   568999999999997652 22 2233333321   346799


Q ss_pred             EEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          189 VECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       189 ~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      +++||++|.|++++|+.+.+.+...
T Consensus       326 ~~~SA~tg~~v~~l~~~i~~~~~~~  350 (436)
T 2hjg_A          326 LFMSALTKKRIHTLMPAIIKASENH  350 (436)
T ss_dssp             EECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             EEEecccCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999988654

>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=99.88  E-value=2.1e-22  Score=164.58  Aligned_cols=157  Identities=18%  Similarity=0.174  Sum_probs=115.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh------hHHHhc-
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA------MRELSI-  119 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~------~~~~~~-  119 (253)
                      ..++|+|+|++|||||||+|+|++..+ ....+.++.+.....+.+ ++  ..+.+||+||...+..      ....++ 
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~-~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~   78 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEY-RE--KEFLVVDLPGIYSLTAHSIDELIARNFIL   78 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEE-TT--EEEEEEECCCCSCCCSSCHHHHHHHHHHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEE-CC--ceEEEEeCCCccccccCCHHHHHHHHhhh
Confidence            358999999999999999999998765 334445555666667776 44  3589999999988765      444455 


Q ss_pred             -ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          120 -STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       120 -~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                       ..+|++++|+|+++..   ....|+..+...  ..+|+++|+||+|+............+.. ..+++++++|+++|.|
T Consensus        79 ~~~~d~vi~v~D~~~~~---~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~~~~~~~~~~l~~-~lg~~~~~~Sa~~g~g  152 (271)
T 3k53_A           79 DGNADVIVDIVDSTCLM---RNLFLTLELFEM--EVKNIILVLNKFDLLKKKGAKIDIKKMRK-ELGVPVIPTNAKKGEG  152 (271)
T ss_dssp             TTCCSEEEEEEEGGGHH---HHHHHHHHHHHT--TCCSEEEEEECHHHHHHHTCCCCHHHHHH-HHSSCEEECBGGGTBT
T ss_pred             ccCCcEEEEEecCCcch---hhHHHHHHHHhc--CCCCEEEEEEChhcCcccccHHHHHHHHH-HcCCcEEEEEeCCCCC
Confidence             6899999999998853   233344444432  22899999999997654211112455655 4578999999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy549          199 IVQVFKELLAQAKVQ  213 (253)
Q Consensus       199 i~~l~~~l~~~~~~~  213 (253)
                      +.++|+++.+.+...
T Consensus       153 i~~l~~~i~~~~~~~  167 (271)
T 3k53_A          153 VEELKRMIALMAEGK  167 (271)
T ss_dssp             HHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999987544

>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=99.87  E-value=8.4e-22  Score=172.23  Aligned_cols=162  Identities=17%  Similarity=0.196  Sum_probs=119.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCC----------CCCChhh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSG----------AYQFPAM  114 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g----------~~~~~~~  114 (253)
                      ...++|+++|.+|+|||||+++|++..  ....++.++.+.....+.+ ++.  .++||||||          +++|...
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~-~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~  269 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTY-NQQ--EFVIVDTAGMRKKGKVYETTEKYSVL  269 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEE-TTE--EEEETTGGGTTTBTTBCCCCSHHHHH
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEE-CCc--eEEEEECCCCCcCcccchHHHHHHHH
Confidence            457899999999999999999999765  3667778888888888887 554  789999999          6777776


Q ss_pred             HHH-hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhc----CCCcE
Q psy549          115 REL-SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYD----WQCGF  188 (253)
Q Consensus       115 ~~~-~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~----~~~~~  188 (253)
                      +.. +++.+|++|+|+|++++..... ..|+..+..   .++|+++|+||+|+... ....+.........    ..+++
T Consensus       270 ~~~~~~~~ad~~llviD~~~~~~~~~-~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  345 (456)
T 4dcu_A          270 RALKAIDRSEVVAVVLDGEEGIIEQD-KRIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPI  345 (456)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHH-HHHHHHHHH---TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCE
T ss_pred             HHHHHHhhCCEEEEEEeCCCCcCHHH-HHHHHHHHH---cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCE
Confidence            654 7889999999999998655332 344444443   56899999999999764 33323333322212    35899


Q ss_pred             EEeccCCCCCHHHHHHHHHHHHHHhcc
Q psy549          189 VECSAKENYNIVQVFKELLAQAKVQYN  215 (253)
Q Consensus       189 ~~~Sa~~~~~i~~l~~~l~~~~~~~~~  215 (253)
                      +++||++|.|++++|+++.+.+.....
T Consensus       346 ~~~SA~~g~gv~~l~~~i~~~~~~~~~  372 (456)
T 4dcu_A          346 LFMSALTKKRIHTLMPAIIKASENHSL  372 (456)
T ss_dssp             EECCTTTCTTGGGHHHHHHHHHHHHTC
T ss_pred             EEEcCCCCcCHHHHHHHHHHHHHHhcc
Confidence            999999999999999999998866543

>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=99.87  E-value=1.1e-21  Score=171.62  Aligned_cols=152  Identities=20%  Similarity=0.262  Sum_probs=120.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCC-CChh--------hHHH
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY-QFPA--------MREL  117 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~-~~~~--------~~~~  117 (253)
                      .++|+|+|.+|||||||+|+|.+..  ++.+++.|+.+.....+.+ ++  ..+.+|||||.. ++..        ....
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~-~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~  319 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVI-RG--ILFRIVDTAGVRSETNDLVERLGIERTLQ  319 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEE-TT--EEEEEEESSCCCSSCCTTCCCCCHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEec-CC--eEEEEEECCCccccchhhHHHHHHHHHHH
Confidence            4899999999999999999999875  4778888999998888888 65  468999999988 6542        2345


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      +++.+|++|+|+|++++.+++... ++..+     .++|+++|+||+|+... ...+....+.  .+..+++++||++|.
T Consensus       320 ~~~~aD~vl~VvD~s~~~s~~~~~-il~~l-----~~~piivV~NK~DL~~~-~~~~~~~~~~--~~~~~~i~iSAktg~  390 (482)
T 1xzp_A          320 EIEKADIVLFVLDASSPLDEEDRK-ILERI-----KNKRYLVVINKVDVVEK-INEEEIKNKL--GTDRHMVKISALKGE  390 (482)
T ss_dssp             HHHHCSEEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSCCC-CCHHHHHHHH--TCSTTEEEEEGGGTC
T ss_pred             HhhcccEEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccccc-cCHHHHHHHh--cCCCcEEEEECCCCC
Confidence            788999999999999987776533 23322     36899999999999764 3333333332  345789999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQAKV  212 (253)
Q Consensus       198 ~i~~l~~~l~~~~~~  212 (253)
                      |++++|++|.+.+..
T Consensus       391 Gi~eL~~~l~~~~~~  405 (482)
T 1xzp_A          391 GLEKLEESIYRETQE  405 (482)
T ss_dssp             CHHHHHHHHHHHTHH
T ss_pred             CHHHHHHHHHHHHhh
Confidence            999999999997653

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.87  E-value=1.3e-22  Score=174.43  Aligned_cols=160  Identities=20%  Similarity=0.190  Sum_probs=116.2

Q ss_pred             CCCCCCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh------
Q psy549           43 VGLQKDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM------  114 (253)
Q Consensus        43 ~~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~------  114 (253)
                      ..+....++|+|+|++|+|||||+++|++..+  ......++.+.....+.+ ++. ..+.+|||||++++..+      
T Consensus        28 ~~~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~-~~~-~~l~liDTpG~~d~~~l~~~~~~  105 (423)
T 3qq5_A           28 LPDAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMEL-HPI-GPVTLVDTPGLDDVGELGRLRVE  105 (423)
T ss_dssp             C---CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEE-TTT-EEEEEEECSSTTCCCTTCCCCHH
T ss_pred             cCCCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEE-CCC-CeEEEEECcCCCcccchhHHHHH
Confidence            33456789999999999999999999998875  455666777777777777 333 26899999999877544      


Q ss_pred             -HHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEecc
Q psy549          115 -RELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSA  193 (253)
Q Consensus       115 -~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  193 (253)
                       ...++..+|++|+|+|+...   .....|+..+...   ++|+++|+||+|+...... +..+.+.. ..+++++++||
T Consensus       106 ~~~~~l~~aD~vllVvD~~~~---~~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~-~~~~~l~~-~~g~~v~~vSA  177 (423)
T 3qq5_A          106 KARRVFYRADCGILVTDSAPT---PYEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE-ELKGLYES-RYEAKVLLVSA  177 (423)
T ss_dssp             HHHHHHTSCSEEEEECSSSCC---HHHHHHHHHHHHT---TCCEEEECCCCTTTTCCCT-HHHHHSSC-CTTCCCCCCSS
T ss_pred             HHHHHHhcCCEEEEEEeCCCh---HHHHHHHHHHHhc---CCCEEEEEeCcCCCCccHH-HHHHHHHH-HcCCCEEEEEC
Confidence             34578899999999999333   2335566665553   6899999999999876443 55566655 56789999999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q psy549          194 KENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       194 ~~~~~i~~l~~~l~~~~~~  212 (253)
                      ++|.|++++|++|.+.+..
T Consensus       178 ktg~gI~eL~~~L~~~l~~  196 (423)
T 3qq5_A          178 LQKKGFDDIGKTISEILPG  196 (423)
T ss_dssp             CCTTSTTTHHHHHHHHSCC
T ss_pred             CCCCCHHHHHHHHHHhhhh
Confidence            9999999999999998843

>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=99.87  E-value=2.3e-21  Score=168.75  Aligned_cols=154  Identities=19%  Similarity=0.275  Sum_probs=106.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC---------hhhHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF---------PAMRELS  118 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~---------~~~~~~~  118 (253)
                      .+|+|+|.||||||||+|+|++..  ++.+.+.++++.....+.+ ++.  .+++|||||.+..         ......+
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~-~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~~   78 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEW-YGK--TFKLVDTCGVFDNPQDIISQKMKEVTLNM   78 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEE-TTE--EEEEEECTTTTSSGGGCCCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEE-CCe--EEEEEECCCccccccchHHHHHHHHHHHH
Confidence            489999999999999999999876  3677788888888888888 554  5789999998752         3455668


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCC-cEEEeccCCCC
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQC-GFVECSAKENY  197 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~  197 (253)
                      ++.+|++++|+|+.++.+..+  .++..+...  .++|+++|+||+|+... ...+....+..  .+. +++++||++|.
T Consensus        79 ~~~ad~il~V~D~~~~~~~~d--~~i~~~l~~--~~~p~ilv~NK~D~~~~-~~~~~~~~~~~--lg~~~~~~iSA~~g~  151 (439)
T 1mky_A           79 IREADLVLFVVDGKRGITKED--ESLADFLRK--STVDTILVANKAENLRE-FEREVKPELYS--LGFGEPIPVSAEHNI  151 (439)
T ss_dssp             HTTCSEEEEEEETTTCCCHHH--HHHHHHHHH--HTCCEEEEEESCCSHHH-HHHHTHHHHGG--GSSCSCEECBTTTTB
T ss_pred             HHhCCEEEEEEECCCCCCHHH--HHHHHHHHH--cCCCEEEEEeCCCCccc-cHHHHHHHHHh--cCCCCEEEEeccCCC
Confidence            999999999999988655433  222222221  35899999999997532 11122133333  233 68999999999


Q ss_pred             CHHHHHHHHHHHHHHh
Q psy549          198 NIVQVFKELLAQAKVQ  213 (253)
Q Consensus       198 ~i~~l~~~l~~~~~~~  213 (253)
                      |+.++|+++.+.+...
T Consensus       152 gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          152 NLDTMLETIIKKLEEK  167 (439)
T ss_dssp             SHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhcccc
Confidence            9999999999988643

>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=99.87  E-value=2.3e-22  Score=158.92  Aligned_cols=143  Identities=13%  Similarity=0.138  Sum_probs=101.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCC---ccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhccc-
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISR---YKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST-  121 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~---~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~-  121 (253)
                      ....++|+|+|++|+|||||+++|.+..+...   +.++..        . +...+.+.+||+||++.+...+..+++. 
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~--------~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   79 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSA--------A-DYDGSGVTLVDFPGHVKLRYKLSDYLKTR   79 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEE--------T-TGGGSSCEEEECCCCGGGTHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEE--------E-EeeCceEEEEECCCcHHHHHHHHHHHHhc
Confidence            34678999999999999999999999876431   222211        1 1133578999999999999888888877 


Q ss_pred             ---CCEEEEEEECC-ChhhHHHHHHHHHHHHHh----cCCCCCEEEEEecCCCCCcccc-------HHHHHHHHHhcCCC
Q psy549          122 ---ADAFVLVYAVD-DASTWDVVKDLREQIVNK----RGLMVPIVVVGNKCELEFKDVR-------REIAETIALYDWQC  186 (253)
Q Consensus       122 ---~d~~i~v~d~~-~~~s~~~~~~~~~~~~~~----~~~~~piilv~nK~Dl~~~~~~-------~~~~~~~~~~~~~~  186 (253)
                         +|++|+|+|++ ++.+|.....|+..+...    ...++|+++|+||+|+......       .+....++. ..+.
T Consensus        80 ~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~-~~~~  158 (218)
T 1nrj_B           80 AKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIE-RRKK  158 (218)
T ss_dssp             GGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHH-HHHH
T ss_pred             cccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHH-HHhc
Confidence               89999999999 888888888888777664    3467999999999999876322       333444444 3456


Q ss_pred             cEEEeccCCCCC
Q psy549          187 GFVECSAKENYN  198 (253)
Q Consensus       187 ~~~~~Sa~~~~~  198 (253)
                      +++++|++++.+
T Consensus       159 ~~~~~Sa~~~~~  170 (218)
T 1nrj_B          159 SLNEVERKINEE  170 (218)
T ss_dssp             HHHC--------
T ss_pred             cccccccccccc
Confidence            789999998764

>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=99.87  E-value=9.3e-22  Score=165.09  Aligned_cols=158  Identities=19%  Similarity=0.157  Sum_probs=121.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCC----CCChhhHHHhc---cc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGA----YQFPAMRELSI---ST  121 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~----~~~~~~~~~~~---~~  121 (253)
                      .+|+|+|.+|||||||+++|++... ..+++.++.......+.+.++  ..+.+||+||.    ..+..+...++   +.
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~~--~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~  236 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG--RSFVMADLPGLIEGAHQGVGLGHQFLRHIER  236 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS--CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHH
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCCC--ceEEEecCCCCcccccccchhHHHHHHHHHh
Confidence            4799999999999999999998764 456667777666777777433  36899999994    33444545554   45


Q ss_pred             CCEEEEEEECCC---hhhHHHHHHHHHHHHHhcC--CCCCEEEEEecCCCCCccccHHHHHHHHHhcC-CCcEEEeccCC
Q psy549          122 ADAFVLVYAVDD---ASTWDVVKDLREQIVNKRG--LMVPIVVVGNKCELEFKDVRREIAETIALYDW-QCGFVECSAKE  195 (253)
Q Consensus       122 ~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~  195 (253)
                      +|++|+|+|+++   ..++..+..|+..+.....  ..+|+++|+||+|+....   +..+.+..... ..+++++||++
T Consensus       237 ~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~---e~~~~l~~~l~~~~~v~~iSA~t  313 (342)
T 1lnz_A          237 TRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA---ENLEAFKEKLTDDYPVFPISAVT  313 (342)
T ss_dssp             CCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH---HHHHHHHHHCCSCCCBCCCSSCC
T ss_pred             ccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH---HHHHHHHHHhhcCCCEEEEECCC
Confidence            999999999998   7888888888888877542  469999999999987532   33444544222 26899999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQAKV  212 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~~  212 (253)
                      +.|+++++.+|.+.+..
T Consensus       314 g~gi~eL~~~l~~~l~~  330 (342)
T 1lnz_A          314 REGLRELLFEVANQLEN  330 (342)
T ss_dssp             SSTTHHHHHHHHHHHTS
T ss_pred             CcCHHHHHHHHHHHHhh
Confidence            99999999999998843

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.87  E-value=1.4e-20  Score=159.67  Aligned_cols=161  Identities=19%  Similarity=0.226  Sum_probs=119.0

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh---------hhHH
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP---------AMRE  116 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~---------~~~~  116 (253)
                      ...++|+++|.+|||||||+++|.+... ....+.++.......+.. +  ...+.+|||||...+.         ....
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~-~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~  241 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFED-G--YFRYQIIDTPGLLDRPISERNEIEKQAIL  241 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEE-T--TEEEEEEECTTTSSSCSTTSCHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEe-c--CceEEEEeCCCccccchhhhhHHHHHHHH
Confidence            3568999999999999999999998764 233444444444444444 3  3578999999976532         1222


Q ss_pred             HhcccCCEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccC
Q psy549          117 LSISTADAFVLVYAVDDAS--TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       117 ~~~~~~d~~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      .....+|++++|+|+++..  ++.....|+..+..... ++|+++|+||+|+...... +....+.. ..+.+++++||+
T Consensus       242 ~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~-~~piilV~NK~Dl~~~~~~-~~~~~~~~-~~~~~~~~iSA~  318 (357)
T 2e87_A          242 ALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-DLPFLVVINKIDVADEENI-KRLEKFVK-EKGLNPIKISAL  318 (357)
T ss_dssp             GGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT-TSCEEEEECCTTTCCHHHH-HHHHHHHH-HTTCCCEECBTT
T ss_pred             HHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC-CCCEEEEEECcccCChHHH-HHHHHHHH-hcCCCeEEEeCC
Confidence            3455799999999998876  67777788887776543 7899999999998764322 22333333 457889999999


Q ss_pred             CCCCHHHHHHHHHHHHHHh
Q psy549          195 ENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~~~~  213 (253)
                      +|.|++++|++|.+.+...
T Consensus       319 ~g~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          319 KGTGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             TTBTHHHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHHHH
Confidence            9999999999999988654

>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=99.86  E-value=1.4e-20  Score=162.06  Aligned_cols=164  Identities=15%  Similarity=0.111  Sum_probs=115.1

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCC--ccccce--------------eeeeeeEEcC--CCcEEEEEEEeCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISR--YKETVE--------------ELHRGEYELP--DGAQLTLDILDTSG  107 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~--~~~t~~--------------~~~~~~~~~~--~~~~~~~~l~D~~g  107 (253)
                      ..+.++|+++|++++|||||+++|++......  +..++.              +.........  ......+.||||||
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtPG   84 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAPG   84 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHSCCCCSSSEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECCC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCcccccccCccccceeeccccccccceecccccccccccccccccceEEEEECCC
Confidence            45679999999999999999999998543211  111100              0000000000  11236889999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhc----
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYD----  183 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~----  183 (253)
                      +++|...+...+..+|++|+|+|++++.++.....|+..+....  ..|+++|+||+|+.+.....+..+.+....    
T Consensus        85 h~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~  162 (403)
T 3sjy_A           85 HEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTW  162 (403)
T ss_dssp             CGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTST
T ss_pred             cHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECccccchHHHHHHHHHHHHHHHhhC
Confidence            99999999999999999999999999876666666666555432  258999999999987532223333332211    


Q ss_pred             -CCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          184 -WQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       184 -~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                       ..++++++||++|.|+++++++|.+.+.
T Consensus       163 ~~~~~ii~vSA~~g~gi~~L~~~l~~~l~  191 (403)
T 3sjy_A          163 AENVPIIPVSALHKINIDSLIEGIEEYIK  191 (403)
T ss_dssp             TTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             CCCCEEEEEECCCCcChHHHHHHHHHhCC
Confidence             2678999999999999999999988663

>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=99.85  E-value=2.3e-20  Score=162.35  Aligned_cols=160  Identities=22%  Similarity=0.194  Sum_probs=111.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh-----------
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA-----------  113 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~-----------  113 (253)
                      ...++|+|+|++|||||||+|+|++...  +...+.++.+...+.+.+ ++.  .+.+|||+|..++..           
T Consensus       178 ~~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~-~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~  254 (439)
T 1mky_A          178 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFI-DGR--KYVFVDTAGLRRKSRVEPRTVEKYSN  254 (439)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEE-TTE--EEEESSCSCC-----------CCSCC
T ss_pred             ccCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEE-CCE--EEEEEECCCCccccccchhhHHHHHH
Confidence            3568999999999999999999999764  677778888888888888 665  578999999754322           


Q ss_pred             hH-HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc-c-cHHHHHHHHHh---cCCCc
Q psy549          114 MR-ELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-V-RREIAETIALY---DWQCG  187 (253)
Q Consensus       114 ~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~-~~~~~~~~~~~---~~~~~  187 (253)
                      .. ..+++.+|++++|+|+.++.++... .+...+..   .++|+++|+||+|+.... . ..+..+.+...   ....+
T Consensus       255 ~~~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (439)
T 1mky_A          255 YRVVDSIEKADVVVIVLDATQGITRQDQ-RMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSP  330 (439)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSC
T ss_pred             HHHHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCc
Confidence            11 2367789999999999987665542 22232222   468999999999987642 2 22222222221   34678


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          188 FVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       188 ~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ++++||++|.|++++|+.+.+.+...
T Consensus       331 ~~~~SA~~g~gv~~l~~~i~~~~~~~  356 (439)
T 1mky_A          331 LIFTSADKGWNIDRMIDAMNLAYASY  356 (439)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            99999999999999999999877654

>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=99.85  E-value=3.3e-21  Score=167.80  Aligned_cols=153  Identities=20%  Similarity=0.288  Sum_probs=108.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHH--------
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMREL--------  117 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~--------  117 (253)
                      ..++|+|+|++|+|||||+|+|++..  +..+.+.++.+.....+.+ ++  +.+.+|||||..++......        
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~-~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~  299 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVV-GG--IPVQVLDTAGIRETSDQVEKIGVERSRQ  299 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEE-TT--EEEEECC--------------------C
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEE-CC--EEEEEEECCccccchhHHHHHHHHHHhh
Confidence            45899999999999999999999864  3666777888888888888 65  46799999998766544333        


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      .+..+|++++|+|++++.++.. ..|+..+     ...|+++|+||+|+.......    .+.......+++++||++|.
T Consensus       300 ~~~~aD~vl~VvD~s~~~~~~~-~~i~~~l-----~~~piivV~NK~Dl~~~~~~~----~~~~~~~~~~~i~iSAktg~  369 (462)
T 3geh_A          300 AANTADLVLLTIDAATGWTTGD-QEIYEQV-----KHRPLILVMNKIDLVEKQLIT----SLEYPENITQIVHTAAAQKQ  369 (462)
T ss_dssp             CCCSCSEEEEEEETTTCSCHHH-HHHHHHH-----TTSCEEEEEECTTSSCGGGST----TCCCCTTCCCEEEEBTTTTB
T ss_pred             hhhcCCEEEEEeccCCCCCHHH-HHHHHhc-----cCCcEEEEEECCCCCcchhhH----HHHHhccCCcEEEEECCCCC
Confidence            5788999999999998776554 4444443     236999999999997653221    11111245689999999999


Q ss_pred             CHHHHHHHHHHHHHHh
Q psy549          198 NIVQVFKELLAQAKVQ  213 (253)
Q Consensus       198 ~i~~l~~~l~~~~~~~  213 (253)
                      |+++++++|.+.+...
T Consensus       370 Gi~eL~~~i~~~~~~~  385 (462)
T 3geh_A          370 GIDSLETAILEIVQTG  385 (462)
T ss_dssp             SHHHHHHHHHHHHTTS
T ss_pred             CHHHHHHHHHHHHhcc
Confidence            9999999999988543

>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=99.84  E-value=1.1e-19  Score=153.92  Aligned_cols=161  Identities=16%  Similarity=0.091  Sum_probs=110.5

Q ss_pred             cce-EEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC---------ChhhHHH
Q psy549           49 KRR-VVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ---------FPAMREL  117 (253)
Q Consensus        49 ~~~-I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~---------~~~~~~~  117 (253)
                      .++ |+|+|.+|||||||+|+|.+... ..+...++.+.....+.+ ++  ..+.+|||+|...         |... ..
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~-~g--~~v~l~DT~G~i~~lp~~lve~f~~t-l~  253 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPI-NN--RKIMLVDTVGFIRGIPPQIVDAFFVT-LS  253 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEE-TT--EEEEEEECCCBCSSCCGGGHHHHHHH-HH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEE-CC--EEEEEEeCCCchhcCCHHHHHHHHHH-HH
Confidence            455 99999999999999999998765 455667777788888888 55  4678999999632         1222 22


Q ss_pred             hcccCCEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcccc--HHHHHHHHHhc--CCCcEEEe
Q psy549          118 SISTADAFVLVYAVDDAS--TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR--REIAETIALYD--WQCGFVEC  191 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~--~~~~~~~~  191 (253)
                      .+..+|++++|+|++++.  .+..+..|...+......++|+++|+||+|+......  ...+..+....  ...+++++
T Consensus       254 ~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~  333 (364)
T 2qtf_A          254 EAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPI  333 (364)
T ss_dssp             GGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEEC
T ss_pred             HHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEE
Confidence            478899999999999876  5555555665555544467899999999998754311  11222232312  23468999


Q ss_pred             ccCCCCCHHHHHHHHHHHHHHh
Q psy549          192 SAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       192 Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ||+++.|+++++++|.+.+...
T Consensus       334 SA~~g~gi~~L~~~I~~~l~~~  355 (364)
T 2qtf_A          334 SALKRTNLELLRDKIYQLATQL  355 (364)
T ss_dssp             BTTTTBSHHHHHHHHHHHHHHH
T ss_pred             ECCCCcCHHHHHHHHHHHhccc
Confidence            9999999999999999877553

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.83  E-value=3.3e-21  Score=167.56  Aligned_cols=151  Identities=16%  Similarity=0.149  Sum_probs=100.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCC--------CChhhHHHhc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY--------QFPAMRELSI  119 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~--------~~~~~~~~~~  119 (253)
                      ++|+|+|.+|||||||+|+|++..+  +.+.++++.+.....+.+ ++  ..+.+|||||.+        .+...+..++
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~~~~-~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~   80 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEW-LN--YDFNLIDTGGIDIGDEPFLAQIRQQAEIAM   80 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC-----------CEEEECTT-CS--SCCEEEC---------CHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeecCCCCCccceEEEEEEE-CC--ceEEEEECCCCCCcchhHHHHHHHHHHHHH
Confidence            6899999999999999999998765  456667777777777666 44  368999999986        4566667789


Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      +.+|++|+|+|+.++.++.+  .++..+..  ..++|+++|+||+|+.....   ....+.. ....+++++||++|.|+
T Consensus        81 ~~ad~il~vvD~~~~~~~~d--~~~~~~l~--~~~~pvilv~NK~D~~~~~~---~~~~~~~-lg~~~~~~iSA~~g~gv  152 (436)
T 2hjg_A           81 DEADVIIFMVNGREGVTAAD--EEVAKILY--RTKKPVVLAVNKLDNTEMRA---NIYDFYS-LGFGEPYPISGTHGLGL  152 (436)
T ss_dssp             HHCSEEEEEEETTTCSCHHH--HHHHHHHT--TCCSCEEEEEECCCC--------CCCSSGG-GSSCCCEECBTTTTBTH
T ss_pred             HhCCEEEEEEeCCCCCCHHH--HHHHHHHH--HcCCCEEEEEECccCccchh---hHHHHHH-cCCCCeEEEeCcCCCCh
Confidence            99999999999998766544  33333332  25689999999999865311   0111222 12226899999999999


Q ss_pred             HHHHHHHHHHHH
Q psy549          200 VQVFKELLAQAK  211 (253)
Q Consensus       200 ~~l~~~l~~~~~  211 (253)
                      .++++++.+.+.
T Consensus       153 ~~L~~~i~~~l~  164 (436)
T 2hjg_A          153 GDLLDAVAEHFK  164 (436)
T ss_dssp             HHHHHHHHHTGG
T ss_pred             HHHHHHHHHhcC
Confidence            999999998775

>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=99.83  E-value=5.8e-20  Score=161.24  Aligned_cols=159  Identities=12%  Similarity=0.154  Sum_probs=108.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC----C---C-CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHH
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR----F---I-SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMREL  117 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~----~---~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~  117 (253)
                      ....++|+++|++++|||||+++|++..    .   . .....++.+.....+.+ ++  ..+.||||||+++|...+..
T Consensus        16 ~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~-~~--~~i~iiDtPGh~~~~~~~~~   92 (482)
T 1wb1_A           16 DFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL-EN--YRITLVDAPGHADLIRAVVS   92 (482)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE-TT--EEEEECCCSSHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEE-CC--EEEEEEECCChHHHHHHHHH
Confidence            3457999999999999999999999866    1   1 11122333444444555 33  57899999999999888888


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccH---HHHHHHHHhc---CCCcEEEe
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRR---EIAETIALYD---WQCGFVEC  191 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~---~~~~~~~~~~---~~~~~~~~  191 (253)
                      .+..+|++|+|+|++++..-+..+. +..+..   .++|+++|+||+|+.+.....   +....+....   ...+++++
T Consensus        93 ~~~~aD~~ilVvda~~g~~~qt~e~-l~~~~~---~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~v  168 (482)
T 1wb1_A           93 AADIIDLALIVVDAKEGPKTQTGEH-MLILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPI  168 (482)
T ss_dssp             HTTSCCEEEEEEETTTCSCHHHHHH-HHHHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEEC
T ss_pred             HHhhCCEEEEEEecCCCccHHHHHH-HHHHHH---cCCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceEEEE
Confidence            9999999999999998422122121 222222   458889999999997642211   2222222211   25789999


Q ss_pred             ccCCCCCHHHHHHHHHHHHH
Q psy549          192 SAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       192 Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      ||++|.|+++++++|.+.+.
T Consensus       169 SA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          169 SAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             CTTTCTTHHHHHHHHHHHHH
T ss_pred             ECcCCCCHHHHHHHHHHhhc
Confidence            99999999999999999875

>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=99.83  E-value=3.1e-20  Score=153.76  Aligned_cols=154  Identities=17%  Similarity=0.128  Sum_probs=109.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCC-CCh--------hhHH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY-QFP--------AMRE  116 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~-~~~--------~~~~  116 (253)
                      ...+|+|+|++|||||||+|+|++..+  ....+.++.+.....+.. +  ...+.+|||||.. ...        ....
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~-~--~~~i~~iDTpG~~~~~~~~l~~~~~~~~~   83 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTE-G--AYQAIYVDTPGLHMEEKRAINRLMNKAAS   83 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEE-T--TEEEEEESSSSCCHHHHHHHHHHHTCCTT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEE-C--CeeEEEEECcCCCccchhhHHHHHHHHHH
Confidence            345899999999999999999999875  344555665555555544 3  3578999999987 322        2223


Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC-ccccHHHHHHHHHhcCCC-cEEEeccC
Q psy549          117 LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF-KDVRREIAETIALYDWQC-GFVECSAK  194 (253)
Q Consensus       117 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~-~~~~~Sa~  194 (253)
                      .+++.+|++++|+|+++ -+  ....|+.....  ..+.|+++|+||+|+.. .....+....+.. ..+. .++++||+
T Consensus        84 ~~l~~~D~vl~Vvd~~~-~~--~~~~~i~~~l~--~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~-~~~~~~~i~iSA~  157 (301)
T 1ega_A           84 SSIGDVELVIFVVEGTR-WT--PDDEMVLNKLR--EGKAPVILAVNKVDNVQEKADLLPHLQFLAS-QMNFLDIVPISAE  157 (301)
T ss_dssp             SCCCCEEEEEEEEETTC-CC--HHHHHHHHHHH--SSSSCEEEEEESTTTCCCHHHHHHHHHHHHT-TSCCSEEEECCTT
T ss_pred             HHHhcCCEEEEEEeCCC-CC--HHHHHHHHHHH--hcCCCEEEEEECcccCccHHHHHHHHHHHHH-hcCcCceEEEECC
Confidence            46778999999999977 22  33334332222  24689999999999876 2333444555655 3343 78999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q psy549          195 ENYNIVQVFKELLAQA  210 (253)
Q Consensus       195 ~~~~i~~l~~~l~~~~  210 (253)
                      ++.|++++++.+...+
T Consensus       158 ~g~~v~~l~~~i~~~l  173 (301)
T 1ega_A          158 TGLNVDTIAAIVRKHL  173 (301)
T ss_dssp             TTTTHHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHHhC
Confidence            9999999999998765

>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=99.83  E-value=9.2e-20  Score=162.68  Aligned_cols=159  Identities=18%  Similarity=0.234  Sum_probs=115.3

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC--CCCCC-----cc---------ccceeeeeeeEEc--CCCcEEEEEEEeCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD--RFISR-----YK---------ETVEELHRGEYEL--PDGAQLTLDILDTSGA  108 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~--~~~~~-----~~---------~t~~~~~~~~~~~--~~~~~~~~~l~D~~g~  108 (253)
                      ....+|+|+|+.++|||||+++|+..  .+...     ..         ..+.......+.+  .++..+.+.||||||+
T Consensus         4 ~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh   83 (600)
T 2ywe_A            4 KNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGH   83 (600)
T ss_dssp             GGEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCS
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCc
Confidence            34679999999999999999999862  12110     00         0011111112222  2566789999999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCC--
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQC--  186 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--  186 (253)
                      .+|...+...++.+|++|+|+|++++.+++....|+....    .++|+++|+||+|+.... .....+.+.. ..+.  
T Consensus        84 ~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~-~~~v~~el~~-~lg~~~  157 (600)
T 2ywe_A           84 VDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSAD-VDRVKKQIEE-VLGLDP  157 (600)
T ss_dssp             GGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCC-HHHHHHHHHH-TSCCCG
T ss_pred             HhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccC-HHHHHHHHHH-hhCCCc
Confidence            9999999999999999999999999988887777766543    458999999999998653 3344555655 3343  


Q ss_pred             -cEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          187 -GFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       187 -~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                       +++++||++|.|+.++|+++++.+.
T Consensus       158 ~~vi~vSAktg~GI~~Lle~I~~~lp  183 (600)
T 2ywe_A          158 EEAILASAKEGIGIEEILEAIVNRIP  183 (600)
T ss_dssp             GGCEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             ccEEEEEeecCCCchHHHHHHHHhcc
Confidence             4899999999999999999988773

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.83  E-value=7.2e-20  Score=163.60  Aligned_cols=158  Identities=19%  Similarity=0.253  Sum_probs=111.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CCC-----Ccc---------ccceeeeeeeEEc--CCCcEEEEEEEeCCCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FIS-----RYK---------ETVEELHRGEYEL--PDGAQLTLDILDTSGAY  109 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~-----~~~---------~t~~~~~~~~~~~--~~~~~~~~~l~D~~g~~  109 (253)
                      ...+|+|+|+.++|||||+++|+...  +..     ...         ..+.......+.+  .++..+.+.||||||+.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            45799999999999999999998632  111     000         0111111122222  15667899999999999


Q ss_pred             CChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCC---
Q psy549          110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQC---  186 (253)
Q Consensus       110 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~---  186 (253)
                      +|...+...++.+|++|+|+|++++.+++....|+....    .++|+++|+||+|+.+.. .....+.+... .+.   
T Consensus        83 dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~-~~~v~~ei~~~-lg~~~~  156 (599)
T 3cb4_D           83 DFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAAD-PERVAEEIEDI-VGIDAT  156 (599)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCC-HHHHHHHHHHH-TCCCCT
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCccccc-HHHHHHHHHHH-hCCCcc
Confidence            999999999999999999999999887777777766543    458999999999998753 33444555542 233   


Q ss_pred             cEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          187 GFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       187 ~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      +++++||++|.|++++|+++.+.+.
T Consensus       157 ~vi~vSAktg~GI~~Ll~~I~~~lp  181 (599)
T 3cb4_D          157 DAVRCSAKTGVGVQDVLERLVRDIP  181 (599)
T ss_dssp             TCEEECTTTCTTHHHHHHHHHHHSC
T ss_pred             eEEEeecccCCCchhHHHHHhhcCC
Confidence            5899999999999999999998774

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.83  E-value=1e-21  Score=173.19  Aligned_cols=157  Identities=25%  Similarity=0.349  Sum_probs=115.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCC-CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..++|+|+|++++|||||+++|.+..+. .....++.+.....+.++++.  .++||||||++.|..++...+..+|++|
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~g~--~i~~iDTPGhe~f~~~~~~~~~~aD~vI   80 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSGE--KITFLDTPGHAAFSAMRARGTQVTDIVI   80 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSCSS--CCBCEECSSSCCTTTSBBSSSBSBSSCE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCCCC--EEEEEECCChHHHHHHHHHHHccCCEEE
Confidence            4579999999999999999999986652 233344445555555553343  6789999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc---cccHHHHHHHH----HhcCCCcEEEeccCCCCCH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK---DVRREIAETIA----LYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~---~~~~~~~~~~~----~~~~~~~~~~~Sa~~~~~i  199 (253)
                      +|+|++++...+....|.    .....++|+++|+||+|+.+.   ....+. ..+.    .....++++++||++|.|+
T Consensus        81 LVVDa~dg~~~qt~e~l~----~~~~~~vPiIVViNKiDl~~~~~~~v~~~l-~~~~~~~e~~~~~~~iv~vSAktG~GI  155 (537)
T 3izy_P           81 LVVAADDGVMKQTVESIQ----HAKDAHVPIVLAINKCDKAEADPEKVKKEL-LAYDVVCEDYGGDVQAVHVSALTGENM  155 (537)
T ss_dssp             EECBSSSCCCHHHHHHHH----HHHTTTCCEEECCBSGGGTTTSCCSSSSHH-HHTTSCCCCSSSSEEECCCCSSSSCSS
T ss_pred             EEEECCCCccHHHHHHHH----HHHHcCCcEEEEEecccccccchHHHHHHH-HhhhhhHHhcCCCceEEEEECCCCCCc
Confidence            999999976655443332    222356899999999999754   122211 1111    1112458999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy549          200 VQVFKELLAQAK  211 (253)
Q Consensus       200 ~~l~~~l~~~~~  211 (253)
                      +++|++|...+.
T Consensus       156 ~eLle~I~~l~~  167 (537)
T 3izy_P          156 MALAEATIALAE  167 (537)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             hhHHHHHHHhhh
Confidence            999999988764

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.82  E-value=5.3e-20  Score=142.40  Aligned_cols=128  Identities=13%  Similarity=0.155  Sum_probs=92.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhccc----C
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIST----A  122 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~----~  122 (253)
                      ...++|+|+|++|||||||+++|.+..+........     ..... +...+.+.+||+||++.+...+..++..    +
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~-----~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  119 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQE-----PLSAA-DYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFV  119 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------------CCCCTTCSEEEETTCCBSSCCHHHHHHHHGGGE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCC-----Cceee-eecCCeEEEEECCCCchHHHHHHHHHHhhcccC
Confidence            467899999999999999999999987643111100     00111 1123467899999999998777777665    8


Q ss_pred             CEEEEEEECC-ChhhHHHHHHHHHHHHHh----cCCCCCEEEEEecCCCCCccccHHHHHHHH
Q psy549          123 DAFVLVYAVD-DASTWDVVKDLREQIVNK----RGLMVPIVVVGNKCELEFKDVRREIAETIA  180 (253)
Q Consensus       123 d~~i~v~d~~-~~~s~~~~~~~~~~~~~~----~~~~~piilv~nK~Dl~~~~~~~~~~~~~~  180 (253)
                      |++|+|+|++ +..++..+..|+..+...    ...++|+++|+||+|+.......+..+.+.
T Consensus       120 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~  182 (193)
T 2ged_A          120 KGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALE  182 (193)
T ss_dssp             EEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHH
T ss_pred             CEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCCHHHHHHHHH
Confidence            9999999999 899998888888777653    335799999999999987644444444443

>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=99.82  E-value=8e-20  Score=148.30  Aligned_cols=163  Identities=13%  Similarity=0.166  Sum_probs=104.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC-CCCCccc--cceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh---------
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR-FISRYKE--TVEELHRGEYELPDGAQLTLDILDTSGAYQFPA---------  113 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~-~~~~~~~--t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~---------  113 (253)
                      ....++|+|+|++|||||||+++|++.. +...+.+  ++.......+.. ++  ..+.||||||...+..         
T Consensus        19 ~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~i~iiDTpG~~~~~~~~~~~~~~i   95 (260)
T 2xtp_A           19 SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSW-GN--REIVIIDTPDMFSWKDHCEALYKEV   95 (260)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEE-TT--EEEEEEECCGGGGSSCCCHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEe-CC--CEEEEEECcCCCCCCCCHHHHHHHH
Confidence            4567999999999999999999999877 4433322  445555556666 44  4689999999766421         


Q ss_pred             --hHHHhcccCCEEEEEEECCChhhH-HHHHHHHHHHHHhcCCCCCEEEEEe-cCCCCCccccH-------HHHHHHHHh
Q psy549          114 --MRELSISTADAFVLVYAVDDASTW-DVVKDLREQIVNKRGLMVPIVVVGN-KCELEFKDVRR-------EIAETIALY  182 (253)
Q Consensus       114 --~~~~~~~~~d~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~piilv~n-K~Dl~~~~~~~-------~~~~~~~~~  182 (253)
                        .....++.+|++|+|+|++..... ..+..|+..+.... ...|+++|+| |+|+.......       .....+.. 
T Consensus        96 ~~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~-~~~~~i~vv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~-  173 (260)
T 2xtp_A           96 QRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGED-AMGHTIVLFTHKEDLNGGSLMDYMHDSDNKALSKLVA-  173 (260)
T ss_dssp             HHHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGG-GGGGEEEEEECGGGGTTCCHHHHHHHCCCHHHHHHHH-
T ss_pred             HHHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCch-hhccEEEEEEcccccCCccHHHHHHhcchHHHHHHHH-
Confidence              122367889999999999862221 11222333222111 1356777776 99997543222       11222332 


Q ss_pred             cCCCc---E--EEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          183 DWQCG---F--VECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       183 ~~~~~---~--~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ..+..   +  +++||+++.|+.++|++|.+.+...
T Consensus       174 ~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          174 ACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             HTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HhCCeEEEecCcccccccHHHHHHHHHHHHHHHHhC
Confidence            11111   2  7899999999999999999988764

>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=99.81  E-value=2.1e-20  Score=157.30  Aligned_cols=118  Identities=14%  Similarity=0.069  Sum_probs=92.0

Q ss_pred             cEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECC----------ChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecC
Q psy549           96 AQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVD----------DASTWDVVKDLREQIVNKR-GLMVPIVVVGNKC  164 (253)
Q Consensus        96 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~  164 (253)
                      ..+.+++|||+|+++++.++..++++++++|+|||++          +..+|.....|+..+.... ..++|+++|+||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            5688999999999999999999999999999999998          7788988888888877632 3579999999999


Q ss_pred             CCCCccc----------------------cHHHHHHHHHh---------------cCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          165 ELEFKDV----------------------RREIAETIALY---------------DWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       165 Dl~~~~~----------------------~~~~~~~~~~~---------------~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      |+....+                      ..+.+..+...               ...+.+++|||+++.||.++|+++.
T Consensus       261 DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~  340 (354)
T 2xtz_A          261 DIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVD  340 (354)
T ss_dssp             HHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             chhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHH
Confidence            9854311                      12344444221               1234568999999999999999999


Q ss_pred             HHHHHh
Q psy549          208 AQAKVQ  213 (253)
Q Consensus       208 ~~~~~~  213 (253)
                      +.+...
T Consensus       341 ~~I~~~  346 (354)
T 2xtz_A          341 ETLRRR  346 (354)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988654

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.81  E-value=3.2e-19  Score=154.91  Aligned_cols=157  Identities=23%  Similarity=0.271  Sum_probs=103.1

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCC--CCCCc------------------------------cccceeeeeeeEEc
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDR--FISRY------------------------------KETVEELHRGEYEL   92 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~------------------------------~~t~~~~~~~~~~~   92 (253)
                      ..+..++|+++|++++|||||+++|+...  +....                              ...+.+.....+..
T Consensus        13 ~~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~   92 (439)
T 3j2k_7           13 PKKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFET   92 (439)
T ss_pred             CCCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEec
Confidence            34677999999999999999999996532  11110                              12233333444444


Q ss_pred             CCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhh---HHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCC
Q psy549           93 PDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAST---WDVVKDLREQIVNKRGLMVP-IVVVGNKCELEF  168 (253)
Q Consensus        93 ~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~  168 (253)
                       +  ...+.||||||+++|...+...+..+|++|+|+|++++..   |....++...+......++| +++|+||+|+..
T Consensus        93 -~--~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~~  169 (439)
T 3j2k_7           93 -E--KKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPT  169 (439)
T ss_pred             -C--CeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCcc
Confidence             2  3578999999999999998889999999999999998642   11111111111111224567 999999999864


Q ss_pred             ccc--------cHHHHHHHHHhcC----CCcEEEeccCCCCCHHHHHH
Q psy549          169 KDV--------RREIAETIALYDW----QCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       169 ~~~--------~~~~~~~~~~~~~----~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ...        ..+....+.....    .++++++||++|.|+.++++
T Consensus       170 ~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          170 VNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             cchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            211        1111222222122    46899999999999999765

>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=99.81  E-value=9.2e-20  Score=153.51  Aligned_cols=118  Identities=16%  Similarity=0.070  Sum_probs=96.2

Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCC----------hhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCC
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDD----------ASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCE  165 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~D  165 (253)
                      .+.+++||++|++.++..|..++++++++|+|||+++          ..++.....|+..+... ...++|+++|+||+|
T Consensus       192 ~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~D  271 (353)
T 1cip_A          192 DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKD  271 (353)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHH
T ss_pred             CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEECcC
Confidence            4789999999999999999999999999999999999          45688888888877763 225699999999999


Q ss_pred             CCCc----------------cccHHHHHHHHHh----------cCCCcEEEeccCCCCCHHHHHHHHHHHHHHhc
Q psy549          166 LEFK----------------DVRREIAETIALY----------DWQCGFVECSAKENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       166 l~~~----------------~~~~~~~~~~~~~----------~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  214 (253)
                      +...                .+..+.+..+...          ...+.+++|||+++.||.++|+++.+.+...+
T Consensus       272 L~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~~~~  346 (353)
T 1cip_A          272 LFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKNN  346 (353)
T ss_dssp             HHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             chhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHHHHH
Confidence            8532                1345555555541          35678999999999999999999999987653

>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=99.80  E-value=8.7e-19  Score=151.05  Aligned_cols=160  Identities=17%  Similarity=0.141  Sum_probs=99.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC---CCCCccc--cce-eeeeeeE---------Ec----CC-Cc----EEEEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR---FISRYKE--TVE-ELHRGEY---------EL----PD-GA----QLTLD  101 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~---~~~~~~~--t~~-~~~~~~~---------~~----~~-~~----~~~~~  101 (253)
                      .+..++|+++|+.++|||||+++|.+..   +..+...  |.. .+....+         ..    ++ +.    ...+.
T Consensus         5 r~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   84 (408)
T 1s0u_A            5 SQAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVS   84 (408)
T ss_dssp             CCCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEE
T ss_pred             cCCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEE
Confidence            3567999999999999999999998543   2222111  221 1111111         11    10 11    26799


Q ss_pred             EEeCCCCCCChhhHHHhcccCCEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc---cHH
Q psy549          102 ILDTSGAYQFPAMRELSISTADAFVLVYAVDDA----STWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV---RRE  174 (253)
Q Consensus       102 l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~----~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~---~~~  174 (253)
                      ||||||+++|...+...+..+|++|+|+|++++    ++++.+..    +...  ...|+++|+||+|+.+...   ..+
T Consensus        85 iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~----~~~l--~~~~iivv~NK~Dl~~~~~~~~~~~  158 (408)
T 1s0u_A           85 FVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMA----LEIL--GIDKIIIVQNKIDLVDEKQAEENYE  158 (408)
T ss_dssp             EEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHH----HHHT--TCCCEEEEEECTTSSCTTTTTTHHH
T ss_pred             EEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHH----HHHc--CCCeEEEEEEccCCCCHHHHHHHHH
Confidence            999999998887777778889999999999964    33333222    2221  2258999999999976532   223


Q ss_pred             HHHHHHHh--cCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          175 IAETIALY--DWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       175 ~~~~~~~~--~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      ....+...  ....+++++||++|.|+++++++|.+.+.
T Consensus       159 ~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~  197 (408)
T 1s0u_A          159 QIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIP  197 (408)
T ss_dssp             HHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSC
T ss_pred             HHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            33444331  13678999999999999999999987653

>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=99.80  E-value=6.9e-19  Score=141.05  Aligned_cols=162  Identities=11%  Similarity=0.102  Sum_probs=100.8

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCC-Ccc--ccceeeeeeeEEcCCCcEEEEEEEeCCCCCC-----------
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFIS-RYK--ETVEELHRGEYELPDGAQLTLDILDTSGAYQ-----------  110 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~-~~~--~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~-----------  110 (253)
                      +....++|+|+|++|||||||+|+|++..+.. ..+  .++.......+.+ ++  ..+.||||||...           
T Consensus        25 ~~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~i~liDTpG~~~~~~~~~~~~~~  101 (239)
T 3lxx_A           25 PRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSW-KE--TELVVVDTPGIFDTEVPNAETSKE  101 (239)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEE-TT--EEEEEEECCSCC-----CHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEe-CC--ceEEEEECCCccCCCCCHHHHHHH
Confidence            34567999999999999999999999977633 222  3444555666666 44  4679999999553           


Q ss_pred             ChhhHHHhcccCCEEEEEEECCChhhH--HHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccH-------HHHHHHHH
Q psy549          111 FPAMRELSISTADAFVLVYAVDDASTW--DVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRR-------EIAETIAL  181 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~-------~~~~~~~~  181 (253)
                      +.......++.+|++|+|+|++.....  ..+..+...+...  ...|+++|+||+|+.......       +..+.+..
T Consensus       102 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~--~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~  179 (239)
T 3lxx_A          102 IIRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGER--ARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMD  179 (239)
T ss_dssp             HHHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHH--HGGGEEEEEECGGGC------------CHHHHHHHH
T ss_pred             HHHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhh--ccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHH
Confidence            233333456678999999998754332  1222222222111  235999999999986542111       23444444


Q ss_pred             hcCCCcEEEeccCCC-----CCHHHHHHHHHHHHHH
Q psy549          182 YDWQCGFVECSAKEN-----YNIVQVFKELLAQAKV  212 (253)
Q Consensus       182 ~~~~~~~~~~Sa~~~-----~~i~~l~~~l~~~~~~  212 (253)
                       .++..++.++...+     .++.++|..+.+.+.+
T Consensus       180 -~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          180 -IFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             -HHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -HcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHH
Confidence             34556777766543     5899999988887754

>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=99.80  E-value=5.6e-19  Score=158.00  Aligned_cols=158  Identities=19%  Similarity=0.204  Sum_probs=106.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCcc-ccceeeeeeeEEcC---------------CCcEEEEEEEeCCCCCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYK-ETVEELHRGEYELP---------------DGAQLTLDILDTSGAYQF  111 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~---------------~~~~~~~~l~D~~g~~~~  111 (253)
                      ..++|+|+|++++|||||+++|++..+..... ..+.+.....+...               +.....+.||||||++.|
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F   83 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAF   83 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCC
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHH
Confidence            45799999999999999999999765432211 11111001111100               111125899999999999


Q ss_pred             hhhHHHhcccCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc--------------cH-
Q psy549          112 PAMRELSISTADAFVLVYAVDD---ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV--------------RR-  173 (253)
Q Consensus       112 ~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--------------~~-  173 (253)
                      ..++...++.+|++|+|+|+++   ++++..+..    +..   .++|+++|+||+|+.....              .. 
T Consensus        84 ~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~----l~~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~  156 (594)
T 1g7s_A           84 TTLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQ  156 (594)
T ss_dssp             TTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHH----HHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHH
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHH----HHH---cCCeEEEEecccccccccccccCCchHHHHHHhHHH
Confidence            9988888899999999999999   555544332    222   5689999999999864210              01 


Q ss_pred             ----------HHHHHHHHh-------------cCCCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          174 ----------EIAETIALY-------------DWQCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       174 ----------~~~~~~~~~-------------~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                                +....+...             ...++++++||++|.|+.+++++|...+..
T Consensus       157 v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~  218 (594)
T 1g7s_A          157 VQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQ  218 (594)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhccc
Confidence                      112222221             123489999999999999999999988754

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.79  E-value=2.3e-19  Score=158.63  Aligned_cols=115  Identities=15%  Similarity=0.189  Sum_probs=83.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-----------------CCC------ccccceeeeeeeEEcCCCcEEEEEEEe
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-----------------ISR------YKETVEELHRGEYELPDGAQLTLDILD  104 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-----------------~~~------~~~t~~~~~~~~~~~~~~~~~~~~l~D  104 (253)
                      ...+|+|+|++|+|||||+++|+...-                 ..+      ....+.......+.+   ..+.+.|||
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~---~~~~i~liD   88 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPY---KDYLINLLD   88 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEE---TTEEEEEEC
T ss_pred             cCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEe---CCEEEEEEE
Confidence            467999999999999999999972110                 000      011111222223333   346789999


Q ss_pred             CCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          105 TSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       105 ~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      |||+.+|...+..+++.+|++|+|+|++++........|.. +..   .++|+++|+||+|+...
T Consensus        89 TPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~-~~~---~~iPiivviNK~Dl~~~  149 (528)
T 3tr5_A           89 TPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEV-CRL---RHTPIMTFINKMDRDTR  149 (528)
T ss_dssp             CCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHH-HHT---TTCCEEEEEECTTSCCS
T ss_pred             CCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHH-HHH---cCCCEEEEEeCCCCccc
Confidence            99999999999999999999999999999877666554432 222   46899999999999754

>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=99.79  E-value=1.6e-18  Score=149.46  Aligned_cols=160  Identities=16%  Similarity=0.138  Sum_probs=105.8

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC---CCCCccc--cce-eeeeeeE---------Ec----CC-Cc----EEEEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR---FISRYKE--TVE-ELHRGEY---------EL----PD-GA----QLTLD  101 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~---~~~~~~~--t~~-~~~~~~~---------~~----~~-~~----~~~~~  101 (253)
                      ....++|+++|+.++|||||+++|++..   +..+...  |.. .+....+         ..    ++ +.    ...+.
T Consensus         7 ~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   86 (410)
T 1kk1_A            7 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVS   86 (410)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEE
Confidence            3567899999999999999999998543   2222111  221 1111111         10    00 11    26799


Q ss_pred             EEeCCCCCCChhhHHHhcccCCEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcccc---HH
Q psy549          102 ILDTSGAYQFPAMRELSISTADAFVLVYAVDDA----STWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR---RE  174 (253)
Q Consensus       102 l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~----~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~---~~  174 (253)
                      ||||||+++|.......+..+|++|+|+|++++    ++++.+..    +...  ...|+++|+||+|+.+....   .+
T Consensus        87 iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~----~~~~--~~~~iivviNK~Dl~~~~~~~~~~~  160 (410)
T 1kk1_A           87 FIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMA----LQII--GQKNIIIAQNKIELVDKEKALENYR  160 (410)
T ss_dssp             EEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHH----HHHH--TCCCEEEEEECGGGSCHHHHHHHHH
T ss_pred             EEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHH----HHHc--CCCcEEEEEECccCCCHHHHHHHHH
Confidence            999999999887777778889999999999964    33333222    2222  22589999999999765321   22


Q ss_pred             HHHHHHHh--cCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          175 IAETIALY--DWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       175 ~~~~~~~~--~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      ....+...  ....+++++||++|.|+++++++|.+.+.
T Consensus       161 ~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          161 QIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            22233321  14678999999999999999999987663

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.79  E-value=3.8e-19  Score=145.46  Aligned_cols=158  Identities=18%  Similarity=0.229  Sum_probs=88.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC-CCCc-------cccce-eeeeeeEEcCCCcEEEEEEEeCCCCC-------C
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF-ISRY-------KETVE-ELHRGEYELPDGAQLTLDILDTSGAY-------Q  110 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~-------~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~-------~  110 (253)
                      ...++|+++|.+|+|||||+|+|++... ...+       ..|.. +.....+.. ++..+.+.+|||||..       .
T Consensus         6 g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~liDTpG~~d~~~~~~~   84 (274)
T 3t5d_A            6 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKE-GGVQLLLTIVDTPGFGDAVDNSNC   84 (274)
T ss_dssp             -CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC---CCEEEEEEECCCCSCCSCCTTT
T ss_pred             ccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEec-CCeEEEEEEEECCCccccccchhh
Confidence            3468999999999999999999887553 3333       22222 344444444 5666799999999973       2


Q ss_pred             ChhhH-------HHhccc-------------CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc
Q psy549          111 FPAMR-------ELSIST-------------ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD  170 (253)
Q Consensus       111 ~~~~~-------~~~~~~-------------~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  170 (253)
                      +..+.       ..++..             +|+++++++.+.......-..++..+..    ++|+++|+||+|+....
T Consensus        85 ~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~----~~pvi~V~nK~D~~~~~  160 (274)
T 3t5d_A           85 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE----KVNIIPLIAKADTLTPE  160 (274)
T ss_dssp             THHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT----TSCEEEEESSGGGSCHH
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc----cCCEEEEEeccCCCCHH
Confidence            33333       333332             7789998877652211111223333322    68999999999987542


Q ss_pred             ccHH----HHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          171 VRRE----IAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       171 ~~~~----~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      ....    +.+.+.  ..+++++++|+.++.|+.+++++|.+.+.
T Consensus       161 e~~~~~~~i~~~l~--~~~i~v~~~sa~~~~~~~~l~~~l~~~~p  203 (274)
T 3t5d_A          161 ECQQFKKQIMKEIQ--EHKIKIYEFPETDDEEENKLVKKIKDRLP  203 (274)
T ss_dssp             HHHHHHHHHHHHHH--HTTCCCCCC-----------CHHHHHTCS
T ss_pred             HHHHHHHHHHHHHH--HcCCeEEcCCCCCChhHHHHHHHHhcCCC
Confidence            2222    222222  45778899999999999999999887653

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.79  E-value=2.1e-18  Score=146.46  Aligned_cols=147  Identities=9%  Similarity=0.009  Sum_probs=104.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      +|+++|++++|||||+++|+.       ...+.+.....+.. +  ...+.||||||+++|.......+..+|++|+|+|
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~~-------~giTi~~~~~~~~~-~--~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLGK-------KGTSSDITMYNNDK-E--GRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTSE-------EEEESSSEEEEECS-S--SSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHh-------CCEEEEeeEEEEec-C--CeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc
Confidence            999999999999999999981       12222333333434 2  2468999999999998888888899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCE-EEEEe-cCCCCCccccH---HHHHHHHHhc--CCCcEEE--eccCC---CCC
Q psy549          131 VDDASTWDVVKDLREQIVNKRGLMVPI-VVVGN-KCELEFKDVRR---EIAETIALYD--WQCGFVE--CSAKE---NYN  198 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~n-K~Dl~~~~~~~---~~~~~~~~~~--~~~~~~~--~Sa~~---~~~  198 (253)
                       ++. .+.....++..+..   .++|. ++|+| |+|+ +.....   +..+.+....  ..+++++  +||++   +.|
T Consensus        93 -~~g-~~~qt~e~~~~~~~---~~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~g  166 (370)
T 2elf_A           93 -PQG-LDAHTGECIIALDL---LGFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEG  166 (370)
T ss_dssp             -TTC-CCHHHHHHHHHHHH---TTCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTT
T ss_pred             -CCC-CcHHHHHHHHHHHH---cCCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCC
Confidence             543 33344555554443   34777 88999 9999 542222   2222222211  2478999  99999   999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy549          199 IVQVFKELLAQAKVQ  213 (253)
Q Consensus       199 i~~l~~~l~~~~~~~  213 (253)
                      ++++++.|.+.+...
T Consensus       167 i~~L~~~l~~~~~~~  181 (370)
T 2elf_A          167 VDELKARINEVAEKI  181 (370)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccc
Confidence            999999999887543

>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=99.79  E-value=5.8e-19  Score=155.23  Aligned_cols=151  Identities=15%  Similarity=0.166  Sum_probs=96.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CCCC------------------------------ccccceeeeeeeEEcCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FISR------------------------------YKETVEELHRGEYELPD   94 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~------------------------------~~~t~~~~~~~~~~~~~   94 (253)
                      +..++|+++|++++|||||+++|++..  +...                              ....+.+.....+..  
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~--  108 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFST--  108 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEEC--
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEec--
Confidence            567999999999999999999998652  1110                              011122222223333  


Q ss_pred             CcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHH-----HHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549           95 GAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDV-----VKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus        95 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~-----~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                       ..+.+.||||||+++|...+...+..+|++|+|+|++++.++..     ...+...+.... ...|+++|+||+|+.+.
T Consensus       109 -~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~-~~~~iIvviNK~Dl~~~  186 (483)
T 3p26_A          109 -HRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL-GIHNLIIAMNKMDNVDW  186 (483)
T ss_dssp             -SSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT-TCCCEEEEEECGGGGTT
T ss_pred             -CCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc-CCCcEEEEEECcCcccc
Confidence             34578999999999999999999999999999999998754322     111121222211 22579999999999763


Q ss_pred             --cccH----HHHHHHHHhcC---CCcEEEeccCCCCCHHH
Q psy549          170 --DVRR----EIAETIALYDW---QCGFVECSAKENYNIVQ  201 (253)
Q Consensus       170 --~~~~----~~~~~~~~~~~---~~~~~~~Sa~~~~~i~~  201 (253)
                        ...+    +....+.....   .++++++||++|.|+.+
T Consensus       187 ~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          187 SQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             hHHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence              1111    11222222222   56899999999999875

>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=99.78  E-value=1.7e-18  Score=149.20  Aligned_cols=146  Identities=16%  Similarity=0.182  Sum_probs=98.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhC--------CCCCC----------ccccceeeeeeeEEcCCCcEEEEEEEeCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYD--------RFISR----------YKETVEELHRGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~--------~~~~~----------~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      ....++|+++|++++|||||+++|++.        .+...          ....+.+.  ....+ +.....+.||||||
T Consensus         8 ~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~--~~~~~-~~~~~~~~iiDtpG   84 (405)
T 2c78_A            8 TKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINT--AHVEY-ETAKRHYSHVDCPG   84 (405)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSC--EEEEE-ECSSCEEEEEECCC
T ss_pred             CCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEe--eeeEe-ccCCeEEEEEECCC
Confidence            456799999999999999999999973        21110          01111122  22233 22335789999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCc-ccc---HHHHHHH-HH
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFK-DVR---REIAETI-AL  181 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~-~~~---~~~~~~~-~~  181 (253)
                      +++|...+...+..+|++|+|+|++++...+. ..|+..+..   .++| +++|+||+|+... ...   .+....+ ..
T Consensus        85 ~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt-~~~l~~~~~---~~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~  160 (405)
T 2c78_A           85 HADYIKNMITGAAQMDGAILVVSAADGPMPQT-REHILLARQ---VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQ  160 (405)
T ss_dssp             SGGGHHHHHHHHTTCSSEEEEEETTTCCCHHH-HHHHHHHHH---TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCEEEEEEECccccCcHHHHHHHHHHHHHHHHH
Confidence            99999888889999999999999998765433 445544443   3578 8999999999753 111   1122233 32


Q ss_pred             hcC---CCcEEEeccCCCCC
Q psy549          182 YDW---QCGFVECSAKENYN  198 (253)
Q Consensus       182 ~~~---~~~~~~~Sa~~~~~  198 (253)
                      ...   ..+++++||++|.|
T Consensus       161 ~~~~~~~~~~i~~SA~~g~~  180 (405)
T 2c78_A          161 YEFPGDEVPVIRGSALLALE  180 (405)
T ss_dssp             TTSCTTTSCEEECCHHHHHH
T ss_pred             hcccccCCCEEEccHHHhhh
Confidence            222   37899999999987

>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=99.78  E-value=9.7e-19  Score=150.23  Aligned_cols=156  Identities=14%  Similarity=0.113  Sum_probs=104.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC-------CCCC----------ccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR-------FISR----------YKETVEELHRGEYELPDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~-------~~~~----------~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~  110 (253)
                      +.++|+++|++++|||||+++|++..       +...          ....+.+.  ....+ +.....+.||||||+++
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~--~~~~~-~~~~~~~~iiDtpG~~~   78 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINA--AHVEY-STAARHYAHTDCPGHAD   78 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEEC--EEEEE-ECSSCEEEEEECSSHHH
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEe--eeEEe-ccCCeEEEEEECCChHH
Confidence            46899999999999999999999731       1100          00111111  11223 22335789999999999


Q ss_pred             ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCc-cc---cHHHHHHHHH-hcC
Q psy549          111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFK-DV---RREIAETIAL-YDW  184 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~-~~---~~~~~~~~~~-~~~  184 (253)
                      |...+...+..+|++|+|+|+++....+....| ..+..   .++| +++|+||+|+.+. ..   ..+....+.. ...
T Consensus        79 f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l-~~~~~---~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~  154 (397)
T 1d2e_A           79 YVKNMITGTAPLDGCILVVAANDGPMPQTREHL-LLARQ---IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGY  154 (397)
T ss_dssp             HHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHH-HHHHH---cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCC
Confidence            988888889999999999999986554443333 33332   4578 7899999999753 11   1122233333 222


Q ss_pred             ---CCcEEEeccCCCCC----------HHHHHHHHHHHH
Q psy549          185 ---QCGFVECSAKENYN----------IVQVFKELLAQA  210 (253)
Q Consensus       185 ---~~~~~~~Sa~~~~~----------i~~l~~~l~~~~  210 (253)
                         .++++++||++|.|          +.++++.|.+.+
T Consensus       155 ~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~  193 (397)
T 1d2e_A          155 KGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (397)
T ss_dssp             CTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             CcccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhC
Confidence               36899999999764          788888877655

>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=99.78  E-value=1.8e-19  Score=157.55  Aligned_cols=154  Identities=17%  Similarity=0.207  Sum_probs=100.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCC--------CCCChhhHH
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSG--------AYQFPAMRE  116 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g--------~~~~~~~~~  116 (253)
                      ....+|+|+|.+|||||||+|+|++..+  +.+.+.++.+.....+.. ++  ..+.+|||||        ++++.....
T Consensus        21 m~~~~V~lvG~~nvGKSTL~n~l~~~~~~~v~~~~g~t~~~~~~~~~~-~~--~~~~liDT~G~~~~~~~~~~~~~~~~~   97 (456)
T 4dcu_A           21 MGKPVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEW-LN--YDFNLIDTGGIDIGDEPFLAQIRQQAE   97 (456)
T ss_dssp             --CCEEEEECSSSSSHHHHHHHHEEEEEC-----------CEEEECTT-CS--SCCEEECCCC------CCHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcceeEEEEEEEE-CC--ceEEEEECCCCCCcchHHHHHHHHHHH
Confidence            4467999999999999999999998764  445556666666655555 33  4789999999        555666777


Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          117 LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       117 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      .+++.+|++|+|+|..+.....  ..|+..+..  ..++|+++|+||+|+....  .... .+..... ..++++||++|
T Consensus        98 ~~~~~ad~il~VvD~~~~~~~~--d~~l~~~l~--~~~~pvilV~NK~D~~~~~--~~~~-e~~~lg~-~~~~~iSA~~g  169 (456)
T 4dcu_A           98 IAMDEADVIIFMVNGREGVTAA--DEEVAKILY--RTKKPVVLAVNKLDNTEMR--ANIY-DFYSLGF-GEPYPISGTHG  169 (456)
T ss_dssp             HHHHHCSEEEEEEESSSCSCHH--HHHHHHHHT--TCCSCEEEEEECC-----------C-CSGGGSS-SSEEECCTTTC
T ss_pred             hhHhhCCEEEEEEeCCCCCChH--HHHHHHHHH--HcCCCEEEEEECccchhhh--hhHH-HHHHcCC-CceEEeecccc
Confidence            7899999999999988754432  334333333  2578999999999976431  1111 1222122 24679999999


Q ss_pred             CCHHHHHHHHHHHHH
Q psy549          197 YNIVQVFKELLAQAK  211 (253)
Q Consensus       197 ~~i~~l~~~l~~~~~  211 (253)
                      .|+.++++++.+.+.
T Consensus       170 ~gv~~L~~~i~~~l~  184 (456)
T 4dcu_A          170 LGLGDLLDAVAEHFK  184 (456)
T ss_dssp             TTHHHHHHHHHTTGG
T ss_pred             cchHHHHHHHHhhcc
Confidence            999999999987664

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.77  E-value=6.5e-19  Score=145.64  Aligned_cols=163  Identities=20%  Similarity=0.195  Sum_probs=101.8

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCC-------ccc----------------------cceeeee---------
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISR-------YKE----------------------TVEELHR---------   87 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~-------~~~----------------------t~~~~~~---------   87 (253)
                      ....++|+|+|.+|||||||+|+|++..+...       .+.                      ++.+...         
T Consensus        23 ~~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~  102 (299)
T 2aka_B           23 DLDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDR  102 (299)
T ss_dssp             TCCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHH
Confidence            34568999999999999999999999876311       111                      1111000         


Q ss_pred             ------------eeEEcCCCcEEEEEEEeCCCCC-------------CChhhHHHhcccCCEEE-EEEECCChhhHHHHH
Q psy549           88 ------------GEYELPDGAQLTLDILDTSGAY-------------QFPAMRELSISTADAFV-LVYAVDDASTWDVVK  141 (253)
Q Consensus        88 ------------~~~~~~~~~~~~~~l~D~~g~~-------------~~~~~~~~~~~~~d~~i-~v~d~~~~~s~~~~~  141 (253)
                                  ..+.+.......+.||||||..             .+..+...+++.++.++ +|+|+++........
T Consensus       103 i~g~~~gi~~~~~~~~~~~~~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~  182 (299)
T 2aka_B          103 VTGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL  182 (299)
T ss_dssp             HCSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHH
T ss_pred             hcccCCCccccceEEEEeCCCCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHH
Confidence                        0000000012478999999964             23455566788888776 799998765443333


Q ss_pred             HHHHHHHHhcCCCCCEEEEEecCCCCCccc-cHHHHHHH-HHhc-CCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          142 DLREQIVNKRGLMVPIVVVGNKCELEFKDV-RREIAETI-ALYD-WQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       142 ~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-~~~~~~~~-~~~~-~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      .+...+   ...+.|+++|+||+|+.+... ..+..+.. .... ...+++++||++|.|++++|+++.+...
T Consensus       183 ~~~~~~---~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~~~  252 (299)
T 2aka_B          183 KIAKEV---DPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAERK  252 (299)
T ss_dssp             HHHHHH---CTTCSSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHHHH
T ss_pred             HHHHHh---CCCCCeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHHHH
Confidence            343333   235689999999999876522 22222210 0000 1246788999999999999999987543

>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=99.77  E-value=3.1e-19  Score=148.25  Aligned_cols=118  Identities=14%  Similarity=0.070  Sum_probs=93.2

Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECC----------ChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCC
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVD----------DASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCE  165 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~D  165 (253)
                      .+.+++||++|+++++..|..++++++++|+|+|++          +..++.....|+..+.... ..++|+++++||+|
T Consensus       166 ~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~D  245 (327)
T 3ohm_A          166 SVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKD  245 (327)
T ss_dssp             TEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHH
T ss_pred             ceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECch
Confidence            478999999999999999999999999999999665          5566777677777766532 25699999999999


Q ss_pred             CCCcc-----------------ccHHHHHHHHH---------hcCCCcEEEeccCCCCCHHHHHHHHHHHHHHhc
Q psy549          166 LEFKD-----------------VRREIAETIAL---------YDWQCGFVECSAKENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       166 l~~~~-----------------~~~~~~~~~~~---------~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  214 (253)
                      +....                 ...+.+..+..         ....+.+++|||+++.||.++|..+.+.+...+
T Consensus       246 L~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~~  320 (327)
T 3ohm_A          246 LLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLN  320 (327)
T ss_dssp             HHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             hhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHHHHHHHh
Confidence            86432                 34555555521         134567899999999999999999999997653

>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=99.77  E-value=6.4e-19  Score=148.84  Aligned_cols=117  Identities=14%  Similarity=0.067  Sum_probs=87.7

Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCC----------hhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCC
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDD----------ASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCE  165 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~D  165 (253)
                      .+.+++|||+|++.++..|..++++++++|+|+|+++          ..++.....|+..+... ...++|+++|+||+|
T Consensus       200 ~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~D  279 (362)
T 1zcb_A          200 NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTD  279 (362)
T ss_dssp             TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHH
T ss_pred             CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChh
Confidence            3689999999999999999999999999999999999          67888888888887763 235799999999999


Q ss_pred             CCCc-----------------cccHHHHHHHH-----H--h---cCCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          166 LEFK-----------------DVRREIAETIA-----L--Y---DWQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       166 l~~~-----------------~~~~~~~~~~~-----~--~---~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      +...                 .+..+.+..+.     .  .   ...+.+++|||+++.||.++|+++.+.+...
T Consensus       280 L~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~  354 (362)
T 1zcb_A          280 LLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  354 (362)
T ss_dssp             HHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHHHH
Confidence            8632                 14445555443     1  0   2357789999999999999999999988654

>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=99.77  E-value=2.9e-19  Score=155.19  Aligned_cols=154  Identities=19%  Similarity=0.214  Sum_probs=100.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC--CCCCCc------------------------------cccceeeeeeeEEcCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD--RFISRY------------------------------KETVEELHRGEYELPD   94 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~--~~~~~~------------------------------~~t~~~~~~~~~~~~~   94 (253)
                      +..++|+++|++++|||||+++|+..  .+....                              ..++.+.....+..  
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~--   81 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFET--   81 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEEC--
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEec--
Confidence            45689999999999999999999874  232110                              11222222223333  


Q ss_pred             CcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHH----hcCCC-CCEEEEEecCCCCCc
Q psy549           95 GAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN----KRGLM-VPIVVVGNKCELEFK  169 (253)
Q Consensus        95 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~----~~~~~-~piilv~nK~Dl~~~  169 (253)
                       ..+.+.||||||+++|...+...+..+|++|+|+|+++ .+|+....|......    ....+ .|+++|+||+|+.+.
T Consensus        82 -~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~  159 (435)
T 1jny_A           82 -KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEP  159 (435)
T ss_dssp             -SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSS
T ss_pred             -CCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCc
Confidence             33578999999999999999999999999999999998 566643322111111    11123 368999999999762


Q ss_pred             c-------ccHHHHHHHHHhcC----CCcEEEeccCCCCCHHHHHH
Q psy549          170 D-------VRREIAETIALYDW----QCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       170 ~-------~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      .       ...+....+.....    .++++++||++|.|+.++++
T Consensus       160 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          160 PYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             cccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            1       11222333333222    37899999999999986654

>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=99.77  E-value=4e-19  Score=150.59  Aligned_cols=160  Identities=20%  Similarity=0.196  Sum_probs=85.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC-CCCCcc--------ccce-eeeeeeEEcCCCcEEEEEEEeCCCC-------CC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR-FISRYK--------ETVE-ELHRGEYELPDGAQLTLDILDTSGA-------YQ  110 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~-~~~~~~--------~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~-------~~  110 (253)
                      ..++|+|+|++|+|||||+++|++.. +...+.        .|.. ......+.. ++..+.+++|||||.       +.
T Consensus        36 ~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~-~~~~~~l~i~DTpG~gd~~~~~e~  114 (361)
T 2qag_A           36 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEE-RGVKLRLTVVDTPGYGDAINCRDC  114 (361)
T ss_dssp             CEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC-----CEEEEEEEEC-------------
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeec-CCcccceEEEEeccccccCccHHH
Confidence            45899999999999999999987654 332221        1221 222233333 555678999999998       66


Q ss_pred             ChhhHH-------HhcccCCEE-----------EEEEECCC-hhhHHHHHH-HHHHHHHhcCCCCCEEEEEecCCCCCcc
Q psy549          111 FPAMRE-------LSISTADAF-----------VLVYAVDD-ASTWDVVKD-LREQIVNKRGLMVPIVVVGNKCELEFKD  170 (253)
Q Consensus       111 ~~~~~~-------~~~~~~d~~-----------i~v~d~~~-~~s~~~~~~-~~~~~~~~~~~~~piilv~nK~Dl~~~~  170 (253)
                      +..++.       .+++.++++           ++||++++ ..++..+.. |+..+    ..++|+++|+||+|+....
T Consensus       115 ~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~~  190 (361)
T 2qag_A          115 FKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTLK  190 (361)
T ss_dssp             -CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCHH
Confidence            666655       555544332           35555554 344444432 33322    3678999999999987652


Q ss_pred             -ccH--HHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHHhc
Q psy549          171 -VRR--EIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQY  214 (253)
Q Consensus       171 -~~~--~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  214 (253)
                       +..  +.+..+.. ..+++++++||+++.+ ++.|.++.+.+....
T Consensus       191 ev~~~k~~i~~~~~-~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~i  235 (361)
T 2qag_A          191 ERERLKKRILDEIE-EHNIKIYHLPDAESDE-DEDFKEQTRLLKASI  235 (361)
T ss_dssp             HHHHHHHHHHHHTT-CC-CCSCCCC----------CHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHH-HCCCCEEeCCCcCCCc-chhHHHHHHHHHhcC
Confidence             222  23444444 4678999999999999 888988888886654

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.77  E-value=1.9e-18  Score=155.43  Aligned_cols=154  Identities=16%  Similarity=0.261  Sum_probs=102.0

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC--CCC------------------------------ccccceeeeeeeEEcC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF--ISR------------------------------YKETVEELHRGEYELP   93 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~------------------------------~~~t~~~~~~~~~~~~   93 (253)
                      ....++|+|+|++|+|||||+++|++...  ...                              ...++.+.....+.. 
T Consensus       164 ~k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~-  242 (611)
T 3izq_1          164 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFST-  242 (611)
T ss_dssp             CCCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEEC-
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEec-
Confidence            46689999999999999999999997532  110                              012233444444444 


Q ss_pred             CCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhh---HHHHHHHHHHHHHhcCCCC-CEEEEEecCCCCCc
Q psy549           94 DGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAST---WDVVKDLREQIVNKRGLMV-PIVVVGNKCELEFK  169 (253)
Q Consensus        94 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl~~~  169 (253)
                      +  .+.+.||||||+++|...+...+..+|++|+|+|++++..   |....++...+......++ |+++|+||+|+.+.
T Consensus       243 ~--~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~~  320 (611)
T 3izq_1          243 H--RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDW  320 (611)
T ss_dssp             S--SCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTTT
T ss_pred             C--CceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccch
Confidence            2  3578999999999999888889999999999999987531   1011122222222122344 59999999999763


Q ss_pred             --c----ccHHHHHHHHHhcC---CCcEEEeccCCCCCHHHH
Q psy549          170 --D----VRREIAETIALYDW---QCGFVECSAKENYNIVQV  202 (253)
Q Consensus       170 --~----~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~i~~l  202 (253)
                        .    ...+....+.....   .++++++||++|.|+.++
T Consensus       321 ~~~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          321 SQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             hHHHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence              1    11222222222222   478999999999999876

>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=99.76  E-value=1.1e-19  Score=158.94  Aligned_cols=154  Identities=25%  Similarity=0.329  Sum_probs=106.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCC-CccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFIS-RYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..++|+++|++++|||||+++|.+..+.. .....+.+.....+.+ ++  ..+.||||||++.|..++...+..+|+++
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~-~~--~~i~~iDTPGhe~f~~~~~~~~~~aD~aI   79 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVET-EN--GMITFLDTPGHAAFTSMRARGAQATDIVV   79 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCT-TS--SCCCEECCCTTTCCTTSBCSSSBSCSSEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEE-CC--EEEEEEECCCcHHHHHHHHHHHhhCCEEE
Confidence            46899999999999999999999765432 2223333333344444 33  36789999999999998888899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc---ccHHHH--HHHHH-hcCCCcEEEeccCCCCCHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD---VRREIA--ETIAL-YDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~--~~~~~-~~~~~~~~~~Sa~~~~~i~  200 (253)
                      +|+|++++...+....| ..+..   .++|+++++||+|+.+..   +..+..  ..+.. ....++++++||++|.|++
T Consensus        80 LVVda~~g~~~qT~e~l-~~~~~---~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~gI~  155 (501)
T 1zo1_I           80 LVVAADDGVMPQTIEAI-QHAKA---AQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTGID  155 (501)
T ss_dssp             EEEETTTBSCTTTHHHH-HHHHH---TTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTTCT
T ss_pred             EEeecccCccHHHHHHH-HHHHh---cCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccCcc
Confidence            99999885332222222 22222   468999999999997531   111000  00111 0123789999999999999


Q ss_pred             HHHHHHHH
Q psy549          201 QVFKELLA  208 (253)
Q Consensus       201 ~l~~~l~~  208 (253)
                      ++|+++..
T Consensus       156 eLle~I~~  163 (501)
T 1zo1_I          156 ELLDAILL  163 (501)
T ss_dssp             THHHHTTT
T ss_pred             hhhhhhhh
Confidence            99999864

>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=99.76  E-value=5.1e-19  Score=154.81  Aligned_cols=154  Identities=21%  Similarity=0.220  Sum_probs=90.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC--CCCC------------------------C------ccccceeeeeeeEEcCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD--RFIS------------------------R------YKETVEELHRGEYELPD   94 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~--~~~~------------------------~------~~~t~~~~~~~~~~~~~   94 (253)
                      +..++|+++|++++|||||+++|+..  .+..                        +      ....+.+.....+.+ +
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~-~  119 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFET-E  119 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEEC-S
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEec-C
Confidence            46789999999999999999999752  2210                        0      011122222233444 3


Q ss_pred             CcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChh---hHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCcc
Q psy549           95 GAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAS---TWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFKD  170 (253)
Q Consensus        95 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~  170 (253)
                        ...+.||||||+++|...+...+..+|++|+|+|++++.   +|+...+|...+......++| +++|+||+|+....
T Consensus       120 --~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~  197 (467)
T 1r5b_A          120 --HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQ  197 (467)
T ss_dssp             --SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCS
T ss_pred             --CeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCcc
Confidence              357899999999999988888899999999999999863   333222333322222224577 99999999996521


Q ss_pred             c--------cHHHHHHHHHh-cC----CCcEEEeccCCCCCHHHHH
Q psy549          171 V--------RREIAETIALY-DW----QCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       171 ~--------~~~~~~~~~~~-~~----~~~~~~~Sa~~~~~i~~l~  203 (253)
                      .        ..+....+... ..    .++++++||++|.|+.+++
T Consensus       198 ~~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          198 WSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             ccHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            1        11222333332 22    4679999999999998866

>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=99.76  E-value=4.7e-19  Score=154.65  Aligned_cols=149  Identities=19%  Similarity=0.200  Sum_probs=99.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC--CCCCC------------------------------ccccceeeeeeeEEcCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD--RFISR------------------------------YKETVEELHRGEYELPD   94 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~--~~~~~------------------------------~~~t~~~~~~~~~~~~~   94 (253)
                      ...++|+++|++++|||||+++|++.  .+...                              ....+.+.....+..  
T Consensus         5 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~--   82 (458)
T 1f60_A            5 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFET--   82 (458)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEEC--
T ss_pred             CceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEec--
Confidence            45799999999999999999999864  22110                              011122222223333  


Q ss_pred             CcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChh---hH----HHHHHHHHHHHHhcCCCCC-EEEEEecCCC
Q psy549           95 GAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAS---TW----DVVKDLREQIVNKRGLMVP-IVVVGNKCEL  166 (253)
Q Consensus        95 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~----~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  166 (253)
                       ....+.||||||+++|...+...+..+|++|+|+|++++.   +|    +... ++..+..   .++| +++|+||+|+
T Consensus        83 -~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~-~~~~~~~---~~v~~iivviNK~Dl  157 (458)
T 1f60_A           83 -PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTRE-HALLAFT---LGVRQLIVAVNKMDS  157 (458)
T ss_dssp             -SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHH-HHHHHHH---TTCCEEEEEEECGGG
T ss_pred             -CCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHH-HHHHHHH---cCCCeEEEEEEcccc
Confidence             3467999999999999999888999999999999999763   22    2222 2222222   3465 8999999999


Q ss_pred             CCc--cc---cHHHHHHH-HHhcC---CCcEEEeccCCCCCHHHH
Q psy549          167 EFK--DV---RREIAETI-ALYDW---QCGFVECSAKENYNIVQV  202 (253)
Q Consensus       167 ~~~--~~---~~~~~~~~-~~~~~---~~~~~~~Sa~~~~~i~~l  202 (253)
                      .+.  ..   ..+....+ .....   .++++++||++|.|+.++
T Consensus       158 ~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          158 VKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             GTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             ccCCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            742  11   11222222 32222   378999999999998754

>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=99.76  E-value=9.1e-18  Score=145.79  Aligned_cols=152  Identities=23%  Similarity=0.164  Sum_probs=99.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CCCC----------ccccceeee--------------------eeeEEcCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FISR----------YKETVEELH--------------------RGEYELPD   94 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~----------~~~t~~~~~--------------------~~~~~~~~   94 (253)
                      ...++|+++|++++|||||+++|++..  +...          ...+++..+                    .....+ +
T Consensus        22 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~-~  100 (434)
T 1zun_B           22 KEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYF-S  100 (434)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEE-E
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEe-e
Confidence            456899999999999999999998654  1111          112211100                    001111 2


Q ss_pred             CcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC-CEEEEEecCCCCCcc--c
Q psy549           95 GAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMV-PIVVVGNKCELEFKD--V  171 (253)
Q Consensus        95 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl~~~~--~  171 (253)
                      .....+.||||||+++|...+...+..+|++|+|+|++++...+. ..++..+..   .++ |+++|+||+|+.+..  .
T Consensus       101 ~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt-~~~l~~~~~---~~~~~iIvviNK~Dl~~~~~~~  176 (434)
T 1zun_B          101 TAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQT-RRHSYIASL---LGIKHIVVAINKMDLNGFDERV  176 (434)
T ss_dssp             CSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCEEEEEEECTTTTTSCHHH
T ss_pred             cCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCeEEEEEEcCcCCcccHHH
Confidence            234678999999999999888888999999999999998754333 333333333   234 589999999997631  1


Q ss_pred             ---cHHHHHHHHHhcCC-----CcEEEeccCCCCCHHHHHH
Q psy549          172 ---RREIAETIALYDWQ-----CGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       172 ---~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~l~~  204 (253)
                         ..+....+.. ..+     .+++++||++|.|+.++++
T Consensus       177 ~~~i~~~~~~~~~-~~g~~~~~~~~i~vSA~~g~gi~~~~~  216 (434)
T 1zun_B          177 FESIKADYLKFAE-GIAFKPTTMAFVPMSALKGDNVVNKSE  216 (434)
T ss_dssp             HHHHHHHHHHHHH-TTTCCCSEEEEEECCTTTCTTTSSCCT
T ss_pred             HHHHHHHHHHHHH-HhCCCccCceEEEEeccCCCCcccccc
Confidence               1222333333 233     6899999999999988543

>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=99.76  E-value=1.7e-18  Score=144.28  Aligned_cols=116  Identities=14%  Similarity=0.055  Sum_probs=91.9

Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECC----------ChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCC
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVD----------DASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCE  165 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~D  165 (253)
                      .+.+++||++|+++++..|..++++++++|+|||++          +..++.....|+..+.... ..++|+++|+||+|
T Consensus       160 ~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~D  239 (340)
T 4fid_A          160 DIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMD  239 (340)
T ss_dssp             SCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHH
T ss_pred             eeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECch
Confidence            467899999999999999999999999999999998          6778888788887777643 35799999999999


Q ss_pred             CCCcc----------------ccHHHHHH-HHHhc-------------------------CCCcEEEeccCCCCCHHHHH
Q psy549          166 LEFKD----------------VRREIAET-IALYD-------------------------WQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       166 l~~~~----------------~~~~~~~~-~~~~~-------------------------~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +....                ...+.+.. +....                         ..+.+++|||++..+|..+|
T Consensus       240 L~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~vF  319 (340)
T 4fid_A          240 LFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNIKRVF  319 (340)
T ss_dssp             HHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHHHHHH
T ss_pred             hhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHHHHHH
Confidence            86421                12223322 22211                         24678999999999999999


Q ss_pred             HHHHHHHHH
Q psy549          204 KELLAQAKV  212 (253)
Q Consensus       204 ~~l~~~~~~  212 (253)
                      ..+.+.+..
T Consensus       320 ~~v~~~Il~  328 (340)
T 4fid_A          320 MLAVDVIMK  328 (340)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999876

>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=99.74  E-value=2.4e-17  Score=129.15  Aligned_cols=156  Identities=12%  Similarity=0.089  Sum_probs=97.8

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCC----------hhh
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQF----------PAM  114 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~----------~~~  114 (253)
                      .....+|+|+|++|||||||+++|.+..+.....++.. ......+.+ ++   .+.+||+||....          ...
T Consensus        23 ~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~-~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~   98 (210)
T 1pui_A           23 SDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEV-AD---GKRLVDLPGYGYAEVPEEMKRKWQRA   98 (210)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEE-ET---TEEEEECCCCC------CCHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEe-cC---CEEEEECcCCcccccCHHHHHHHHHH
Confidence            34568999999999999999999998764322222222 122233334 22   4679999997532          222


Q ss_pred             HHHhc---ccCCEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCCEEEEEecCCCCCcc---ccHHHHHHHHHh-cCC
Q psy549          115 RELSI---STADAFVLVYAVDDASTWDV--VKDLREQIVNKRGLMVPIVVVGNKCELEFKD---VRREIAETIALY-DWQ  185 (253)
Q Consensus       115 ~~~~~---~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~-~~~  185 (253)
                      ...++   ..++++++|+|+.++.++..  +..|+   ..   .++|+++|+||+|+....   .....+..+... ...
T Consensus        99 ~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~---~~---~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~  172 (210)
T 1pui_A           99 LGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWA---VD---SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGD  172 (210)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHH---HH---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSC
T ss_pred             HHHHHHhhhcccEEEEEEECCCCCchhHHHHHHHH---HH---cCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCC
Confidence            23333   46899999999988755432  22222   11   458999999999987541   112333333331 224


Q ss_pred             CcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          186 CGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       186 ~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      +.++++|++++.++++++++|.+.+.
T Consensus       173 ~~~~~~Sal~~~~~~~l~~~l~~~~~  198 (210)
T 1pui_A          173 VQVETFSSLKKQGVDKLRQKLDTWFS  198 (210)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHHC
T ss_pred             CceEEEeecCCCCHHHHHHHHHHHHh
Confidence            57889999999999999999988763

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.73  E-value=2.1e-17  Score=150.88  Aligned_cols=164  Identities=15%  Similarity=0.218  Sum_probs=107.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceee--------eeeeEEcCCCcE--------------------
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEEL--------HRGEYELPDGAQ--------------------   97 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~--------~~~~~~~~~~~~--------------------   97 (253)
                      ...++|+|+|.+|+|||||+|+|++..+ +....+++...        ......+.++..                    
T Consensus        67 ~~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~  146 (695)
T 2j69_A           67 QGVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEA  146 (695)
T ss_dssp             HCCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHH
Confidence            3568999999999999999999998774 22222232100        000111101100                    


Q ss_pred             ---------------------------EEEEEEeCCCCCC---ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHH
Q psy549           98 ---------------------------LTLDILDTSGAYQ---FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQI  147 (253)
Q Consensus        98 ---------------------------~~~~l~D~~g~~~---~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  147 (253)
                                                 ..+.||||||...   .......+++.+|++|+|+|++++.+......|...+
T Consensus       147 ~~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l  226 (695)
T 2j69_A          147 KKLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYI  226 (695)
T ss_dssp             HHHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHT
T ss_pred             HHHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHH
Confidence                                       2578999999654   3445556889999999999999887776665554433


Q ss_pred             HHhcCCCCCEEEEEecCCCCCcc-ccH-----------HHH----HHHHHh-------cCCCcEEEeccC----------
Q psy549          148 VNKRGLMVPIVVVGNKCELEFKD-VRR-----------EIA----ETIALY-------DWQCGFVECSAK----------  194 (253)
Q Consensus       148 ~~~~~~~~piilv~nK~Dl~~~~-~~~-----------~~~----~~~~~~-------~~~~~~~~~Sa~----------  194 (253)
                      .   ..+.|+++|+||+|+.... ...           ...    ..+...       ....++++|||+          
T Consensus       227 ~---~~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~  303 (695)
T 2j69_A          227 K---GRGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNP  303 (695)
T ss_dssp             T---TSCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCT
T ss_pred             H---hhCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCc
Confidence            2   2357899999999986542 000           111    112211       123479999999          


Q ss_pred             ----CCCCHHHHHHHHHHHHHHh
Q psy549          195 ----ENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       195 ----~~~~i~~l~~~l~~~~~~~  213 (253)
                          ++.|+.++++.+.+.+...
T Consensus       304 ~~~~~~~Gi~~L~~~L~~~l~~~  326 (695)
T 2j69_A          304 QADLDGTGFPKFMDSLNTFLTRE  326 (695)
T ss_dssp             TCCCTTSSHHHHHHHHHHHHHHT
T ss_pred             hhhhhccCHHHHHHHHHHHHHHh
Confidence                9999999999999877543

>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=99.73  E-value=8.1e-17  Score=138.14  Aligned_cols=160  Identities=17%  Similarity=0.143  Sum_probs=113.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh----hhHH---Hhcc
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP----AMRE---LSIS  120 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~----~~~~---~~~~  120 (253)
                      ...|+|+|++|||||||+++|.+... ...++.++.......+.+ ++ ...+.+||+||..+..    .+..   ..++
T Consensus       157 g~~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~-~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~e  234 (416)
T 1udx_A          157 IADVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEV-SE-EERFTLADIPGIIEGASEGKGLGLEFLRHIA  234 (416)
T ss_dssp             SCSEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEEC-SS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEe-cC-cceEEEEeccccccchhhhhhhhHHHHHHHH
Confidence            35689999999999999999998653 345555655555566666 32 2367899999975421    1112   2345


Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          121 TADAFVLVYAVDDASTWDVVKDLREQIVNKRG--LMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       121 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                      .++.+++|+|++ ..++..+..|...+.....  ...|.++|+||+|+... ........... ..+.+++.+||+++.|
T Consensus       235 ra~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~-~~~~~l~~~l~-~~g~~vi~iSA~~g~g  311 (416)
T 1udx_A          235 RTRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE-EAVKALADALA-REGLAVLPVSALTGAG  311 (416)
T ss_dssp             SSSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH-HHHHHHHHHHH-TTTSCEEECCTTTCTT
T ss_pred             HHHhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH-HHHHHHHHHHH-hcCCeEEEEECCCccC
Confidence            799999999998 5566677777666555321  24799999999998764 22222222222 3467899999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy549          199 IVQVFKELLAQAKVQ  213 (253)
Q Consensus       199 i~~l~~~l~~~~~~~  213 (253)
                      +++++++|.+.+...
T Consensus       312 i~eL~~~i~~~l~~~  326 (416)
T 1udx_A          312 LPALKEALHALVRST  326 (416)
T ss_dssp             HHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999998654

>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=99.73  E-value=4.5e-17  Score=148.02  Aligned_cols=116  Identities=19%  Similarity=0.175  Sum_probs=82.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCcccc-----------------ceeeeeeeEEcCCCcEEEEEEEeCCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKET-----------------VEELHRGEYELPDGAQLTLDILDTSGAY  109 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t-----------------~~~~~~~~~~~~~~~~~~~~l~D~~g~~  109 (253)
                      ....+|+|+|++|+|||||+++|++.........+                 ..........+ ....+.+.||||||+.
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~-~~~~~~~nliDTpG~~   85 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPL-LFRGHRVFLLDAPGYG   85 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEE-EETTEEEEEEECCCSG
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEE-eeCCEEEEEEeCCCcc
Confidence            45679999999999999999999953321000000                 01222222233 2234788999999999


Q ss_pred             CChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCC
Q psy549          110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE  167 (253)
Q Consensus       110 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  167 (253)
                      +|...+..+++.+|++++|+|+++...... ..++..+..   .++|+++|+||+|+.
T Consensus        86 ~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt-~~~~~~~~~---~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           86 DFVGEIRGALEAADAALVAVSAEAGVQVGT-ERAWTVAER---LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCEEEEEECGGGC
T ss_pred             chHHHHHHHHhhcCcEEEEEcCCcccchhH-HHHHHHHHH---ccCCEEEEecCCchh
Confidence            999999999999999999999988755443 344444433   468999999999987

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.72  E-value=3.5e-17  Score=132.87  Aligned_cols=117  Identities=21%  Similarity=0.282  Sum_probs=85.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcc-----
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSIS-----  120 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~-----  120 (253)
                      ..++|+|+|++|+|||||+|+|++...  ...+..++.......+.. ++  ..+.||||||++++......+++     
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~l~liDTpG~~~~~~~~~~~~~~i~~~  111 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM-GG--FTINIIDTPGLVEAGYVNHQALELIKGF  111 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEE-TT--EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEE-CC--eeEEEEECCCCCCcccchHHHHHHHHHH
Confidence            569999999999999999999999774  455556565555566666 44  47899999999887655444332     


Q ss_pred             ----cCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCC--CCEEEEEecCCCCC
Q psy549          121 ----TADAFVLVYAVDDASTWDVV-KDLREQIVNKRGLM--VPIVVVGNKCELEF  168 (253)
Q Consensus       121 ----~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~--~piilv~nK~Dl~~  168 (253)
                          .+|++++|++++... +... ..|+..+......+  .|+++|+||+|+..
T Consensus       112 l~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~  165 (262)
T 3def_A          112 LVNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSP  165 (262)
T ss_dssp             TTTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCC
T ss_pred             HhcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCC
Confidence                789999999998754 3332 45666666543333  49999999999853

>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=99.71  E-value=2.5e-17  Score=154.14  Aligned_cols=160  Identities=16%  Similarity=0.121  Sum_probs=104.8

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC-------CCC--Ccc-----ccce-eeeeeeEEcCCCcEEEEEEEeCCCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR-------FIS--RYK-----ETVE-ELHRGEYELPDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~-------~~~--~~~-----~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~  110 (253)
                      ....++|+++|++++|||||+++|++..       +..  ...     .+.+ +.....+.+ +.....+.||||||+++
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f-~~~~~kI~IIDTPGHed  371 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEY-DTPTRHYAHVDCPGHAD  371 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEE-ECSSCEEEEEECCCHHH
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEE-cCCCEEEEEEECCChHH
Confidence            4567999999999999999999998631       100  000     0000 111122233 33345789999999999


Q ss_pred             ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCcc-c---cHHHHHHHHHhcC-
Q psy549          111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFKD-V---RREIAETIALYDW-  184 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~-~---~~~~~~~~~~~~~-  184 (253)
                      |...+...+..+|++|+|+|++++...+. ..++..+..   .++| +++|+||+|+.+.. .   ..+....+..... 
T Consensus       372 F~~~mi~gas~AD~aILVVDAtdGv~~QT-rEhL~ll~~---lgIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~  447 (1289)
T 3avx_A          372 YVKNMITGAAQMDGAILVVAATDGPMPQT-REHILLGRQ---VGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDF  447 (1289)
T ss_dssp             HHHHHHHTSCCCSEEEEEEETTTCSCTTH-HHHHHHHHH---HTCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHhhCCEEEEEEcCCccCcHHH-HHHHHHHHH---cCCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccc
Confidence            98888888999999999999998754433 334443333   3478 78999999997531 1   1122333332122 


Q ss_pred             ---CCcEEEeccCCC--------CCHHHHHHHHHHHH
Q psy549          185 ---QCGFVECSAKEN--------YNIVQVFKELLAQA  210 (253)
Q Consensus       185 ---~~~~~~~Sa~~~--------~~i~~l~~~l~~~~  210 (253)
                         .++++++||++|        .|+.++++.|...+
T Consensus       448 ~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~I  484 (1289)
T 3avx_A          448 PGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYI  484 (1289)
T ss_dssp             CTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTS
T ss_pred             cccceeEEEEEeccCCCCCccccccchhhHhHHhhhc
Confidence               478999999999        35778887776654

>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=99.70  E-value=2.1e-16  Score=144.16  Aligned_cols=116  Identities=18%  Similarity=0.207  Sum_probs=83.9

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC--CCC------C-----C------ccccceeeeeeeEEcCCCcEEEEEEEeCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD--RFI------S-----R------YKETVEELHRGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~--~~~------~-----~------~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      ....+|+|+|++|+|||||+++|+..  .+.      .     +      ....+.......+.+ +  .+.+.||||||
T Consensus        10 ~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~-~--~~~i~liDTPG   86 (691)
T 1dar_A           10 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFW-K--DHRINIIDTPG   86 (691)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEE-T--TEEEEEECCCS
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEE-C--CeEEEEEECcC
Confidence            45789999999999999999999842  110      0     0      001111222223333 2  36789999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      +.+|...+..+++.+|++|+|+|+++...+.....|.. +..   .++|+++|+||+|+...
T Consensus        87 ~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~~~  144 (691)
T 1dar_A           87 HVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMDKTGA  144 (691)
T ss_dssp             STTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTTC
T ss_pred             ccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEECCCcccC
Confidence            99999999999999999999999999888777665654 332   46899999999998754

>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=99.69  E-value=2.6e-17  Score=140.86  Aligned_cols=85  Identities=24%  Similarity=0.304  Sum_probs=48.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEc----C----------------CC-cEEEEEEEeCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYEL----P----------------DG-AQLTLDILDTSG  107 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~----~----------------~~-~~~~~~l~D~~g  107 (253)
                      ++|+|+|.+|||||||+|+|++... ...++.++.+...+...+    +                ++ ..+.+.||||||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            5899999999999999999998763 456666666544443211    0                22 247899999999


Q ss_pred             CCCC----hhhHHH---hcccCCEEEEEEECCCh
Q psy549          108 AYQF----PAMREL---SISTADAFVLVYAVDDA  134 (253)
Q Consensus       108 ~~~~----~~~~~~---~~~~~d~~i~v~d~~~~  134 (253)
                      ....    ..+...   .++.+|++++|+|+++.
T Consensus        81 ~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTCC
T ss_pred             cccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            8642    223332   46889999999999875

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.69  E-value=6.1e-18  Score=151.66  Aligned_cols=148  Identities=24%  Similarity=0.260  Sum_probs=80.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCCC------------------------------ccccceeeeeeeEEcC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FISR------------------------------YKETVEELHRGEYELP   93 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~------------------------------~~~t~~~~~~~~~~~~   93 (253)
                      .+..++|+|+|++++|||||+++|+...  +...                              ...++.+.....+.. 
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~-  252 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFES-  252 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEe-
Confidence            3567899999999999999999997421  1100                              112222333333333 


Q ss_pred             CCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChh---hH----HHHHHHHHHHHHhcCCCCC-EEEEEecCC
Q psy549           94 DGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAS---TW----DVVKDLREQIVNKRGLMVP-IVVVGNKCE  165 (253)
Q Consensus        94 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~----~~~~~~~~~~~~~~~~~~p-iilv~nK~D  165 (253)
                        ....+.||||||+++|...+...+..+|++|+|+|++++.   .+    +... .+..+..   .++| +++|+||+|
T Consensus       253 --~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e-~l~~~~~---lgip~iIvviNKiD  326 (592)
T 3mca_A          253 --DKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTRE-HAYLLRA---LGISEIVVSVNKLD  326 (592)
T ss_dssp             --------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHH-HHHHHHH---SSCCCEEEEEECGG
T ss_pred             --CCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHH-HHHHHHH---cCCCeEEEEEeccc
Confidence              2357899999999999888888889999999999998642   11    1111 1122222   3455 999999999


Q ss_pred             CCCc--cccHHHHHHHHHh---cC-----CCcEEEeccCCCCCHH
Q psy549          166 LEFK--DVRREIAETIALY---DW-----QCGFVECSAKENYNIV  200 (253)
Q Consensus       166 l~~~--~~~~~~~~~~~~~---~~-----~~~~~~~Sa~~~~~i~  200 (253)
                      +.+.  .........+...   ..     .++++++||++|.||.
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            8752  2222222222221   12     2479999999999998

>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=99.69  E-value=7.2e-17  Score=136.90  Aligned_cols=158  Identities=16%  Similarity=0.124  Sum_probs=102.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeee-------------ee-------------------------
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELH-------------RG-------------------------   88 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~-------------~~-------------------------   88 (253)
                      ....|+|+|++|||||||+|+|++..+ +......+....             ..                         
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~  112 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETD  112 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHH
Confidence            345999999999999999999999776 222211111000             00                         


Q ss_pred             --------------eEEcCCCcEEEEEEEeCCCCCCC-------------hhhHHHhcccCCEEEEEEECCChhhHHHHH
Q psy549           89 --------------EYELPDGAQLTLDILDTSGAYQF-------------PAMRELSISTADAFVLVYAVDDASTWDVVK  141 (253)
Q Consensus        89 --------------~~~~~~~~~~~~~l~D~~g~~~~-------------~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~  141 (253)
                                    .+.+.......+++|||||..++             ..+...+++.+|++|+|++..+.....  .
T Consensus       113 ~~~g~~~~~s~~~i~l~i~~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~  190 (360)
T 3t34_A          113 RETGRSKAISSVPIHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--S  190 (360)
T ss_dssp             HTSCTTCCCCCSCEEEEEEETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--C
T ss_pred             HhcCCCCCcccceEEEEEeCCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--H
Confidence                          00110111235789999998876             566677899999999999875433221  3


Q ss_pred             HHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHH
Q psy549          142 DLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLA  208 (253)
Q Consensus       142 ~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  208 (253)
                      .|+..+......+.|+++|+||+|+... ....+..+.+.. ..+.+|+++++.++.++++.+..+..
T Consensus       191 ~~~~l~~~~~~~~~~~i~V~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~v~~~s~~~i~~~~~~~~~  257 (360)
T 3t34_A          191 DAIKISREVDPSGDRTFGVLTKIDLMDKGTDAVEILEGRSF-KLKYPWVGVVNRSQADINKNVDMIAA  257 (360)
T ss_dssp             HHHHHHHHSCTTCTTEEEEEECGGGCCTTCCSHHHHTTSSS-CCSSCCEEECCCCHHHHHTTCCHHHH
T ss_pred             HHHHHHHHhcccCCCEEEEEeCCccCCCcccHHHHHcCccc-cccCCeEEEEECChHHhccCCCHHHH
Confidence            3444444444456899999999998764 333333333333 45678999999998888776555433

>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=99.68  E-value=3.4e-17  Score=135.46  Aligned_cols=160  Identities=18%  Similarity=0.139  Sum_probs=82.9

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC-CCCCCc--------cccce-eeeeeeEEcCCCcEEEEEEEeCCCC-------C
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD-RFISRY--------KETVE-ELHRGEYELPDGAQLTLDILDTSGA-------Y  109 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~-~~~~~~--------~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~-------~  109 (253)
                      .-.++|+|+|++|+|||||+++|.+. .++...        ..+.. ......+.. ++..+.+++||++|.       +
T Consensus        16 ~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~-~~~~~~ltv~Dt~g~~~~~~~~e   94 (301)
T 2qnr_A           16 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEE-RGVKLRLTVVDTPGYGDAINCRD   94 (301)
T ss_dssp             --CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC----CCEEEEEEEEC----------
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecC-CCcccCcchhhhhhhhhhcCcHH
Confidence            34589999999999999999998875 443222        11111 111222222 445678999999998       5


Q ss_pred             CChhhHH-------Hhccc-------------CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          110 QFPAMRE-------LSIST-------------ADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       110 ~~~~~~~-------~~~~~-------------~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      .+..+..       .+++.             +++++++.+++. .+++.+..  ..+... ....|+++|+||+|+.+.
T Consensus        95 ~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~-~~Ld~~~~--~~l~~l-~~~~~iilV~~K~Dl~~~  170 (301)
T 2qnr_A           95 CFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFG-HGLKPLDV--AFMKAI-HNKVNIVPVIAKADTLTL  170 (301)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSS-SSCCHHHH--HHHHHH-TTTSCEEEEECCGGGSCH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcc-cCCCHHHH--HHHHHH-HhcCCEEEEEEeCCCCCH
Confidence            5655554       33332             233444444322 12333331  222222 246799999999998764


Q ss_pred             c---ccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          170 D---VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       170 ~---~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      .   ...+.+..++. ..+++++++||+++ +++++|.++++.+...
T Consensus       171 ~e~~~~~~~~~~~~~-~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~  215 (301)
T 2qnr_A          171 KERERLKKRILDEIE-EHNIKIYHLPDAES-DEDEDFKEQTRLLKAS  215 (301)
T ss_dssp             HHHHHHHHHHHHHHH-HTTCCCCCCC----------CHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHH-HcCCeEEecCCccc-cccHHHHHHHHHhhcC
Confidence            2   12234455555 45689999999999 9999999999988543

>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=99.68  E-value=2.3e-15  Score=137.47  Aligned_cols=120  Identities=17%  Similarity=0.142  Sum_probs=84.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC--CCC-----------Cc------cccceeeeeeeEEcC----CCcEEEEEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR--FIS-----------RY------KETVEELHRGEYELP----DGAQLTLDI  102 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~-----------~~------~~t~~~~~~~~~~~~----~~~~~~~~l  102 (253)
                      .....+|+|+|+.|+|||||+++|+...  +..           ++      ...+.......+.+.    ++..+.+.|
T Consensus         7 ~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~l   86 (704)
T 2rdo_7            7 IARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINI   86 (704)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEE
Confidence            3456899999999999999999998531  110           00      011111111222221    234478999


Q ss_pred             EeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          103 LDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       103 ~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      |||||+.+|...+..+++.+|++|+|+|+++.........|.. ...   .++|+++|+||+|+...
T Consensus        87 iDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~~---~~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           87 IDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-ANK---YKVPRIAFVNKMDRMGA  149 (704)
T ss_pred             EeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HHH---cCCCEEEEEeCCCcccc
Confidence            9999999999999999999999999999998876655444433 222   46899999999998654

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.67  E-value=2.4e-15  Score=137.24  Aligned_cols=116  Identities=20%  Similarity=0.214  Sum_probs=84.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh--CCCCC-----------C------ccccceeeeeeeEEcCCCcEEEEEEEeCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY--DRFIS-----------R------YKETVEELHRGEYELPDGAQLTLDILDTSG  107 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~--~~~~~-----------~------~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g  107 (253)
                      ....+|+|+|++|+|||||+++|+.  +.+..           +      ...++.......+.+ +  .+.+.||||||
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~-~--~~~i~liDTPG   84 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAW-E--GHRVNIIDTPG   84 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEE-T--TEEEEEECCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEE-C--CeeEEEEECcC
Confidence            4568999999999999999999995  22210           0      011112222233344 2  36789999999


Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      +.+|...+..+++.+|++|+|+|+++..++.....|.. +..   .++|+++|+||+|+...
T Consensus        85 ~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~---~~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           85 HVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATT---YGVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             CSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTTC
T ss_pred             CcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHH---cCCCEEEEEECCCcccc
Confidence            99999999999999999999999999877766555543 333   46899999999998764

>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=99.67  E-value=8.3e-17  Score=142.42  Aligned_cols=128  Identities=16%  Similarity=0.243  Sum_probs=84.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CCC--C------ccccc----------e-eeeeeeEEcCCCcEEEEEEEeCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FIS--R------YKETV----------E-ELHRGEYELPDGAQLTLDILDTS  106 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~--~------~~~t~----------~-~~~~~~~~~~~~~~~~~~l~D~~  106 (253)
                      ...+|+|+|++|+|||||+++|+...  +..  .      ...+.          . ........+ +...+.+.|||||
T Consensus        12 ~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~-~~~~~~i~liDTP   90 (529)
T 2h5e_A           12 KRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQF-PYHDCLVNLLDTP   90 (529)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEE-EETTEEEEEECCC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEE-EECCeEEEEEECC
Confidence            56899999999999999999999632  100  0      00000          0 111112222 2234688999999


Q ss_pred             CCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHH
Q psy549          107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL  181 (253)
Q Consensus       107 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~  181 (253)
                      |+.+|...+..+++.+|++|+|+|++++..... ..++..+   ...++|+++|+||+|+..... .+..+.+..
T Consensus        91 G~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t-~~~~~~~---~~~~ipiivviNK~Dl~~~~~-~~~~~~i~~  160 (529)
T 2h5e_A           91 GHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRT-RKLMEVT---RLRDTPILTFMNKLDRDIRDP-MELLDEVEN  160 (529)
T ss_dssp             CSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHH-HHHHHHH---TTTTCCEEEEEECTTSCCSCH-HHHHHHHHH
T ss_pred             CChhHHHHHHHHHHHCCEEEEEEeCCccchHHH-HHHHHHH---HHcCCCEEEEEcCcCCccccH-HHHHHHHHH
Confidence            999999988999999999999999998644322 2222222   225689999999999976532 233444443

>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=99.67  E-value=5.2e-16  Score=129.19  Aligned_cols=111  Identities=15%  Similarity=0.124  Sum_probs=68.2

Q ss_pred             EEEEEEeCCCCCC-------------ChhhHHHhcccCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCEEEEEec
Q psy549           98 LTLDILDTSGAYQ-------------FPAMRELSISTADAFVLVYAVDDAS-TWDVVKDLREQIVNKRGLMVPIVVVGNK  163 (253)
Q Consensus        98 ~~~~l~D~~g~~~-------------~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK  163 (253)
                      ..+.||||||...             +......++..+|++++|+|..+.. .......+...   ....+.|+++|+||
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~---~~~~~~~~i~v~NK  207 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKE---VDPEGKRTIGVITK  207 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHH---HCSSCSSEEEEEEC
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHH---hCCCCCcEEEEEcC
Confidence            4689999999764             3445556788999999999974322 11111122222   22356899999999


Q ss_pred             CCCCCccc-cHHHHHHHHHhcCCCcEEEecc---CC---CCCHHHHHHHHHHHHHH
Q psy549          164 CELEFKDV-RREIAETIALYDWQCGFVECSA---KE---NYNIVQVFKELLAQAKV  212 (253)
Q Consensus       164 ~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~Sa---~~---~~~i~~l~~~l~~~~~~  212 (253)
                      +|+..... ..+..+... ......++++++   .+   +.|+.++++.+.+.+..
T Consensus       208 ~Dl~~~~~~~~~~~~~~~-~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          208 LDLMDKGTDAMEVLTGRV-IPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             TTSSCSSCCCHHHHTTSS-SCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             cccCCcchHHHHHHhCCC-ccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            99876532 222222100 012255666654   44   78999999998887754

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.66  E-value=2.1e-16  Score=128.85  Aligned_cols=118  Identities=22%  Similarity=0.219  Sum_probs=81.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHH-------H-
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRE-------L-  117 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~-------~-  117 (253)
                      ..++|+++|.+|+|||||+|+|++..+  ......++.......+.. +  .+.+.+|||||..++.....       . 
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~-~--~~~l~iiDTpG~~~~~~~~~~~~~~i~~~  114 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSR-A--GFTLNIIDTPGLIEGGYINDMALNIIKSF  114 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEE-T--TEEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEee-C--CeEEEEEECCCCCCCccchHHHHHHHHHH
Confidence            469999999999999999999998775  344444444443333433 3  36789999999877642221       1 


Q ss_pred             -hcccCCEEEEEEECCChhhHHH-HHHHHHHHHHhcCCC--CCEEEEEecCCCCCc
Q psy549          118 -SISTADAFVLVYAVDDASTWDV-VKDLREQIVNKRGLM--VPIVVVGNKCELEFK  169 (253)
Q Consensus       118 -~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~  169 (253)
                       ..+.+|++++|+|++.. ++.. ...|+..+......+  .|+++|+||+|+...
T Consensus       115 ~~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~  169 (270)
T 1h65_A          115 LLDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPP  169 (270)
T ss_dssp             TTTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCG
T ss_pred             hhcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCc
Confidence             13479999999998763 2333 235666665543333  699999999998654

>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=99.65  E-value=5.1e-17  Score=134.47  Aligned_cols=135  Identities=17%  Similarity=0.062  Sum_probs=105.4

Q ss_pred             HHHHHHHhCCCC-CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChh-hHHHHH
Q psy549           64 SIISQFLYDRFI-SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDAS-TWDVVK  141 (253)
Q Consensus        64 sLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~  141 (253)
                      +|+.+++.+.|. ..+.+|.++.+...+.. ++   .+++||+  +++|..++..+++++|++|+|||++++. ++..+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~~~~~~-~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVEYTPDE-TG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEEEECCC-SS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEEEEEcC-CC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            688888888887 77888888666544322 33   6889999  8999999999999999999999999987 788889


Q ss_pred             HHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCC-CcEEEeccCCCCCHHHHHHHHHH
Q psy549          142 DLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQ-CGFVECSAKENYNIVQVFKELLA  208 (253)
Q Consensus       142 ~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~  208 (253)
                      .|+..+..   .++|+++|+||+|+.+.... +..+.+...... .++++|||++|.|++++|..+..
T Consensus       106 ~~l~~~~~---~~~piilv~NK~DL~~~~~v-~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          106 KFLVLAEK---NELETVMVINKMDLYDEDDL-RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             HHHHHHHH---TTCEEEEEECCGGGCCHHHH-HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             HHHHHHHH---CCCCEEEEEeHHHcCCchhH-HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            99887654   46899999999999764221 223344432211 78999999999999999988754

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.64  E-value=2.4e-16  Score=133.37  Aligned_cols=104  Identities=20%  Similarity=0.232  Sum_probs=72.3

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHH
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAE  177 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~  177 (253)
                      +.+.||||||...   .....+..+|++++|+|......+..+...        ....|+++|+||+|+...........
T Consensus       172 ~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~~--------~~~~p~ivVlNK~Dl~~~~~~~~~~~  240 (355)
T 3p32_A          172 FDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKKG--------VLELADIVVVNKADGEHHKEARLAAR  240 (355)
T ss_dssp             CCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCTT--------SGGGCSEEEEECCCGGGHHHHHHHHH
T ss_pred             CCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHHh--------HhhcCCEEEEECCCCcChhHHHHHHH
Confidence            5788999999543   233456889999999998765443222210        12358999999999875422222222


Q ss_pred             HHHHh---------cCCCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          178 TIALY---------DWQCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       178 ~~~~~---------~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      .+...         .|..+++++||++|.|+++++++|.+.+..
T Consensus       241 ~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          241 ELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            23221         346889999999999999999999998865

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.63  E-value=1.5e-14  Score=121.64  Aligned_cols=85  Identities=20%  Similarity=0.219  Sum_probs=62.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCc--------------EEEEEEEeCCCCCCChh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGA--------------QLTLDILDTSGAYQFPA  113 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~--------------~~~~~l~D~~g~~~~~~  113 (253)
                      .++|+|+|.+|||||||+|+|++... ..+++.++.....+.+.+++..              +..+++||+||..++.+
T Consensus         2 ~~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~   81 (363)
T 1jal_A            2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGAS   81 (363)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCccccc
Confidence            37899999999999999999999774 5567777776666677773321              24689999999988753


Q ss_pred             h-------HHHhcccCCEEEEEEECCC
Q psy549          114 M-------RELSISTADAFVLVYAVDD  133 (253)
Q Consensus       114 ~-------~~~~~~~~d~~i~v~d~~~  133 (253)
                      .       ....++.+|++++|+|+++
T Consensus        82 ~~~gl~~~fl~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           82 KGEGLGNKFLANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEECSC
T ss_pred             ccchHHHHHHHHHHhcCeEEEEEecCC
Confidence            2       1235789999999999986

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.60  E-value=1.3e-15  Score=128.52  Aligned_cols=104  Identities=16%  Similarity=0.204  Sum_probs=64.1

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHH
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAE  177 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~  177 (253)
                      +.+.|+||+|....   .......+|++++|+|+..+.....+..   .+     ...|.++|+||+|+.+.........
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i-----l~~~~ivVlNK~Dl~~~~~~~~~~~  235 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI-----IEMADLVAVTKSDGDLIVPARRIQA  235 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHHHHHHHH
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH-----HhcCCEEEEeeecCCCchhHHHHHH
Confidence            46789999996422   2345678999999999987543221111   11     2368899999999864311111122


Q ss_pred             HHHH---------hcCCCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          178 TIAL---------YDWQCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       178 ~~~~---------~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      .+..         ..+..+++.+|+++|.|+++++++|.+.+..
T Consensus       236 ~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~~  279 (349)
T 2www_A          236 EYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQDL  279 (349)
T ss_dssp             HHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            2211         0235678999999999999999999987754

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.60  E-value=1e-15  Score=131.35  Aligned_cols=158  Identities=16%  Similarity=0.210  Sum_probs=77.3

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCC-CCc-------cccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCCh-----
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFI-SRY-------KETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFP-----  112 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~-------~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-----  112 (253)
                      .-.++|+|+|++|+|||||++.|++..+. ...       ..+.. ......+.. ++....+++||++|...+.     
T Consensus        29 ~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~-~~~~~~Ltv~Dt~g~~~~~~~~~~  107 (418)
T 2qag_C           29 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKE-GGVQLLLTIVDTPGFGDAVDNSNC  107 (418)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC-------CEEEEEEECC-----------
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEec-CCcccceeeeechhhhhhccchhh
Confidence            34578999999999999999999987652 211       11221 112222222 3444679999999976542     


Q ss_pred             --hhH------------------HHhcccCCEEEEEEECCCh-hhHHHHH-HHHHHHHHhcCCCCCEEEEEecCCCCCc-
Q psy549          113 --AMR------------------ELSISTADAFVLVYAVDDA-STWDVVK-DLREQIVNKRGLMVPIVVVGNKCELEFK-  169 (253)
Q Consensus       113 --~~~------------------~~~~~~~d~~i~v~d~~~~-~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~-  169 (253)
                        .+.                  ..++.++++.+++|..... .++.... .|+..+.    .++|+++|+||+|+... 
T Consensus       108 ~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll~~~  183 (418)
T 2qag_C          108 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----EKVNIIPLIAKADTLTPE  183 (418)
T ss_dssp             CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----TTSEEEEEEESTTSSCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh----ccCcEEEEEEcccCccHH
Confidence              111                  1133455555555555442 3444443 3554442    36899999999998764 


Q ss_pred             cccH--HHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          170 DVRR--EIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       170 ~~~~--~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      .+..  ..+..... ..+++++++|++++.++.++|..+...+
T Consensus       184 ev~~~k~~i~~~~~-~~~i~~~~~sa~~~~~v~~~~~~l~~~i  225 (418)
T 2qag_C          184 ECQQFKKQIMKEIQ-EHKIKIYEFPETDDEEENKLVKKIKDRL  225 (418)
T ss_dssp             HHHHHHHHHHHHHH-HHTCCCCCCC-----------------C
T ss_pred             HHHHHHHHHHHHHH-HcCCeEEeCCCCCCcCHHHHHHHHHhhC
Confidence            2221  23333333 3478899999999999999887777654

>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=99.59  E-value=1.9e-15  Score=128.68  Aligned_cols=116  Identities=16%  Similarity=0.127  Sum_probs=94.1

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCC----------hhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCC
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDD----------ASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCEL  166 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl  166 (253)
                      +.+++|||+|++.++..|..++++++++|+|||+++          ..+|.....|+..+... ...++|++||+||+|+
T Consensus       217 v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgNK~DL  296 (402)
T 1azs_C          217 VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDL  296 (402)
T ss_dssp             EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEECHHH
T ss_pred             ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEEEEEEChhh
Confidence            679999999999999999999999999999999999          88999999999888764 2367999999999998


Q ss_pred             CCcc----c---------------------------cHHHHHHH-----HHhc-------CCCcEEEeccCCCCCHHHHH
Q psy549          167 EFKD----V---------------------------RREIAETI-----ALYD-------WQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       167 ~~~~----~---------------------------~~~~~~~~-----~~~~-------~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      ....    +                           ..+.+..+     ....       ..+.+++|||+++.||.++|
T Consensus       297 ~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~d~~nV~~vF  376 (402)
T 1azs_C          297 LAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVF  376 (402)
T ss_dssp             HHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTTCHHHHHHHH
T ss_pred             hhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEeecCcCHHHHH
Confidence            5431    1                           12344443     2211       34567899999999999999


Q ss_pred             HHHHHHHHHh
Q psy549          204 KELLAQAKVQ  213 (253)
Q Consensus       204 ~~l~~~~~~~  213 (253)
                      .++.+.+...
T Consensus       377 ~~v~~~I~~~  386 (402)
T 1azs_C          377 NDCRDIIQRM  386 (402)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999888655

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.58  E-value=8.5e-16  Score=129.95  Aligned_cols=160  Identities=18%  Similarity=0.150  Sum_probs=92.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCC-CCccccceeee---------------------------------------
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVEELH---------------------------------------   86 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~~~~---------------------------------------   86 (253)
                      ...++|+|+|.+|||||||+|+|++..+. .....++....                                       
T Consensus        29 ~~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i  108 (353)
T 2x2e_A           29 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  108 (353)
T ss_dssp             CCCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHh
Confidence            34579999999999999999999998762 21111000000                                       


Q ss_pred             ----------eeeEEcCCCcEEEEEEEeCCCCCC-------------ChhhHHHhcccCC-EEEEEEECCChhhHHHHHH
Q psy549           87 ----------RGEYELPDGAQLTLDILDTSGAYQ-------------FPAMRELSISTAD-AFVLVYAVDDASTWDVVKD  142 (253)
Q Consensus        87 ----------~~~~~~~~~~~~~~~l~D~~g~~~-------------~~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~  142 (253)
                                ...+.+.......+.||||||...             +..+...++..++ ++++|.+++....-..   
T Consensus       109 ~g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~---  185 (353)
T 2x2e_A          109 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSD---  185 (353)
T ss_dssp             HTTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCH---
T ss_pred             cccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhH---
Confidence                      000111001124689999999643             3345555666665 4455566554322111   


Q ss_pred             HHHHHHHhcCCCCCEEEEEecCCCCCccc-cHHHHHHHHH-hcCC-CcEEEeccCCCCCHHHHHHHHHHH
Q psy549          143 LREQIVNKRGLMVPIVVVGNKCELEFKDV-RREIAETIAL-YDWQ-CGFVECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       143 ~~~~~~~~~~~~~piilv~nK~Dl~~~~~-~~~~~~~~~~-~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~  209 (253)
                      +...+......+.|+++|+||+|+.+... .....+.... ...+ .+++++||+++.|+.++++++.+.
T Consensus       186 ~~~i~~~~~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~e  255 (353)
T 2x2e_A          186 ALKVAKEVDPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  255 (353)
T ss_dssp             HHHHHHHHCTTCTTEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHhCcCCCceEEEeccccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHHH
Confidence            22222233335689999999999876422 2222110000 0012 356789999999999999998773

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.58  E-value=1.8e-14  Score=127.99  Aligned_cols=117  Identities=15%  Similarity=0.171  Sum_probs=82.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC-----------------CCCCccc-cc---eeeeeeeEEcCCCcEEEEEEEeCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR-----------------FISRYKE-TV---EELHRGEYELPDGAQLTLDILDTS  106 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~-----------------~~~~~~~-t~---~~~~~~~~~~~~~~~~~~~l~D~~  106 (253)
                      ..-+|+|+|+.++|||||..+|+...                 ...++.. ..   .......+.+ ....+.+.|+|||
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~-~~~~~~iNlIDTP  108 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQF-PYRDRVVNLLDTP  108 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEE-EETTEEEEEECCC
T ss_pred             ccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEE-EECCEEEEEEeCC
Confidence            56799999999999999999997211                 0011100 00   0222223333 3334688999999


Q ss_pred             CCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       107 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      |+.+|.......++-+|++|+|+|+.++..-+...-|... ..   .++|.++++||+|....
T Consensus       109 GHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a-~~---~~lp~i~fINK~Dr~~a  167 (548)
T 3vqt_A          109 GHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVC-RM---RATPVMTFVNKMDREAL  167 (548)
T ss_dssp             CGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHH-HH---TTCCEEEEEECTTSCCC
T ss_pred             CcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHH-HH---hCCceEEEEecccchhc
Confidence            9999999999999999999999999998766655555443 33   45899999999998654

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.57  E-value=5.7e-15  Score=116.52  Aligned_cols=154  Identities=16%  Similarity=0.096  Sum_probs=93.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-ee------------eeeeEEcCC-----------------CcE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-EL------------HRGEYELPD-----------------GAQ   97 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~------------~~~~~~~~~-----------------~~~   97 (253)
                      ...+|+|+|.+|||||||+++|+..........+.. ++            ......+..                 ...
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSD  108 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCC
Confidence            347999999999999999999987522110000000 00            000111101                 123


Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc--cccHHH
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK--DVRREI  175 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~  175 (253)
                      +.+.+|||+|+.....   .+....+.+++|+|+.+...  ....+...      .+.|+++|+||+|+...  ....+.
T Consensus       109 ~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~--~~~~~~~~------~~~~~iiv~NK~Dl~~~~~~~~~~~  177 (221)
T 2wsm_A          109 CDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDD--VVEKHPEI------FRVADLIVINKVALAEAVGADVEKM  177 (221)
T ss_dssp             CSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTT--HHHHCHHH------HHTCSEEEEECGGGHHHHTCCHHHH
T ss_pred             CCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcch--hhhhhhhh------hhcCCEEEEecccCCcchhhHHHHH
Confidence            4678999998511110   11135788999999876532  11111111      13689999999998653  122333


Q ss_pred             HHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          176 AETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       176 ~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      .+.+.......+++++||++|.|++++|++|.+.+..
T Consensus       178 ~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~  214 (221)
T 2wsm_A          178 KADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNV  214 (221)
T ss_dssp             HHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC-
T ss_pred             HHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHH
Confidence            3444443456789999999999999999999987743

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.56  E-value=6.2e-14  Score=118.47  Aligned_cols=84  Identities=18%  Similarity=0.163  Sum_probs=60.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCC------------------cEEEEEEEeCCCCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDG------------------AQLTLDILDTSGAYQ  110 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~------------------~~~~~~l~D~~g~~~  110 (253)
                      ++|+|+|.+|||||||+|+|++... ..+++.++.........+++.                  .+..+++||+||..+
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~~   81 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLVK   81 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCccc
Confidence            6899999999999999999998653 455555555444444444221                  235689999999876


Q ss_pred             Ch-------hhHHHhcccCCEEEEEEECCC
Q psy549          111 FP-------AMRELSISTADAFVLVYAVDD  133 (253)
Q Consensus       111 ~~-------~~~~~~~~~~d~~i~v~d~~~  133 (253)
                      +.       ......++.+|++++|+|+++
T Consensus        82 ~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           82 GAHKGEGLGNQFLAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             CCCSSSCTTHHHHHHHHTCSEEEEEEECCC
T ss_pred             cccccchHHHHHHHHHHhCCEEEEEEECCC
Confidence            53       222335789999999999986

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.55  E-value=1.4e-14  Score=128.80  Aligned_cols=121  Identities=23%  Similarity=0.254  Sum_probs=80.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCC----CCccccceee--eee---eE--------------------------
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFI----SRYKETVEEL--HRG---EY--------------------------   90 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~----~~~~~t~~~~--~~~---~~--------------------------   90 (253)
                      ....++|+|+|.+|+|||||+|+|++..+.    ...+.|+...  ...   .+                          
T Consensus        62 ~~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~~  141 (550)
T 2qpt_A           62 FDGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFLN  141 (550)
T ss_dssp             TSSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCSEEEEECCSSSEEECCC------------------CCCT
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccceEEEEEECCcccccCCceeeecCcccHHHHhhhcccccc
Confidence            456789999999999999999999998752    3333332100  000   00                          


Q ss_pred             -----EcCCCcEEEEEEEeCCCCCC-----------ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCC
Q psy549           91 -----ELPDGAQLTLDILDTSGAYQ-----------FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM  154 (253)
Q Consensus        91 -----~~~~~~~~~~~l~D~~g~~~-----------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~  154 (253)
                           .+++.....+.||||||...           +......++..+|++|+|+|+++.........|+..+..   .+
T Consensus       142 ~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~---~~  218 (550)
T 2qpt_A          142 RFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG---HE  218 (550)
T ss_dssp             TEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT---CG
T ss_pred             cceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh---cC
Confidence                 00000002578999999875           445666678899999999999875444444555554432   45


Q ss_pred             CCEEEEEecCCCCCc
Q psy549          155 VPIVVVGNKCELEFK  169 (253)
Q Consensus       155 ~piilv~nK~Dl~~~  169 (253)
                      .|+++|+||+|+...
T Consensus       219 ~pvilVlNK~Dl~~~  233 (550)
T 2qpt_A          219 DKIRVVLNKADMVET  233 (550)
T ss_dssp             GGEEEEEECGGGSCH
T ss_pred             CCEEEEEECCCccCH
Confidence            799999999998765

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.54  E-value=2.2e-14  Score=133.44  Aligned_cols=118  Identities=16%  Similarity=0.223  Sum_probs=85.9

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CCCCc---------------cccceeeeeeeEEc-------------CCCc
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FISRY---------------KETVEELHRGEYEL-------------PDGA   96 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~---------------~~t~~~~~~~~~~~-------------~~~~   96 (253)
                      ....+|+|+|++++|||||+++|+...  +....               ...+.......+.+             .++.
T Consensus        17 ~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~   96 (842)
T 1n0u_A           17 TNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGN   96 (842)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSS
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCC
Confidence            345799999999999999999999642  11100               00011111111111             1455


Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      .+.+.||||||+.+|...+..+++.+|++|+|+|++++.+++....|.... .   .++|+++|+||+|+..
T Consensus        97 ~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~-~---~~~p~ilviNK~D~~~  164 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL-G---ERIKPVVVINKVDRAL  164 (842)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH-H---TTCEEEEEEECHHHHH
T ss_pred             CceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH-H---cCCCeEEEEECCCcch
Confidence            788999999999999999999999999999999999998888766565433 2   4589999999999863

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.53  E-value=3.4e-16  Score=124.03  Aligned_cols=153  Identities=14%  Similarity=0.053  Sum_probs=86.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeee-------------eeEEcCCCcE-----------------
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHR-------------GEYELPDGAQ-----------------   97 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~-------------~~~~~~~~~~-----------------   97 (253)
                      ..++|+|+|++|||||||+++|+...+...+..+....+.             ..+.+.++..                 
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~  116 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNL  116 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETTTHHHHHHHHTTTCEEEEEECTTCSSCCHHHHHHHHTTSCG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCCCCccHHHHHhcCCcEEEecCCceEeccHHHHHHHHHHHhc
Confidence            3589999999999999999999986554333333321111             1222211111                 


Q ss_pred             --EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHH
Q psy549           98 --LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRRE  174 (253)
Q Consensus        98 --~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~  174 (253)
                        ..+.++|++|.-...   ..+-...+..+.+.+.........  .... .     ...|.++|+||+|+... ....+
T Consensus       117 ~~~d~~~id~~g~i~~~---~s~~~~~~~~~~v~~~~~~~~~~~--~~~~-~-----~~~~~iiv~NK~Dl~~~~~~~~~  185 (226)
T 2hf9_A          117 DEIDLLFIENVGNLICP---ADFDLGTHKRIVVISTTEGDDTIE--KHPG-I-----MKTADLIVINKIDLADAVGADIK  185 (226)
T ss_dssp             GGCSEEEEECCSCSSGG---GGCCCSCSEEEEEEEGGGCTTTTT--TCHH-H-----HTTCSEEEEECGGGHHHHTCCHH
T ss_pred             CCCCEEEEeCCCCccCc---chhhhccCcEEEEEecCcchhhHh--hhhh-H-----hhcCCEEEEeccccCchhHHHHH
Confidence              134455655531110   011112344556666432211100  0001 1     13688999999998654 22333


Q ss_pred             HHHH-HHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          175 IAET-IALYDWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       175 ~~~~-~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      .... +.......+++++||++|.|++++|+++.+.+.
T Consensus       186 ~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  223 (226)
T 2hf9_A          186 KMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVK  223 (226)
T ss_dssp             HHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHH
Confidence            3333 333345679999999999999999999988774

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.51  E-value=1.7e-14  Score=121.30  Aligned_cols=103  Identities=17%  Similarity=0.233  Sum_probs=66.1

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHH
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAE  177 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~  177 (253)
                      +.+.||||||......   .....+|++++|+|+.....+..+..   ..     .++|.++|+||+|+.+.........
T Consensus       149 ~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~---~~-----~~~p~ivv~NK~Dl~~~~~~~~~~~  217 (341)
T 2p67_A          149 YDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKK---GL-----MEVADLIVINKDDGDNHTNVAIARH  217 (341)
T ss_dssp             CSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCH---HH-----HHHCSEEEECCCCTTCHHHHHHHHH
T ss_pred             CCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHH---hh-----hcccCEEEEECCCCCChHHHHHHHH
Confidence            5789999999765433   24688999999999976533211111   11     1258899999999876421111111


Q ss_pred             HH----HHh-----cCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          178 TI----ALY-----DWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       178 ~~----~~~-----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      .+    ...     .|..+++++||++|.|+++++++|.+.+.
T Consensus       218 ~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          218 MYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            22    111     13567899999999999999999998765

>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=99.48  E-value=1.9e-13  Score=110.61  Aligned_cols=114  Identities=11%  Similarity=-0.025  Sum_probs=68.1

Q ss_pred             EEEEEEeCCCCCCChhhHH------HhcccCCEEEEEEECCChhhHHHHHHHHH-HHHHhcCCCCCEEEEEecCCCCCcc
Q psy549           98 LTLDILDTSGAYQFPAMRE------LSISTADAFVLVYAVDDASTWDVVKDLRE-QIVNKRGLMVPIVVVGNKCELEFKD  170 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~------~~~~~~d~~i~v~d~~~~~s~~~~~~~~~-~~~~~~~~~~piilv~nK~Dl~~~~  170 (253)
                      +.+.||||||..++.....      ..+.. +++++|+|+.............. ........++|+++|+||+|+....
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~~~  187 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEE  187 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHH
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEecccccccc
Confidence            4789999999876543321      23455 78888887654322222211111 1111111357999999999987542


Q ss_pred             ccHHHHH----------H------------------HHHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          171 VRREIAE----------T------------------IALYDWQCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       171 ~~~~~~~----------~------------------~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      ...+..+          .                  +.......+++++||+++.|+++++++|.+.+..
T Consensus       188 ~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~~  257 (262)
T 1yrb_A          188 EKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYCT  257 (262)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhcc
Confidence            1111111          1                  1221234588999999999999999999887753

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.48  E-value=6.2e-14  Score=126.90  Aligned_cols=115  Identities=17%  Similarity=0.207  Sum_probs=81.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh--CCCC-----------CCcccc-c---eeeeeeeEEcCCCcEEEEEEEeCCCCCCCh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY--DRFI-----------SRYKET-V---EELHRGEYELPDGAQLTLDILDTSGAYQFP  112 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~--~~~~-----------~~~~~t-~---~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~  112 (253)
                      .+|+|+|+.++|||||..+|+.  +.+.           .++... .   .......+.+ ....+.+.|+||||+.+|.
T Consensus         3 RNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~-~~~~~~iNlIDTPGH~DF~   81 (638)
T 3j25_A            3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSF-QWENTKVNIIDTPGHMDFL   81 (638)
T ss_dssp             CCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCC-BCSSCBCCCEECCCSSSTH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEE-EECCEEEEEEECCCcHHHH
Confidence            5899999999999999999983  2111           000000 0   0222222333 3344678999999999999


Q ss_pred             hhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          113 AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       113 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      ......++-+|++|+|+|+.++..-+....|.... .   .++|.++++||+|....
T Consensus        82 ~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~-~---~~lp~i~~INKmDr~~a  134 (638)
T 3j25_A           82 AEVYRSLSVLDGAILLISAKDGVQAQTRILFHALR-K---MGIPTIFFINKIDQNGI  134 (638)
T ss_dssp             HHHHHHHTTCSEEECCEESSCTTCSHHHHHHHHHH-H---HTCSCEECCEECCSSSC
T ss_pred             HHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHH-H---cCCCeEEEEeccccccC
Confidence            99999999999999999999876555544454433 3   24799999999997654

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.47  E-value=9.8e-13  Score=111.15  Aligned_cols=118  Identities=17%  Similarity=0.141  Sum_probs=86.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChh-------hHHH
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPA-------MREL  117 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~-------~~~~  117 (253)
                      .....+|+|+|.||||||||+|+|++... +.+++.||.+...+.+.+ ++  ..++|+|+||..+...       ....
T Consensus        69 k~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~-~~--~~i~l~D~pGl~~~a~~~~~~g~~~l~  145 (376)
T 4a9a_A           69 RTGVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRY-KG--AKIQMLDLPGIIDGAKDGRGRGKQVIA  145 (376)
T ss_dssp             BCSSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEE-TT--EEEEEEECGGGCCC-----CHHHHHHH
T ss_pred             ecCCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEe-CC--cEEEEEeCCCccCCchhhhHHHHHHHH
Confidence            45567999999999999999999998663 688999999999999999 44  4689999999654321       1223


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHh--cCCCCCEEEEEecCCCCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNK--RGLMVPIVVVGNKCELEF  168 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~--~~~~~piilv~nK~Dl~~  168 (253)
                      .++.+|++++|.|++++..  .......++...  .-...|.++++||.|...
T Consensus       146 ~i~~ad~il~vvD~~~p~~--~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~g  196 (376)
T 4a9a_A          146 VARTCNLLFIILDVNKPLH--HKQIIEKELEGVGIRLNKTPPDILIKKKEKGG  196 (376)
T ss_dssp             HHHHCSEEEEEEETTSHHH--HHHHHHHHHHHTTEEETCCCCCEEEEECSSSC
T ss_pred             HHHhcCccccccccCccHH--HHHHHHHHHHHhhHhhccCChhhhhhHhhhhh
Confidence            5788999999999998643  222222333221  113468889999999643

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.42  E-value=6.8e-12  Score=114.98  Aligned_cols=119  Identities=17%  Similarity=0.188  Sum_probs=81.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC--------CCC-----CCcc-ccce---eeeee--eEEcC----CCcEEEEEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD--------RFI-----SRYK-ETVE---ELHRG--EYELP----DGAQLTLDIL  103 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~--------~~~-----~~~~-~t~~---~~~~~--~~~~~----~~~~~~~~l~  103 (253)
                      .+.-+|+|+|+.++|||||..+|+..        ...     .++. ...+   .....  .+.+.    +...+.+.|+
T Consensus        11 ~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlI   90 (709)
T 4fn5_A           11 NRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVI   90 (709)
T ss_dssp             GGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEE
T ss_pred             HHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEE
Confidence            45569999999999999999999821        110     0000 0000   11111  22221    1235789999


Q ss_pred             eCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          104 DTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       104 D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      ||||+-+|.......++-+|++|+|+|+..+..-+...-|......    ++|.++|+||+|....
T Consensus        91 DTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~----~lp~i~~iNKiDr~~a  152 (709)
T 4fn5_A           91 DTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKY----GVPRIVYVNKMDRQGA  152 (709)
T ss_dssp             CCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHH----TCCEEEEEECSSSTTC
T ss_pred             eCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHc----CCCeEEEEccccccCc
Confidence            9999999999999999999999999999988765554555554433    4899999999997543

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.42  E-value=3e-13  Score=123.20  Aligned_cols=158  Identities=18%  Similarity=0.157  Sum_probs=96.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceee----------------------------------------
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEEL----------------------------------------   85 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~----------------------------------------   85 (253)
                      ...++|+|+|.+++|||||+|+|++..+ +.....+|+..                                        
T Consensus        49 i~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~  128 (772)
T 3zvr_A           49 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  128 (772)
T ss_dssp             GCCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhh
Confidence            3567999999999999999999999775 33322222100                                        


Q ss_pred             -----------eeeeEEcCCCcEEEEEEEeCCCCCCC-------------hhhHHHhc-ccCCEEEEEEECCChhhHHHH
Q psy549           86 -----------HRGEYELPDGAQLTLDILDTSGAYQF-------------PAMRELSI-STADAFVLVYAVDDASTWDVV  140 (253)
Q Consensus        86 -----------~~~~~~~~~~~~~~~~l~D~~g~~~~-------------~~~~~~~~-~~~d~~i~v~d~~~~~s~~~~  140 (253)
                                 ....+..++.  ..+.|+||||....             ..+...++ ..+|++++|.|++......+.
T Consensus       129 ~g~~~~is~~~i~l~I~~P~~--~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~  206 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPHV--LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA  206 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETTC--CSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHH
T ss_pred             cCCCCcccccceEEEEecCCC--CceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHH
Confidence                       0011111111  24679999996551             12223333 578999999999875332222


Q ss_pred             HHHHHHHHHhcCCCCCEEEEEecCCCCCcc-ccHHHHHH-H-HHhcCCCcEEEeccCCCCCHHHHHHHHHHH
Q psy549          141 KDLREQIVNKRGLMVPIVVVGNKCELEFKD-VRREIAET-I-ALYDWQCGFVECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       141 ~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~~~~~~~~-~-~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  209 (253)
                      ..+...+   ...+.|+++|+||+|+.... ........ + .......+++.+||++|.|++++++.+.+.
T Consensus       207 l~ll~~L---~~~g~pvIlVlNKiDlv~~~~~~~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          207 LKIAKEV---DPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             HHHHHHH---CTTCSSEEEEEECTTSSCTTCCSHHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             HHHHHHH---HhcCCCEEEEEeCcccCCcchhhHHHHHHHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            2223222   33568999999999987652 22221110 0 000112357789999999999999998864

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.36  E-value=6e-13  Score=112.91  Aligned_cols=91  Identities=14%  Similarity=0.173  Sum_probs=54.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCc--------------EEEEEEEeCCCCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGA--------------QLTLDILDTSGAYQF  111 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~--------------~~~~~l~D~~g~~~~  111 (253)
                      ...++|+|+|.+|||||||+|+|++..+ ...++.++.+...+.+.+++..              ...+++||+||..++
T Consensus        20 ~~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~   99 (396)
T 2ohf_A           20 GTSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKG   99 (396)
T ss_dssp             SSCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC----
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccc
Confidence            4568999999999999999999998765 4566677777777777763311              235899999998876


Q ss_pred             hh-------hHHHhcccCCEEEEEEECCChhhH
Q psy549          112 PA-------MRELSISTADAFVLVYAVDDASTW  137 (253)
Q Consensus       112 ~~-------~~~~~~~~~d~~i~v~d~~~~~s~  137 (253)
                      ..       .....++.+|++++|+|+.+..++
T Consensus       100 as~~~glg~~~l~~ir~aD~Il~VvD~~~~~~i  132 (396)
T 2ohf_A          100 AHNGQGLGNAFLSHISACDGIFHLTRAFEDDDI  132 (396)
T ss_dssp             -------CCHHHHHHHTSSSEEEEEEC------
T ss_pred             cchhhHHHHHHHHHHHhcCeEEEEEecCCCcch
Confidence            54       345578999999999999875443

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.34  E-value=2.3e-12  Score=108.01  Aligned_cols=103  Identities=13%  Similarity=0.110  Sum_probs=64.7

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHH
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIA  176 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~  176 (253)
                      +.+.|+||+|...-..   .....+|.+++|+|+........+...   +.     ..|.++|+||+|+... .......
T Consensus       148 ~~~iliDT~Gi~~~~~---~v~~~~d~vl~v~d~~~~~~~~~i~~~---i~-----~~~~ivvlNK~Dl~~~~~~s~~~~  216 (337)
T 2qm8_A          148 FDVILVETVGVGQSET---AVADLTDFFLVLMLPGAGDELQGIKKG---IF-----ELADMIAVNKADDGDGERRASAAA  216 (337)
T ss_dssp             CCEEEEEECSSSSCHH---HHHTTSSEEEEEECSCC------CCTT---HH-----HHCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCEEEEECCCCCcchh---hHHhhCCEEEEEEcCCCcccHHHHHHH---Hh-----ccccEEEEEchhccCchhHHHHHH
Confidence            4688999999765322   345789999999998654322111111   11     1356788899997532 2222223


Q ss_pred             HHHHHh----c-----CCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          177 ETIALY----D-----WQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       177 ~~~~~~----~-----~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      +.+...    .     |..+++.+|++++.|++++++.|.+...
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            333221    1     2567899999999999999999988765

>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=99.27  E-value=1.2e-11  Score=102.06  Aligned_cols=96  Identities=17%  Similarity=0.088  Sum_probs=75.8

Q ss_pred             CCCChhhHHHhcccCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc-c-HHHHHHHHHhcC
Q psy549          108 AYQFPAMRELSISTADAFVLVYAVDDAS-TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-R-REIAETIALYDW  184 (253)
Q Consensus       108 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-~-~~~~~~~~~~~~  184 (253)
                      ++++..+...+++++|++++|+|++++. ++..+..|+..+..   .++|+++|+||+|+.+... . .+....+.. ..
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~-~~  141 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNEEEKKELERWISIYR-DA  141 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHHHHHHHHHHHHH-HT
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCccccHHHHHHHHHHH-HC
Confidence            7778888888999999999999999886 88888999886655   5689999999999976421 1 222233333 34


Q ss_pred             CCcEEEeccCCCCCHHHHHHHHH
Q psy549          185 QCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       185 ~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      +.+++++||++|.|++++++.+.
T Consensus       142 g~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          142 GYDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHhhcc
Confidence            67899999999999999998764

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=99.26  E-value=2.2e-10  Score=97.44  Aligned_cols=88  Identities=17%  Similarity=0.219  Sum_probs=67.2

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCc--------------EEEEEEEeCCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGA--------------QLTLDILDTSGAY  109 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~--------------~~~~~l~D~~g~~  109 (253)
                      .....+|+|+|++|||||||+|.|++...  ...++.++.+...+.+.+++..              +..+.+||+||..
T Consensus        17 v~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~   96 (392)
T 1ni3_A           17 PGNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLT   96 (392)
T ss_dssp             SSSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGC
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccc
Confidence            34568999999999999999999999663  5677777888888888773311              1357899999954


Q ss_pred             C-------ChhhHHHhcccCCEEEEEEECCC
Q psy549          110 Q-------FPAMRELSISTADAFVLVYAVDD  133 (253)
Q Consensus       110 ~-------~~~~~~~~~~~~d~~i~v~d~~~  133 (253)
                      .       +.......++.+|++++|+|+.+
T Consensus        97 ~~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           97 KGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cCCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            3       33344556789999999999864

>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=99.20  E-value=1e-11  Score=95.38  Aligned_cols=106  Identities=11%  Similarity=0.073  Sum_probs=72.5

Q ss_pred             CCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHH---hc--CCCCCEEEEEecC-CCCCccccHHHHHHH
Q psy549          106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN---KR--GLMVPIVVVGNKC-ELEFKDVRREIAETI  179 (253)
Q Consensus       106 ~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~---~~--~~~~piilv~nK~-Dl~~~~~~~~~~~~~  179 (253)
                      +|++.++.+|..||+++|++|||+|.+|.+-++ ....+..+..   ..  ..+.|++|++||. |+++.....++.+.+
T Consensus       110 GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~Ams~~EI~e~L  188 (227)
T 3l82_B          110 GSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAHEL  188 (227)
T ss_dssp             -------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCBCCHHHHHHHT
T ss_pred             CcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCCCCHHHHHHHc
Confidence            478899999999999999999999999875433 2222222222   11  1468999999995 787765556666665


Q ss_pred             HHh--cCCCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          180 ALY--DWQCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       180 ~~~--~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      ...  ...+.+..|||++|.|+.+-++||.+.+..
T Consensus       189 ~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~  223 (227)
T 3l82_B          189 HLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVES  223 (227)
T ss_dssp             TGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTT
T ss_pred             CCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHh
Confidence            442  245678999999999999999999887743

>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=99.10  E-value=1.9e-10  Score=92.66  Aligned_cols=107  Identities=9%  Similarity=0.035  Sum_probs=77.4

Q ss_pred             CCCCCCChhhHHHhcccCCEEEEEEECCChhhHHH---HHHHHHHHHHh-cCCCCCEEEEEec-CCCCCccccHHHHHHH
Q psy549          105 TSGAYQFPAMRELSISTADAFVLVYAVDDASTWDV---VKDLREQIVNK-RGLMVPIVVVGNK-CELEFKDVRREIAETI  179 (253)
Q Consensus       105 ~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~---~~~~~~~~~~~-~~~~~piilv~nK-~Dl~~~~~~~~~~~~~  179 (253)
                      .+|++.++.+|..+++++|++|+|+|.+|.+-++.   +..+...+... .-.+.|++|++|| .|+++.....++.+.+
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~Ams~~EI~e~L  273 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAHEL  273 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCBCCHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCCCCHHHHHHHc
Confidence            46789999999999999999999999999864331   21111212111 1256899999996 6888776666666666


Q ss_pred             HHh--cCCCcEEEeccCCCCCHHHHHHHHHHHHH
Q psy549          180 ALY--DWQCGFVECSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       180 ~~~--~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      ...  ...+.+..|||.+|.|+.+-++||.+.+.
T Consensus       274 ~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~  307 (312)
T 3l2o_B          274 HLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVE  307 (312)
T ss_dssp             TGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSC
T ss_pred             CCccCCCcEEEEecccCCCcCHHHHHHHHHHHHH
Confidence            542  24566899999999999999999998874

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.86  E-value=1.3e-10  Score=98.65  Aligned_cols=139  Identities=14%  Similarity=0.091  Sum_probs=84.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC------CC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh-------
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD------RF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM-------  114 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~------~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~-------  114 (253)
                      ..+|+++|.+|+|||||+|+|++.      .. ....+.|+.....  +.+ +.   .+.++||||.......       
T Consensus       162 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~~~~--~~~-~~---~~~liDtPG~~~~~~~~~~l~~~  235 (369)
T 3ec1_A          162 GGDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLDMIE--IPL-ES---GATLYDTPGIINHHQMAHFVDAR  235 (369)
T ss_dssp             TSCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCEEEE--EEC-ST---TCEEEECCSCCCCSSGGGGSCTT
T ss_pred             cCcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEeeEE--EEe-CC---CeEEEeCCCcCcHHHHHHHHhHH
Confidence            458999999999999999999975      22 3444455544333  334 22   2689999996543211       


Q ss_pred             -HHHhc--ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEe
Q psy549          115 -RELSI--STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVEC  191 (253)
Q Consensus       115 -~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  191 (253)
                       ...++  ...+.++++.+.....-+..+..    +......+.|+++++||.|..+....+...+.+.+ ..+..+.+.
T Consensus       236 ~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~~~~~~~~~~~~~~~~-~~g~~l~p~  310 (369)
T 3ec1_A          236 DLKIITPKREIHPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELTVHRTKLEKADSLYAN-QLGELLSPP  310 (369)
T ss_dssp             THHHHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEGGGHHHHHHH-HBTTTBCSS
T ss_pred             HHHHHhcccccCceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCcccccccHHHHHHHHHH-hcCCccCCC
Confidence             11222  56788888888743211111111    11123356899999999998876555555666666 445555555


Q ss_pred             ccCCCCC
Q psy549          192 SAKENYN  198 (253)
Q Consensus       192 Sa~~~~~  198 (253)
                      ++.+..+
T Consensus       311 ~~~~~~~  317 (369)
T 3ec1_A          311 SKRYAAE  317 (369)
T ss_dssp             CGGGTTT
T ss_pred             Cchhhhh
Confidence            5554333

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.83  E-value=2.2e-08  Score=85.71  Aligned_cols=114  Identities=15%  Similarity=0.151  Sum_probs=59.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCC-----ccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh------------
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISR-----YKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP------------  112 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~-----~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~------------  112 (253)
                      ++++|+|++|+|||||++.|++..+...     .+..........+.. .+....++++|++|.....            
T Consensus        43 ~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~-~~l~~~ltv~D~~~~g~~~~~~~~~~~i~~~  121 (427)
T 2qag_B           43 FNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQE-SNVRLKLTIVSTVGFGDQINKEDSYKPIVEF  121 (427)
T ss_dssp             EEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC---CEEEEEEEEEECCCC-CCHHHHSHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeec-CccccccchhhhhhhhhccccchhhhHHHHH
Confidence            4699999999999999999998654211     111111222222222 2333478999998865321            


Q ss_pred             --hhHHHhc-------------ccC--CE-EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          113 --AMRELSI-------------STA--DA-FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       113 --~~~~~~~-------------~~~--d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                        .....++             .++  |+ ++++.|...+-+..++     .+......++|+++|+||+|....
T Consensus       122 i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~Di-----eilk~L~~~~~vI~Vi~KtD~Lt~  191 (427)
T 2qag_B          122 IDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDL-----VTMKKLDSKVNIIPIIAKADAISK  191 (427)
T ss_dssp             HHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHHH-----HHHHHTCSCSEEEEEESCGGGSCH
T ss_pred             HHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHHH-----HHHHHHhhCCCEEEEEcchhccch
Confidence              1111111             112  23 4455555443332221     122222257899999999998765

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.78  E-value=1.7e-08  Score=85.47  Aligned_cols=97  Identities=14%  Similarity=0.045  Sum_probs=71.3

Q ss_pred             CCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHH----HHh
Q psy549          107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETI----ALY  182 (253)
Q Consensus       107 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~----~~~  182 (253)
                      ..++|......+++.++++++|+|+.++.     ..|...+.... .++|+++|+||+|+.......+....+    .. 
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~-~~~p~ilV~NK~DL~~~~~~~~~~~~~l~~~~~-  127 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFV-GNNKVLLVGNKADLIPKSVKHDKVKHWMRYSAK-  127 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHS-SSSCEEEEEECGGGSCTTSCHHHHHHHHHHHHH-
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHh-CCCcEEEEEEChhcCCcccCHHHHHHHHHHHHH-
Confidence            45778888888999999999999999853     44555555443 368999999999997654333333222    33 


Q ss_pred             cCCC---cEEEeccCCCCCHHHHHHHHHHHH
Q psy549          183 DWQC---GFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       183 ~~~~---~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ..+.   +++.+||++|.|++++++.+.+..
T Consensus       128 ~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          128 QLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             HTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            2344   789999999999999999987644

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.74  E-value=2.9e-10  Score=96.36  Aligned_cols=134  Identities=15%  Similarity=0.107  Sum_probs=77.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC------C--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh------
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR------F--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM------  114 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~------~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~------  114 (253)
                      ..+|+++|.+|+|||||+|+|++..      .  ....+.|+.....  +.+.++    +.++||||......+      
T Consensus       160 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~--~~~~~~----~~liDtPG~~~~~~~~~~l~~  233 (368)
T 3h2y_A          160 GKDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLID--IPLDEE----SSLYDTPGIINHHQMAHYVGK  233 (368)
T ss_dssp             TSCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEE--EESSSS----CEEEECCCBCCTTSGGGGSCH
T ss_pred             cceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEE--EEecCC----eEEEeCCCcCcHHHHHHHhhH
Confidence            4689999999999999999999853      1  2334444443322  334222    689999996543211      


Q ss_pred             --HHHh--cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEE
Q psy549          115 --RELS--ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVE  190 (253)
Q Consensus       115 --~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  190 (253)
                        ...+  ....+.++++++.....-+..+..    +......+.|+++++||.|..+....+...+.+.+ ..+..+.+
T Consensus       234 ~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----~d~l~~~~~~~~~v~nk~d~~~~~~~~~~~~~~~~-~~g~~l~p  308 (368)
T 3h2y_A          234 QSLKLITPTKEIKPMVFQLNEEQTLFFSGLAR----FDYVSGGRRAFTCHFSNRLTIHRTKLEKADELYKN-HAGDLLSP  308 (368)
T ss_dssp             HHHHHHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEHHHHHHHHHH-HBTTTBCS
T ss_pred             HHHHHhccccccCceEEEEcCCCEEEEcceEE----EEEecCCCceEEEEecCccccccccHHHHHHHHHH-HhCCccCC
Confidence              1112  245677888887642211111111    11122356899999999998876666666666666 44444444


Q ss_pred             ecc
Q psy549          191 CSA  193 (253)
Q Consensus       191 ~Sa  193 (253)
                      .++
T Consensus       309 ~~~  311 (368)
T 3h2y_A          309 PTP  311 (368)
T ss_dssp             SCH
T ss_pred             Cch
Confidence            443

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.70  E-value=2.3e-08  Score=87.58  Aligned_cols=155  Identities=14%  Similarity=0.086  Sum_probs=84.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHH------hCCC--CCC--ccccc------------eeeeeeeEEc------------C
Q psy549           48 DKRRVVVMGGARVGKSSIISQFL------YDRF--ISR--YKETV------------EELHRGEYEL------------P   93 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~------~~~~--~~~--~~~t~------------~~~~~~~~~~------------~   93 (253)
                      ....|+|+|.+||||||+++.|.      +.+.  ...  +.+..            ...+......            .
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~~  179 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEKF  179 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998      3321  110  00000            0000000000            0


Q ss_pred             CCcEEEEEEEeCCCCCCCh-hhHHH---h--cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCE-EEEEecCCC
Q psy549           94 DGAQLTLDILDTSGAYQFP-AMREL---S--ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI-VVVGNKCEL  166 (253)
Q Consensus        94 ~~~~~~~~l~D~~g~~~~~-~~~~~---~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl  166 (253)
                      ....+.+.|+||||..... .+...   .  +..+|.+++|+|+.........   ...+...    +|+ ++|+||.|.
T Consensus       180 ~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~~---a~~~~~~----~~i~gvVlNK~D~  252 (504)
T 2j37_W          180 KNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEAQ---AKAFKDK----VDVASVIVTKLDG  252 (504)
T ss_dssp             HHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHHH---HHHHHHH----HCCCCEEEECTTS
T ss_pred             HHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHHH---HHHHHhh----cCceEEEEeCCcc
Confidence            0023578899999976532 22211   1  2268999999999876432221   2222221    475 889999998


Q ss_pred             CCcccc-HHHHHHHHH-------------hcCCCcEEEeccCCCCC-HHHHHHHHHHH
Q psy549          167 EFKDVR-REIAETIAL-------------YDWQCGFVECSAKENYN-IVQVFKELLAQ  209 (253)
Q Consensus       167 ~~~~~~-~~~~~~~~~-------------~~~~~~~~~~Sa~~~~~-i~~l~~~l~~~  209 (253)
                      ...... ......+..             .....+.+.+|+..|.| +.++++++.+.
T Consensus       253 ~~~~g~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          253 HAKGGGALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CCCCTHHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             ccchHHHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            754211 111111110             00011234468888988 99999888765

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.64  E-value=7.1e-08  Score=81.69  Aligned_cols=97  Identities=16%  Similarity=0.109  Sum_probs=70.0

Q ss_pred             CCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHH----HHh
Q psy549          107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETI----ALY  182 (253)
Q Consensus       107 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~----~~~  182 (253)
                      .++.|......+++.++++++|+|+.+..+     .|...+.... .+.|+++|+||+|+.......+....+    .. 
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l-~~~piilV~NK~DLl~~~~~~~~~~~~l~~~~~-  129 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFA-ADNPILLVGNKADLLPRSVKYPKLLRWMRRMAE-  129 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHC-TTSCEEEEEECGGGSCTTCCHHHHHHHHHHHHH-
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHh-CCCCEEEEEEChhcCCCccCHHHHHHHHHHHHH-
Confidence            478899999999999999999999998763     2333333332 368999999999997654433333222    22 


Q ss_pred             cCCC---cEEEeccCCCCCHHHHHHHHHHHH
Q psy549          183 DWQC---GFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       183 ~~~~---~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ..+.   .++.+||++|.|++++++.+.+..
T Consensus       130 ~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          130 ELGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             TTTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            3343   789999999999999999987654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.63  E-value=6e-08  Score=78.60  Aligned_cols=114  Identities=15%  Similarity=0.210  Sum_probs=60.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCC---------ccccceeeeeeeEEcCC--CcEEEEEEEeCCCCCCC------
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISR---------YKETVEELHRGEYELPD--GAQLTLDILDTSGAYQF------  111 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~---------~~~t~~~~~~~~~~~~~--~~~~~~~l~D~~g~~~~------  111 (253)
                      .++++|+|++|+|||||++.|++...+..         ...+...  ...-.++.  +....++++|++|....      
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~--~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~   79 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEI--KAIGHVIEEGGVKMKLTVIDTPGFGDQINNENC   79 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSC--CEEEESCC----CCEEEEECCCC--CCSBCTTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceee--eeeEEEeecCCCcCCceEEechhhhhhcccHHH
Confidence            47899999999999999999997432210         1111110  11111112  22236789999884321      


Q ss_pred             -hhhHH-------H--------------hcccCCEEEEEEECC-ChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549          112 -PAMRE-------L--------------SISTADAFVLVYAVD-DASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus       112 -~~~~~-------~--------------~~~~~d~~i~v~d~~-~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                       .....       .              .+..+++.+++.|.. .+-.-.+ ...+..+.   .. .++++|++|+|...
T Consensus        80 ~~~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD-~~~l~~L~---~~-~~vI~Vi~K~D~lt  154 (270)
T 3sop_A           80 WEPIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD-LEFMKHLS---KV-VNIIPVIAKADTMT  154 (270)
T ss_dssp             SHHHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH-HHHHHHHH---TT-SEEEEEETTGGGSC
T ss_pred             HHHHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH-HHHHHHHH---hc-CcEEEEEeccccCC
Confidence             01100       0              122357888888854 2222122 12222222   23 89999999999876


Q ss_pred             c
Q psy549          169 K  169 (253)
Q Consensus       169 ~  169 (253)
                      .
T Consensus       155 ~  155 (270)
T 3sop_A          155 L  155 (270)
T ss_dssp             H
T ss_pred             H
Confidence            5

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=98.61  E-value=7e-07  Score=76.38  Aligned_cols=153  Identities=16%  Similarity=0.094  Sum_probs=81.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCC------CccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC----hhhHHH-h
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFIS------RYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF----PAMREL-S  118 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~------~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~----~~~~~~-~  118 (253)
                      ..|+|+|++|+|||||+|.+.+-..+.      ....++..  ...+..  ...-.+.+||++|....    ...... .
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~--~~v~q~--~~~~~ltv~D~~g~~~~~~~~~~~L~~~~  145 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTME--RHPYKH--PNIPNVVFWDLPGIGSTNFPPDTYLEKMK  145 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CC--CEEEEC--SSCTTEEEEECCCGGGSSCCHHHHHHHTT
T ss_pred             eEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeeccee--EEeccc--cccCCeeehHhhcccchHHHHHHHHHHcC
Confidence            489999999999999999999833211      11111111  111111  11114789999985321    111111 2


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC---------cccc---HHHHHHHH-----H
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF---------KDVR---REIAETIA-----L  181 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~---------~~~~---~~~~~~~~-----~  181 (253)
                      +...+..++ ++...... .. ..+...+..   .+.|+++|.||.|+.-         ....   .+....+.     +
T Consensus       146 L~~~~~~~~-lS~G~~~k-qr-v~la~aL~~---~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~  219 (413)
T 1tq4_A          146 FYEYDFFII-ISATRFKK-ND-IDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRE  219 (413)
T ss_dssp             GGGCSEEEE-EESSCCCH-HH-HHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHH
T ss_pred             CCccCCeEE-eCCCCccH-HH-HHHHHHHHh---cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHh
Confidence            334455554 66652111 11 112222222   3579999999999631         1111   22222332     1


Q ss_pred             hc-CCCcEEEecc--CCCCCHHHHHHHHHHHHHH
Q psy549          182 YD-WQCGFVECSA--KENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       182 ~~-~~~~~~~~Sa--~~~~~i~~l~~~l~~~~~~  212 (253)
                      .+ ....++.+|+  ..+.|++++.+.+.+.+.+
T Consensus       220 ~g~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lpe  253 (413)
T 1tq4_A          220 NGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  253 (413)
T ss_dssp             TTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             cCCCCCcEEEEecCcCCccCHHHHHHHHHHhCcc
Confidence            11 1246788999  5666799999998877643

>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=98.58  E-value=1.5e-07  Score=76.65  Aligned_cols=100  Identities=9%  Similarity=-0.014  Sum_probs=69.2

Q ss_pred             EeCCCCC-CChhhHHHhcccCCEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHH
Q psy549          103 LDTSGAY-QFPAMRELSISTADAFVLVYAVDDASTWDV--VKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETI  179 (253)
Q Consensus       103 ~D~~g~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~  179 (253)
                      -..||+. +........+..+|+++.|+|+.++.+...  +..|+        .++|+++|+||+|+.+....+...+.+
T Consensus         4 ~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~~~~~~~~~~~~   75 (282)
T 1puj_A            4 QWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKADAAVTQQWKEHF   75 (282)
T ss_dssp             -----CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSCHHHHHHHHHHH
T ss_pred             cCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCCHHHHHHHHHHH
Confidence            3568876 344555667899999999999999877542  33332        468999999999997642222223333


Q ss_pred             HHhcCCCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          180 ALYDWQCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       180 ~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                      .  ..+.+++.+||+++.|+.++++.+.+.+..
T Consensus        76 ~--~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~  106 (282)
T 1puj_A           76 E--NQGIRSLSINSVNGQGLNQIVPASKEILQE  106 (282)
T ss_dssp             H--TTTCCEEECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             H--hcCCcEEEEECCCcccHHHHHHHHHHHHHH
Confidence            2  345689999999999999999988887754

>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=98.44  E-value=2.1e-07  Score=75.88  Aligned_cols=58  Identities=21%  Similarity=0.311  Sum_probs=36.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~  110 (253)
                      ...++|+++|.||||||||+|+|.+...  +...+.+|.+..  .+.+ +.   .+.+|||||...
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~g~T~~~~--~~~~-~~---~~~l~DtpG~~~  177 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQ--WVKV-GK---ELELLDTPGILW  177 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC------------C--CEEE-TT---TEEEEECCCCCC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeecCCCCCeeeeeE--EEEe-CC---CEEEEECcCcCC
Confidence            3568999999999999999999998763  444555555443  2333 22   478999999754

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=98.31  E-value=4.5e-06  Score=71.80  Aligned_cols=136  Identities=12%  Similarity=0.035  Sum_probs=73.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh------CCC--C--CCcccc-------ceeeeeeeEEc-C---C------------
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY------DRF--I--SRYKET-------VEELHRGEYEL-P---D------------   94 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~------~~~--~--~~~~~t-------~~~~~~~~~~~-~---~------------   94 (253)
                      ....|+++|++|+||||++..|..      .+.  .  ..+.+.       ........+.. .   +            
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a  178 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYF  178 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHH
Confidence            457899999999999999998873      111  0  000000       00000000100 0   0            


Q ss_pred             -CcEEEEEEEeCCCCCCChh-hHHH-----hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCC
Q psy549           95 -GAQLTLDILDTSGAYQFPA-MREL-----SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE  167 (253)
Q Consensus        95 -~~~~~~~l~D~~g~~~~~~-~~~~-----~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  167 (253)
                       ...+.+.|+||+|...... +...     ....+|.+++|.|+.........   ...+..   .-.+..+|+||.|..
T Consensus       179 ~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~---a~~f~~---~~~i~gVIlTKlD~~  252 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQ---ALAFKE---ATPIGSIIVTKLDGS  252 (443)
T ss_dssp             HHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHH---HHHHHH---SCTTEEEEEECCSSC
T ss_pred             HhCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHH---HHHHHh---hCCCeEEEEECCCCc
Confidence             0125778999999654322 1111     23357999999999876443222   222222   123567899999976


Q ss_pred             CccccHHHHHHHHHhcCCCcEEEecc
Q psy549          168 FKDVRREIAETIALYDWQCGFVECSA  193 (253)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~Sa  193 (253)
                      ...   ..+..+.. ..+.|+..++.
T Consensus       253 ~~g---G~~ls~~~-~~g~PI~fig~  274 (443)
T 3dm5_A          253 AKG---GGALSAVA-ATGAPIKFIGT  274 (443)
T ss_dssp             SSH---HHHHHHHH-TTCCCEEEEEC
T ss_pred             ccc---cHHHHHHH-HHCCCEEEEEc
Confidence            532   12223333 45778777765

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.30  E-value=4.2e-07  Score=73.24  Aligned_cols=56  Identities=27%  Similarity=0.375  Sum_probs=36.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCC--CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFI--SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF  111 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~  111 (253)
                      ++|+++|.+|+|||||+|+|.+....  ...+.++...  ..+.. +.   .+.+|||||....
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~~~~~g~T~~~--~~~~~-~~---~~~l~DtpG~~~~  157 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSVGAQPGITKGI--QWFSL-EN---GVKILDTPGILYK  157 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC----------CCS--CEEEC-TT---SCEEESSCEECCC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccccCCCCCCccce--EEEEe-CC---CEEEEECCCcccC
Confidence            69999999999999999999987652  2233333322  22333 22   5789999997653

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.17  E-value=1.8e-06  Score=77.01  Aligned_cols=64  Identities=23%  Similarity=0.260  Sum_probs=41.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeE----EcCCCcEEEEEEEeCCCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEY----ELPDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~----~~~~~~~~~~~l~D~~g~~~  110 (253)
                      .+.++|+|+|.||+|||||+|+|++....-....++.....+..    .++......+.|+||||...
T Consensus        36 ~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           36 QPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCc
Confidence            45689999999999999999999987632133333332222221    22122234678999999654

>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=97.98  E-value=1.9e-05  Score=68.02  Aligned_cols=111  Identities=14%  Similarity=0.053  Sum_probs=62.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC------CC--CCCccc------------------------cceeee---eeeEEcC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD------RF--ISRYKE------------------------TVEELH---RGEYELP   93 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~------~~--~~~~~~------------------------t~~~~~---~~~~~~~   93 (253)
                      ...|+|+|++|+||||+++.|...      ..  ......                        ++.+..   ...+.. 
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r~~a~~qL~~~~~~~gv~v~~~~~~~~dp~~i~~~~l~~-  177 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIVKEGMEK-  177 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCCTTGGGSSHHHHHHSSCCEECCSSSCCSSSTTHHHHHHT-
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeccccCchHHHHHHHhhhccCcceEecCCCCCCHHHHHHHHHHH-
Confidence            467999999999999999998852      11  000000                        111100   000000 


Q ss_pred             CCcEEEEEEEeCCCCCCChhhHHH------hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC-C-EEEEEecCC
Q psy549           94 DGAQLTLDILDTSGAYQFPAMREL------SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMV-P-IVVVGNKCE  165 (253)
Q Consensus        94 ~~~~~~~~l~D~~g~~~~~~~~~~------~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-p-iilv~nK~D  165 (253)
                       -..+.+.|+||||..........      .+..+|.+++|.|+......   ......+   . ..+ | ..+|+||.|
T Consensus       178 -~~~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~~---~~~~~~~---~-~~~~~i~gvVlnK~D  249 (432)
T 2v3c_C          178 -FKKADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQA---GIQAKAF---K-EAVGEIGSIIVTKLD  249 (432)
T ss_dssp             -TSSCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGGH---HHHHHHH---H-TTSCSCEEEEEECSS
T ss_pred             -hhCCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHHH---HHHHHHH---h-hcccCCeEEEEeCCC
Confidence             12356789999997654322211      12258999999998765421   1111111   1 234 5 889999999


Q ss_pred             CCC
Q psy549          166 LEF  168 (253)
Q Consensus       166 l~~  168 (253)
                      ...
T Consensus       250 ~~~  252 (432)
T 2v3c_C          250 GSA  252 (432)
T ss_dssp             SCS
T ss_pred             Ccc
Confidence            754

>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=97.92  E-value=1.5e-05  Score=68.51  Aligned_cols=90  Identities=14%  Similarity=0.021  Sum_probs=50.1

Q ss_pred             EEEEEEeCCCCCC--Ch-hhHH---H--hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549           98 LTLDILDTSGAYQ--FP-AMRE---L--SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus        98 ~~~~l~D~~g~~~--~~-~~~~---~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      +.+.|+||||...  .. .+..   .  .....+.+++|.|+........+   ...+....   .+..+|+||.|....
T Consensus       180 ~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~~---a~~f~~~~---~~~gVIlTKlD~~a~  253 (433)
T 3kl4_A          180 MDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDL---ASRFHQAS---PIGSVIITKMDGTAK  253 (433)
T ss_dssp             CSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHHH---HHHHHHHC---SSEEEEEECGGGCSC
T ss_pred             CCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHHH---HHHHhccc---CCcEEEEeccccccc
Confidence            5677999999644  11 1111   1  12246899999999876433222   22233221   367899999997643


Q ss_pred             cccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          170 DVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      .   ..+..+.. ..+.|+..++.  |.++
T Consensus       254 ~---G~als~~~-~~g~Pi~fig~--Ge~v  277 (433)
T 3kl4_A          254 G---GGALSAVV-ATGATIKFIGT--GEKI  277 (433)
T ss_dssp             H---HHHHHHHH-HHTCEEEEEEC--CSSS
T ss_pred             c---hHHHHHHH-HHCCCEEEEEC--CCCh
Confidence            1   12222222 24678777765  5443

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.91  E-value=7.9e-06  Score=65.75  Aligned_cols=91  Identities=11%  Similarity=0.013  Sum_probs=61.6

Q ss_pred             CCCCC-ChhhHHHhcccCCEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHh
Q psy549          106 SGAYQ-FPAMRELSISTADAFVLVYAVDDASTWDV--VKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALY  182 (253)
Q Consensus       106 ~g~~~-~~~~~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~  182 (253)
                      ||+.. -.......+.++|+++.|+|+.++.+...  +. ++         ++|.++|+||+|+.+........+.+.. 
T Consensus         5 PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~l~-ll---------~k~~iivlNK~DL~~~~~~~~~~~~~~~-   73 (262)
T 3cnl_A            5 PGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYGVD-FS---------RKETIILLNKVDIADEKTTKKWVEFFKK-   73 (262)
T ss_dssp             ----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTTSC-CT---------TSEEEEEEECGGGSCHHHHHHHHHHHHH-
T ss_pred             chHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChHHH-hc---------CCCcEEEEECccCCCHHHHHHHHHHHHH-
Confidence            66553 23455567889999999999998866542  12 11         5899999999999864332333333433 


Q ss_pred             cCCCcEEEeccCCCCCHHHHHHHHHHH
Q psy549          183 DWQCGFVECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       183 ~~~~~~~~~Sa~~~~~i~~l~~~l~~~  209 (253)
                       .+.++ .+|++++.|+.++++.+...
T Consensus        74 -~g~~v-~iSa~~~~gi~~L~~~l~~~   98 (262)
T 3cnl_A           74 -QGKRV-ITTHKGEPRKVLLKKLSFDR   98 (262)
T ss_dssp             -TTCCE-EECCTTSCHHHHHHHHCCCT
T ss_pred             -cCCeE-EEECCCCcCHHHHHHHHHHh
Confidence             35677 99999999999998876543

>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=97.90  E-value=5.8e-05  Score=61.82  Aligned_cols=91  Identities=16%  Similarity=0.044  Sum_probs=53.4

Q ss_pred             EEEEEEeCCCCCC--Chh-hHH-----HhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCC
Q psy549           98 LTLDILDTSGAYQ--FPA-MRE-----LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEF  168 (253)
Q Consensus        98 ~~~~l~D~~g~~~--~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~  168 (253)
                      +.+.|+||||...  ... +..     .....+|.+++|.|+......   ......+..    ..| ..+|+||.|...
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~~---~~~~~~~~~----~~~i~gvVlnk~D~~~  253 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKA---YDLASKFNQ----ASKIGTIIITKMDGTA  253 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGH---HHHHHHHHH----TCTTEEEEEECGGGCT
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHHH---HHHHHHHHh----hCCCCEEEEeCCCCCc
Confidence            5678999999876  422 221     124468999999998754321   122222222    245 778899999753


Q ss_pred             ccccHHHHHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      .   ...+..+.. ..+.|+..++  .|.++++
T Consensus       254 ~---~g~~~~~~~-~~~~pi~~i~--~Ge~v~d  280 (297)
T 1j8m_F          254 K---GGGALSAVA-ATGATIKFIG--TGEKIDE  280 (297)
T ss_dssp             T---HHHHHHHHH-TTTCCEEEEE--CSSSTTC
T ss_pred             c---hHHHHHHHH-HHCcCEEEEe--CCCChhh
Confidence            2   222333444 5667877766  4555544

>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=97.83  E-value=6.2e-05  Score=63.07  Aligned_cols=84  Identities=15%  Similarity=0.114  Sum_probs=56.5

Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc---cHHHHHHHHHhcCCCcEEEeccC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV---RREIAETIALYDWQCGFVECSAK  194 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~---~~~~~~~~~~~~~~~~~~~~Sa~  194 (253)
                      ...++|.+++|.+..-..+...+..++.....   .++|+++|+||+|+.+...   .......+.  ..+.+++.+|+.
T Consensus       127 i~anvD~v~iv~a~~P~~~~~~i~r~L~~a~~---~~~~~iivlNK~DL~~~~~~~~~~~~~~~y~--~~G~~v~~~Sa~  201 (358)
T 2rcn_A          127 IAANIDQIVIVSAILPELSLNIIDRYLVGCET---LQVEPLIVLNKIDLLDDEGMDFVNEQMDIYR--NIGYRVLMVSSH  201 (358)
T ss_dssp             EEECCCEEEEEEESTTTCCHHHHHHHHHHHHH---HTCEEEEEEECGGGCCHHHHHHHHHHHHHHH--TTTCCEEECBTT
T ss_pred             HHhcCCEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCchhHHHHHHHHHHHH--hCCCcEEEEecC
Confidence            46889999999776533334445555544333   3478899999999986532   112223332  456789999999


Q ss_pred             CCCCHHHHHHHH
Q psy549          195 ENYNIVQVFKEL  206 (253)
Q Consensus       195 ~~~~i~~l~~~l  206 (253)
                      ++.|++++...+
T Consensus       202 ~~~gl~~L~~~~  213 (358)
T 2rcn_A          202 TQDGLKPLEEAL  213 (358)
T ss_dssp             TTBTHHHHHHHH
T ss_pred             CCcCHHHHHHhc
Confidence            999999887643

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.81  E-value=1e-05  Score=66.52  Aligned_cols=87  Identities=14%  Similarity=0.096  Sum_probs=58.1

Q ss_pred             hhHHHhcccCCEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc----cHHHHHHHHHhcCCCc
Q psy549          113 AMRELSISTADAFVLVYAVDDAST-WDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV----RREIAETIALYDWQCG  187 (253)
Q Consensus       113 ~~~~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~  187 (253)
                      .+....+.++|.+++|+|+.++.. ...+.+++....   ..++|+++|+||+|+.+...    .....+.+..  .+.+
T Consensus        78 ~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~---~~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~--~g~~  152 (307)
T 1t9h_A           78 ELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVE---ANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRN--IGYD  152 (307)
T ss_dssp             EETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHH---TTTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHH--HTCC
T ss_pred             hhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHH---HCCCCEEEEEECCccCchhhhHHHHHHHHHHHHh--CCCe
Confidence            334457899999999999987653 333444443322   25689999999999987532    2333333332  3568


Q ss_pred             EEEeccCCCCCHHHHHH
Q psy549          188 FVECSAKENYNIVQVFK  204 (253)
Q Consensus       188 ~~~~Sa~~~~~i~~l~~  204 (253)
                      ++.+|+.++.|++++++
T Consensus       153 v~~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          153 VYLTSSKDQDSLADIIP  169 (307)
T ss_dssp             EEECCHHHHTTCTTTGG
T ss_pred             EEEEecCCCCCHHHHHh
Confidence            99999998888765543

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.74  E-value=6.3e-05  Score=67.72  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=21.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .|+|+|++|||||||++.+.+-.
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC
T ss_pred             eEEEECCCCChHHHHHHHHhCCC
Confidence            49999999999999999999864

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.73  E-value=3.6e-06  Score=73.56  Aligned_cols=100  Identities=11%  Similarity=0.029  Sum_probs=57.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCC--CChhhH--------
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAY--QFPAMR--------  115 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~--~~~~~~--------  115 (253)
                      .....|+++|.+|+||||+.++|........ ..+.. +........ .+......+||..|.+  +....+        
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~~~~-~~t~~~~~d~~r~~~-~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~  114 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLNFIG-VPTREFNVGQYRRDM-VKTYKSFEFFLPDNEEGLKIRKQCALAALNDV  114 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHHTT-CCEEEEEHHHHHHHH-HCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHhccC-CCceEEecchhhhhh-ccCCCcccccCCCCHHHHHHHHHHHHHHHHHH
Confidence            4467999999999999999999875421110 01110 000000011 1111234678888862  223332        


Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHH
Q psy549          116 ELSISTADAFVLVYAVDDASTWDVVKDLREQIVN  149 (253)
Q Consensus       116 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~  149 (253)
                      ..++..+++.++|+|.++. .+.....|+..+..
T Consensus       115 ~~~l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~  147 (469)
T 1bif_A          115 RKFLSEEGGHVAVFDATNT-TRERRAMIFNFGEQ  147 (469)
T ss_dssp             HHHHHTTCCSEEEEESCCC-SHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCEEEEeCCCC-CHHHHHHHHHHHHh
Confidence            3355567888999999987 45556667665554

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=97.47  E-value=0.0012  Score=56.89  Aligned_cols=64  Identities=28%  Similarity=0.429  Sum_probs=42.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC------------------CCCCCccccceeeeeee--------EEcCCCcEEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD------------------RFISRYKETVEELHRGE--------YELPDGAQLTL  100 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~------------------~~~~~~~~t~~~~~~~~--------~~~~~~~~~~~  100 (253)
                      .+..-|+|+|++++|||+|+|+|++.                  .+.  ..+++.....+.        ...+++..+.+
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg~~~~~~~~~wl~~~~~~~~~f~--~~~t~~~~T~GIw~~~~p~~~~~~~~~~~~v  142 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFS--WRGGSERETTGIQIWSEIFLINKPDGKKVAV  142 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHHHHHCCSTTTSSCCTTSBCCSSC--SCCSSCCCCCEEEEESSCEEEECSSSCEEEE
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhhhcccccccccccccccccceec--CCCCCCCceeEEEEecCccccccCCCCcceE
Confidence            35567899999999999999999863                  121  111333222222        22335667789


Q ss_pred             EEEeCCCCCCCh
Q psy549          101 DILDTSGAYQFP  112 (253)
Q Consensus       101 ~l~D~~g~~~~~  112 (253)
                      .++||+|.....
T Consensus       143 vllDTeG~~~~~  154 (447)
T 3q5d_A          143 LLMDTQGTFDSQ  154 (447)
T ss_dssp             EEEEEECCCSSH
T ss_pred             EEEcCCcccccc
Confidence            999999976554

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.27  E-value=0.00017  Score=54.45  Aligned_cols=23  Identities=17%  Similarity=0.556  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .+++|+|++|+|||||++.+.+.
T Consensus         1 ~~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999998864

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.14  E-value=0.00033  Score=53.62  Aligned_cols=25  Identities=28%  Similarity=0.591  Sum_probs=21.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..--|+|+|++|||||||++.|...
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhh
Confidence            3456899999999999999999864

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.13  E-value=0.00026  Score=53.33  Aligned_cols=23  Identities=22%  Similarity=0.524  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -.|+|+|++|||||||++.|.+.
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            46899999999999999999863

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.12  E-value=0.00031  Score=53.16  Aligned_cols=26  Identities=19%  Similarity=0.187  Sum_probs=22.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...-.|+|+|++|||||||++.+.+.
T Consensus         7 ~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            7 LGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             CTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            34457999999999999999999875

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.09  E-value=0.00029  Score=54.01  Aligned_cols=22  Identities=32%  Similarity=0.594  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -.++|+|++|||||||++.+.+
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4789999999999999999986

>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=97.04  E-value=0.0021  Score=48.98  Aligned_cols=79  Identities=9%  Similarity=0.066  Sum_probs=52.4

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhc--CCCCCEEEEEecCCCCCccccHHH
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKR--GLMVPIVVVGNKCELEFKDVRREI  175 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~  175 (253)
                      +.+.++|+|+..  .......+..+|.++++...+...  ..+..++..+....  .+..++.+|+|++|... ....+.
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~-~~~~~~  150 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD--FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMA-TMLNVL  150 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT--HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTE-EEEHHH
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH--HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCc-hHHHHH
Confidence            577899999865  345556677899999999886554  55666666655432  34567899999998543 233334


Q ss_pred             HHHHHH
Q psy549          176 AETIAL  181 (253)
Q Consensus       176 ~~~~~~  181 (253)
                      .+.+..
T Consensus       151 ~~~l~~  156 (206)
T 4dzz_A          151 KESIKD  156 (206)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444433

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.00  E-value=0.00045  Score=53.22  Aligned_cols=26  Identities=31%  Similarity=0.364  Sum_probs=21.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...--++|+|++|||||||++.+.+-
T Consensus        18 ~~Gei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           18 AVGRVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            34456899999999999999998874

>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=96.98  E-value=0.00033  Score=57.49  Aligned_cols=25  Identities=28%  Similarity=0.424  Sum_probs=21.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .-.++|+|++|||||||+|.|.+..
T Consensus       173 G~~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          173 DKTTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC--
T ss_pred             CCEEEEECCCCCCHHHHHHHhcccc
Confidence            3589999999999999999998754

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.98  E-value=0.00043  Score=52.98  Aligned_cols=23  Identities=13%  Similarity=0.328  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      --|+|+|++|||||||++.|.+.
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECcCCCCHHHHHHHHHhh
Confidence            46899999999999999999874

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.91  E-value=0.0031  Score=54.27  Aligned_cols=65  Identities=15%  Similarity=0.125  Sum_probs=38.8

Q ss_pred             EEEEEEeCCCCCCCh-hhHHH-----hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCc
Q psy549           98 LTLDILDTSGAYQFP-AMREL-----SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFK  169 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~-~~~~~-----~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~  169 (253)
                      +.+.|+||||..... .+...     .+...+.+++|.|+........   ....+..    .++ ..+|+||.|....
T Consensus       184 ~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~~~---~~~~f~~----~l~i~gvVlnK~D~~~~  255 (433)
T 2xxa_A          184 YDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAAN---TAKAFNE----ALPLTGVVLTKVDGDAR  255 (433)
T ss_dssp             CSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTHHH---HHHHHHH----HSCCCCEEEECTTSSSC
T ss_pred             CCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHHHH---HHHHHhc----cCCCeEEEEecCCCCcc
Confidence            567899999976542 22221     2346889999999876543222   2222222    134 3578999997543

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.89  E-value=0.00056  Score=52.75  Aligned_cols=25  Identities=20%  Similarity=0.333  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ....|+|+|++|||||||++.+.+-
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999988763

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.89  E-value=0.00054  Score=53.33  Aligned_cols=25  Identities=28%  Similarity=0.472  Sum_probs=21.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .-.++|+|++|||||||++.+.+-.
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4568999999999999999998743

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.89  E-value=0.00056  Score=53.36  Aligned_cols=26  Identities=27%  Similarity=0.346  Sum_probs=22.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..--++|+|++|||||||++.+.+..
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            44578999999999999999998743

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.87  E-value=0.00047  Score=51.50  Aligned_cols=21  Identities=29%  Similarity=0.509  Sum_probs=18.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHH
Q psy549           50 RRVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~   70 (253)
                      --++++|++|||||||++.+.
T Consensus        10 ei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           10 SLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHc
Confidence            357899999999999999754

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.80  E-value=0.00076  Score=49.76  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=21.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      -.++++|+.|+|||||++.+.+..
T Consensus        34 e~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           34 IMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            468999999999999999998754

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.78  E-value=0.00079  Score=51.07  Aligned_cols=21  Identities=24%  Similarity=0.612  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+|+||+|||||||+++|+..
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            889999999999999999854

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.77  E-value=0.0007  Score=53.37  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            468999999999999999887644

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.74  E-value=0.0011  Score=51.06  Aligned_cols=26  Identities=23%  Similarity=0.332  Sum_probs=22.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..--|+|+|++|||||||++.|....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            34568999999999999999998753

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.72  E-value=0.00093  Score=49.61  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..|+|+|++||||||+++.|.+.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999998763

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.71  E-value=0.0013  Score=51.11  Aligned_cols=22  Identities=23%  Similarity=0.517  Sum_probs=18.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      --|+|+|+|||||+|....|..
T Consensus        30 kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           30 KVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEEEECCTTCCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3466789999999999998874

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.70  E-value=0.00096  Score=51.34  Aligned_cols=24  Identities=17%  Similarity=0.319  Sum_probs=21.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|++|||||||++.|.+
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999999876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.68  E-value=0.0012  Score=50.45  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=21.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ...|+|+|++||||||+++.|.+..
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3579999999999999999988754

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.68  E-value=0.00082  Score=52.56  Aligned_cols=24  Identities=21%  Similarity=0.279  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            368899999999999999887653

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.67  E-value=0.0014  Score=49.99  Aligned_cols=25  Identities=20%  Similarity=0.332  Sum_probs=21.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .....|+|+|.+||||||+.+.|..
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3446899999999999999999875

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.67  E-value=0.001  Score=52.64  Aligned_cols=24  Identities=21%  Similarity=0.196  Sum_probs=20.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            368899999999999999988753

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.67  E-value=0.0011  Score=50.52  Aligned_cols=21  Identities=29%  Similarity=0.426  Sum_probs=19.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|+|++|+|||||++.+.+
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g   23 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHh
Confidence            589999999999999999886

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.66  E-value=0.0011  Score=50.13  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=19.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|+|++|||||||++.+.+
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            578999999999999999975

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.65  E-value=0.0013  Score=50.46  Aligned_cols=25  Identities=32%  Similarity=0.494  Sum_probs=21.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ....|+|+|++|||||||++.|...
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4467999999999999999998763

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.64  E-value=0.0011  Score=55.61  Aligned_cols=25  Identities=32%  Similarity=0.399  Sum_probs=21.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF   74 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~   74 (253)
                      -.++|+|++|||||||+|.|.+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             CEEEEECCCCccHHHHHHHHhcccc
Confidence            3789999999999999999997543

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.64  E-value=0.0017  Score=48.37  Aligned_cols=23  Identities=30%  Similarity=0.372  Sum_probs=20.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|++||||||+++.|.+
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            35799999999999999998875

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.63  E-value=0.0012  Score=48.86  Aligned_cols=20  Identities=20%  Similarity=0.375  Sum_probs=18.6

Q ss_pred             ceEEEECCCCCCHHHHHHHH
Q psy549           50 RRVVVMGGARVGKSSIISQF   69 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l   69 (253)
                      ..|+|+|++||||||+.+.|
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999999

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.62  E-value=0.0012  Score=50.49  Aligned_cols=24  Identities=38%  Similarity=0.452  Sum_probs=20.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|++|||||||++.|.+
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999999875

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.62  E-value=0.0011  Score=53.25  Aligned_cols=24  Identities=17%  Similarity=0.358  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        33 e~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999988753

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.62  E-value=0.0011  Score=51.47  Aligned_cols=24  Identities=17%  Similarity=0.218  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            368899999999999999988753

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.61  E-value=0.0011  Score=53.62  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999888743

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.61  E-value=0.0015  Score=50.79  Aligned_cols=23  Identities=13%  Similarity=0.235  Sum_probs=20.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|++||||||+++.|..
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999998875

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.60  E-value=0.0012  Score=52.12  Aligned_cols=24  Identities=38%  Similarity=0.515  Sum_probs=20.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            478999999999999999987653

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.59  E-value=0.0014  Score=51.86  Aligned_cols=22  Identities=23%  Similarity=0.430  Sum_probs=20.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHH
Q psy549           49 KRRVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~   70 (253)
                      ...|+|+|++|||||||++.+.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3589999999999999999988

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.59  E-value=0.0013  Score=48.57  Aligned_cols=21  Identities=14%  Similarity=0.172  Sum_probs=19.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|+|++||||||+++.|..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999875

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.57  E-value=0.0021  Score=49.08  Aligned_cols=24  Identities=21%  Similarity=0.433  Sum_probs=20.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|.|.+||||||+.+.|..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998874

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.57  E-value=0.0019  Score=49.58  Aligned_cols=27  Identities=11%  Similarity=0.164  Sum_probs=22.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ......|+|+|++|+|||||++.|...
T Consensus        18 ~~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           18 GSKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             SCCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            344578999999999999999998864

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.56  E-value=0.0014  Score=48.91  Aligned_cols=22  Identities=23%  Similarity=0.465  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..|+|.|.+||||||+++.|..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4689999999999999999986

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.56  E-value=0.0013  Score=52.07  Aligned_cols=25  Identities=24%  Similarity=0.173  Sum_probs=21.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .=.++|+|++|+|||||++.+.+-.
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3478999999999999999988743

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.56  E-value=0.0013  Score=52.26  Aligned_cols=24  Identities=17%  Similarity=0.184  Sum_probs=21.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999988754

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.56  E-value=0.0012  Score=53.13  Aligned_cols=24  Identities=21%  Similarity=0.288  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            467899999999999999988743

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.56  E-value=0.0012  Score=52.77  Aligned_cols=24  Identities=21%  Similarity=0.231  Sum_probs=21.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        34 e~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468999999999999999988754

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.55  E-value=0.0013  Score=52.85  Aligned_cols=24  Identities=29%  Similarity=0.353  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        51 ei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEcCCCCcHHHHHHHHHcCC
Confidence            367899999999999999988753

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.55  E-value=0.0014  Score=51.47  Aligned_cols=24  Identities=21%  Similarity=0.385  Sum_probs=21.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|+.|+|||||++.+.+-.
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            368999999999999999988754

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.54  E-value=0.0014  Score=53.63  Aligned_cols=25  Identities=20%  Similarity=0.313  Sum_probs=21.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..=.++|+|++|+|||||++.|.+-
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhh
Confidence            3457999999999999999998863

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.52  E-value=0.0014  Score=52.11  Aligned_cols=23  Identities=26%  Similarity=0.261  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      =.++|+|++|+|||||++.+.+-
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36899999999999999998885

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.52  E-value=0.0013  Score=51.96  Aligned_cols=24  Identities=21%  Similarity=0.272  Sum_probs=20.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            368999999999999999988753

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.52  E-value=0.002  Score=48.24  Aligned_cols=24  Identities=17%  Similarity=0.271  Sum_probs=20.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|.+|+||||+++.|..
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHH
Confidence            346799999999999999999874

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.52  E-value=0.0016  Score=50.32  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++|+|+|++||||||+++.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999863

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=96.51  E-value=0.0014  Score=49.17  Aligned_cols=24  Identities=21%  Similarity=0.350  Sum_probs=20.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .-.++|+|++|+|||||++.+.+.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999998764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.50  E-value=0.0015  Score=50.98  Aligned_cols=24  Identities=29%  Similarity=0.430  Sum_probs=20.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|.+||||||+++.|..
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999873

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.50  E-value=0.0019  Score=49.40  Aligned_cols=23  Identities=35%  Similarity=0.359  Sum_probs=20.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|.+||||||+++.|..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999875

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.50  E-value=0.0014  Score=52.33  Aligned_cols=24  Identities=13%  Similarity=0.091  Sum_probs=21.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999988753

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.49  E-value=0.0016  Score=50.23  Aligned_cols=22  Identities=23%  Similarity=0.283  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++|+|+|++||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999864

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.49  E-value=0.0015  Score=52.44  Aligned_cols=23  Identities=22%  Similarity=0.273  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      =.++|+|++|+|||||++.+.+-
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36899999999999999998885

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.49  E-value=0.0016  Score=51.84  Aligned_cols=24  Identities=17%  Similarity=0.278  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            368999999999999999988753

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.48  E-value=0.0015  Score=52.25  Aligned_cols=24  Identities=21%  Similarity=0.234  Sum_probs=21.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .=.++|+|++|+|||||++.+.+-
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            347899999999999999998874

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.48  E-value=0.0017  Score=48.62  Aligned_cols=24  Identities=8%  Similarity=0.198  Sum_probs=21.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...++|+|++|+|||||+++++..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHh
Confidence            357899999999999999999864

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.47  E-value=0.0016  Score=49.75  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=20.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .+|+|+|.+||||||+++.|.+
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999876

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.47  E-value=0.0016  Score=52.71  Aligned_cols=24  Identities=13%  Similarity=0.242  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        48 e~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            367899999999999999988754

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.47  E-value=0.0012  Score=50.98  Aligned_cols=22  Identities=23%  Similarity=0.170  Sum_probs=20.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .++|+|++|+|||||++.+.+-
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999875

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.46  E-value=0.0016  Score=52.16  Aligned_cols=25  Identities=24%  Similarity=0.324  Sum_probs=21.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..=.|+|+|++|||||||++.+.+-
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHh
Confidence            3347999999999999999998863

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.45  E-value=0.0016  Score=52.42  Aligned_cols=24  Identities=17%  Similarity=0.216  Sum_probs=20.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999988754

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.45  E-value=0.002  Score=52.98  Aligned_cols=25  Identities=24%  Similarity=0.153  Sum_probs=22.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....-|+|+|++|||||||++.+.+
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHh
Confidence            4567899999999999999999886

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.44  E-value=0.0021  Score=50.81  Aligned_cols=24  Identities=25%  Similarity=0.362  Sum_probs=21.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|++|||||||++.|.+
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            446799999999999999999876

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.44  E-value=0.002  Score=49.23  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=20.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .-.|+|+|++||||||+.+.|..
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            35899999999999999999874

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.42  E-value=0.0016  Score=51.84  Aligned_cols=24  Identities=25%  Similarity=0.369  Sum_probs=20.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            368999999999999999988754

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.41  E-value=0.0025  Score=47.95  Aligned_cols=24  Identities=17%  Similarity=0.331  Sum_probs=21.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...|+|+|.+||||||+.+.|...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999998764

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.39  E-value=0.0017  Score=52.11  Aligned_cols=24  Identities=21%  Similarity=0.224  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        34 e~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            468999999999999999988643

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.38  E-value=0.0024  Score=48.15  Aligned_cols=23  Identities=17%  Similarity=0.338  Sum_probs=20.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|.+||||||+++.|..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999999875

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.38  E-value=0.0021  Score=49.18  Aligned_cols=22  Identities=32%  Similarity=0.391  Sum_probs=20.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +.|+|+|++||||||+.+.|.+
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999976

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.38  E-value=0.0024  Score=48.71  Aligned_cols=25  Identities=20%  Similarity=0.129  Sum_probs=21.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ....|+|+|++|+|||||++.|.+.
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3467999999999999999988753

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.38  E-value=0.0022  Score=48.76  Aligned_cols=21  Identities=24%  Similarity=0.487  Sum_probs=19.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|+|.+||||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            689999999999999999875

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.38  E-value=0.002  Score=48.04  Aligned_cols=23  Identities=30%  Similarity=0.515  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..|+|.|.+||||||+.+.|...
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            46899999999999999998863

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.37  E-value=0.0022  Score=49.43  Aligned_cols=22  Identities=18%  Similarity=0.270  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++|+|+|+|||||+|...+|..
T Consensus         1 M~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998874

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.36  E-value=0.0024  Score=47.97  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=20.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|.+||||||+.+.|..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999874

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.36  E-value=0.0017  Score=53.13  Aligned_cols=24  Identities=25%  Similarity=0.268  Sum_probs=21.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      -.++++|++|||||||+|.+.+..
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CeEEEECCCCCcHHHHHHHhcccc
Confidence            468999999999999999998754

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.36  E-value=0.0023  Score=49.21  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=21.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|.|.+||||||+++.|..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999874

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.35  E-value=0.0025  Score=49.44  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=20.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|.+||||||+.+.|..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998864

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.35  E-value=0.0024  Score=48.03  Aligned_cols=22  Identities=27%  Similarity=0.285  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..|+|.|.+||||||+++.|..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999864

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.34  E-value=0.0019  Score=50.15  Aligned_cols=26  Identities=15%  Similarity=0.144  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=-++|+|++|+|||||++.+.+..
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34478999999999999999998743

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.33  E-value=0.0012  Score=51.65  Aligned_cols=24  Identities=17%  Similarity=0.297  Sum_probs=16.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHH-hC
Q psy549           49 KRRVVVMGGARVGKSSIISQFL-YD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~-~~   72 (253)
                      .--|+|+|++|||||||++.|. +.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC--
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            3468999999999999999998 54

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.33  E-value=0.0027  Score=50.16  Aligned_cols=24  Identities=17%  Similarity=0.255  Sum_probs=21.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...+|+|+|++||||||+++.|..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999874

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.33  E-value=0.0022  Score=51.45  Aligned_cols=24  Identities=17%  Similarity=0.347  Sum_probs=21.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|+|||||++.+.+-.
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999988764

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.33  E-value=0.0025  Score=47.83  Aligned_cols=23  Identities=26%  Similarity=0.300  Sum_probs=20.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+++|++||||||+.+.|..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999864

>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=96.32  E-value=0.0021  Score=52.65  Aligned_cols=22  Identities=36%  Similarity=0.477  Sum_probs=20.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHH
Q psy549           49 KRRVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~   70 (253)
                      .-.++|+|++|||||||+|.+.
T Consensus       165 G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          165 GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3478999999999999999998

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.32  E-value=0.0011  Score=49.58  Aligned_cols=22  Identities=18%  Similarity=0.433  Sum_probs=20.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .|+|+|++|+|||||++.+.+-
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998864

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.32  E-value=0.0022  Score=48.28  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..|+|.|.+||||||+++.|..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999874

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.30  E-value=0.0029  Score=49.58  Aligned_cols=24  Identities=21%  Similarity=0.338  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|.+||||||+.+.|..
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999874

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.29  E-value=0.0032  Score=51.92  Aligned_cols=25  Identities=24%  Similarity=0.198  Sum_probs=21.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...+-|+|+|++|||||||++.|.+
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998865

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.28  E-value=0.0066  Score=43.65  Aligned_cols=23  Identities=17%  Similarity=0.179  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..|+|.|++|+|||++++.+...
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCCT
T ss_pred             CcEEEECCCCccHHHHHHHHHHh
Confidence            46999999999999999876543

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.25  E-value=0.0034  Score=47.77  Aligned_cols=24  Identities=17%  Similarity=0.210  Sum_probs=21.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...|+|.|.+||||||+++.|...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            467999999999999999998864

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.25  E-value=0.0035  Score=48.03  Aligned_cols=24  Identities=25%  Similarity=0.259  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|.|.+||||||+++.|..
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHH
Confidence            346899999999999999999875

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.25  E-value=0.003  Score=48.30  Aligned_cols=23  Identities=22%  Similarity=0.065  Sum_probs=20.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|.|.+||||||+++.|..
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            36799999999999999999875

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.24  E-value=0.0037  Score=50.84  Aligned_cols=24  Identities=21%  Similarity=0.041  Sum_probs=21.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|++|||||||++.|..
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998764

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=96.22  E-value=0.003  Score=49.44  Aligned_cols=27  Identities=19%  Similarity=0.283  Sum_probs=23.0

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .....-|+|.|+.|||||||++.|.+.
T Consensus        17 ~~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           17 GTQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhc
Confidence            345578999999999999999998764

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.22  E-value=0.0017  Score=53.23  Aligned_cols=26  Identities=19%  Similarity=0.314  Sum_probs=21.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.++|+|++|+|||||++.+.+-.
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcCC
Confidence            34478999999999999999887643

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.22  E-value=0.0026  Score=49.10  Aligned_cols=22  Identities=18%  Similarity=0.410  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++|+|.|.+||||||+++.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            1 MRIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999999874

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.22  E-value=0.0031  Score=47.52  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=20.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|.|.+||||||+.+.|..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998864

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.22  E-value=0.0027  Score=51.23  Aligned_cols=21  Identities=19%  Similarity=0.349  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+++|++|+|||||++.+.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999998874

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.22  E-value=0.0023  Score=53.78  Aligned_cols=25  Identities=24%  Similarity=0.472  Sum_probs=22.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .-+++|+|++|+|||||++.|.+-.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999988753

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.21  E-value=0.0028  Score=49.21  Aligned_cols=23  Identities=17%  Similarity=0.244  Sum_probs=20.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|++||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999874

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.19  E-value=0.003  Score=47.02  Aligned_cols=21  Identities=24%  Similarity=0.349  Sum_probs=19.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +|+|+|++||||||+.+.|..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            699999999999999998864

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.17  E-value=0.0025  Score=53.34  Aligned_cols=24  Identities=13%  Similarity=0.296  Sum_probs=20.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =-++|+|++|||||||++.+.+-.
T Consensus        31 e~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           31 EILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCchHHHHHHHHhcCC
Confidence            357899999999999999988754

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.17  E-value=0.0025  Score=51.79  Aligned_cols=24  Identities=21%  Similarity=0.385  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|+.|+|||||++.+.+-.
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            367999999999999999988653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.16  E-value=0.0034  Score=47.42  Aligned_cols=24  Identities=21%  Similarity=0.414  Sum_probs=20.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|.+||||||+.+.|..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998864

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.16  E-value=0.0039  Score=47.63  Aligned_cols=24  Identities=21%  Similarity=0.290  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|++|+|||||++.|.+
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998875

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.14  E-value=0.003  Score=52.96  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        55 ei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           55 QIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEEcCCCchHHHHHHHHhcCC
Confidence            357899999999999999888743

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.14  E-value=0.0035  Score=46.19  Aligned_cols=21  Identities=29%  Similarity=0.308  Sum_probs=19.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999875

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.13  E-value=0.003  Score=52.82  Aligned_cols=24  Identities=21%  Similarity=0.245  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        42 e~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            357899999999999999988754

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.13  E-value=0.0038  Score=51.22  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=21.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|++|||||||++.|.+
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999999887

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.11  E-value=0.0033  Score=49.81  Aligned_cols=21  Identities=24%  Similarity=0.423  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ++|+|++|+|||||++.+.+.
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999998864

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.10  E-value=0.0032  Score=52.78  Aligned_cols=24  Identities=17%  Similarity=0.189  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           30 EFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEEcCCCchHHHHHHHHHCCC
Confidence            367899999999999999988743

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.10  E-value=0.0038  Score=50.69  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|.|++||||||+++.|..
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999999974

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.09  E-value=0.0046  Score=49.12  Aligned_cols=23  Identities=17%  Similarity=0.229  Sum_probs=20.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~   70 (253)
                      ....|+|+|++||||||+++.|.
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999999988

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.09  E-value=0.0033  Score=52.74  Aligned_cols=24  Identities=17%  Similarity=0.210  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           30 EFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCchHHHHHHHHhcCC
Confidence            467899999999999999988743

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.09  E-value=0.0033  Score=53.03  Aligned_cols=24  Identities=25%  Similarity=0.292  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =-++|+|++|||||||++.+.+-.
T Consensus        30 e~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEEcCCCchHHHHHHHHHcCC
Confidence            357899999999999999988744

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.09  E-value=0.0022  Score=46.76  Aligned_cols=25  Identities=20%  Similarity=0.367  Sum_probs=21.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .-.++|+|++|+|||+|++.+.+..
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3468999999999999999988743

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.06  E-value=0.0041  Score=46.36  Aligned_cols=23  Identities=26%  Similarity=0.472  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -.++|.|++|+|||+|++.+...
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            56899999999999999998764

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.05  E-value=0.0051  Score=46.22  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|.+|+||||+++.+..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            456799999999999999998875

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.04  E-value=0.0047  Score=45.98  Aligned_cols=22  Identities=18%  Similarity=0.365  Sum_probs=20.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..|+|+|.+|+|||||+.++..
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999886

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.04  E-value=0.0042  Score=47.20  Aligned_cols=25  Identities=16%  Similarity=0.129  Sum_probs=22.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ....|+|+|.+||||||+.+.|...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            3468999999999999999998865

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.04  E-value=0.0035  Score=52.51  Aligned_cols=21  Identities=33%  Similarity=0.458  Sum_probs=19.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|+|++|||||||++.+++
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            799999999999999999876

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.04  E-value=0.006  Score=49.95  Aligned_cols=24  Identities=33%  Similarity=0.450  Sum_probs=20.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-.|+|+|++|||||||++.+.+
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            345899999999999999999883

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.04  E-value=0.0036  Score=52.69  Aligned_cols=24  Identities=17%  Similarity=0.253  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        38 e~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHHcCC
Confidence            467899999999999999988643

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.03  E-value=0.0036  Score=52.76  Aligned_cols=23  Identities=13%  Similarity=0.251  Sum_probs=20.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .++|+|++|||||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCC
Confidence            57899999999999999988754

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.03  E-value=0.0041  Score=48.36  Aligned_cols=21  Identities=14%  Similarity=0.199  Sum_probs=19.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|.|.+||||||+++.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999864

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.00  E-value=0.0036  Score=48.45  Aligned_cols=23  Identities=17%  Similarity=0.318  Sum_probs=20.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|.+||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998864

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.98  E-value=0.0041  Score=50.91  Aligned_cols=24  Identities=13%  Similarity=0.275  Sum_probs=20.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-.|+|+|++||||||+++.+.+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            345789999999999999999884

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.95  E-value=0.0047  Score=46.48  Aligned_cols=21  Identities=14%  Similarity=0.159  Sum_probs=19.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999875

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.95  E-value=0.0051  Score=47.50  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=20.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .+.|+|.|.+||||||+++.|..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999875

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=95.94  E-value=0.0042  Score=51.52  Aligned_cols=23  Identities=17%  Similarity=0.378  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -.++|+|++|+|||||++.+.+.
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            35899999999999999998874

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.94  E-value=0.0045  Score=46.84  Aligned_cols=23  Identities=17%  Similarity=0.426  Sum_probs=20.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|.|.+||||||+.+.|..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998875

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.94  E-value=0.0044  Score=49.22  Aligned_cols=24  Identities=17%  Similarity=0.166  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|++||||||+.+.|..
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999875

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.93  E-value=0.0046  Score=49.21  Aligned_cols=21  Identities=19%  Similarity=0.246  Sum_probs=19.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|+|++|||||||.+.|..
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            578999999999999999874

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=95.91  E-value=0.003  Score=52.72  Aligned_cols=24  Identities=17%  Similarity=0.227  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        27 e~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCccHHHHHHHHHcCC
Confidence            368899999999999999988743

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.90  E-value=0.0018  Score=49.80  Aligned_cols=21  Identities=14%  Similarity=0.300  Sum_probs=19.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -|+|.|.+||||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            589999999999999999875

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=95.89  E-value=0.0048  Score=46.20  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..|+|+|.+||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999998864

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=95.89  E-value=0.0047  Score=51.15  Aligned_cols=24  Identities=17%  Similarity=0.277  Sum_probs=21.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..--|+|+|++||||||+++.+.+
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999999884

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.88  E-value=0.0048  Score=49.63  Aligned_cols=21  Identities=24%  Similarity=0.423  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+|+|++|+|||||++.+.+.
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHHH
Confidence            999999999999999998864

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=95.88  E-value=0.0048  Score=52.03  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .-.|+|+|++|||||||++.+.+
T Consensus       136 g~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          136 MGLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             SEEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            34699999999999999999886

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=95.87  E-value=0.0063  Score=45.71  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..|+|.|.+||||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999864

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=95.87  E-value=0.004  Score=51.63  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=20.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .++|+|++|+|||||++.+.+-.
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            78999999999999999988754

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.86  E-value=0.004  Score=52.26  Aligned_cols=25  Identities=24%  Similarity=0.519  Sum_probs=21.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .-.|+|+|++|+|||||++.+.+-.
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            3489999999999999999988753

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=95.86  E-value=0.005  Score=45.48  Aligned_cols=22  Identities=9%  Similarity=0.285  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..|+|.|.+||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999998874

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=95.85  E-value=0.0058  Score=48.73  Aligned_cols=23  Identities=22%  Similarity=0.270  Sum_probs=20.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|.+||||||+++.|..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            35799999999999999999875

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.84  E-value=0.0052  Score=47.64  Aligned_cols=22  Identities=18%  Similarity=0.282  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      --++|+|++|+|||||+..+..
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4688999999999999999884

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.83  E-value=0.0066  Score=45.28  Aligned_cols=23  Identities=17%  Similarity=0.146  Sum_probs=20.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|.+||||||+++.|..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998876

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.79  E-value=0.0063  Score=47.77  Aligned_cols=24  Identities=33%  Similarity=0.274  Sum_probs=20.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..+.|+|.|++|+||||+.+.|..
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998873

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=95.79  E-value=0.0047  Score=52.34  Aligned_cols=24  Identities=38%  Similarity=0.560  Sum_probs=20.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .=.++|+|++|||||||++.+.+-
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCChHHHHHHHHhCC
Confidence            346899999999999999998863

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=95.74  E-value=0.0056  Score=45.73  Aligned_cols=21  Identities=29%  Similarity=0.464  Sum_probs=18.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -.+|+|+.|+|||||++.+..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999875

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=95.72  E-value=0.003  Score=52.86  Aligned_cols=24  Identities=17%  Similarity=0.261  Sum_probs=20.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        32 e~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           32 ERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            368899999999999999988754

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.72  E-value=0.004  Score=46.50  Aligned_cols=23  Identities=17%  Similarity=0.150  Sum_probs=16.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|.|.+||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999864

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=95.72  E-value=0.0051  Score=45.71  Aligned_cols=24  Identities=25%  Similarity=0.534  Sum_probs=20.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...|+|.|++|+|||+|++.+...
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            346899999999999999988753

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=95.70  E-value=0.0058  Score=52.30  Aligned_cols=23  Identities=26%  Similarity=0.310  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      =.|+|+|++|||||||++.+++.
T Consensus       168 gii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          168 GIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHhh
Confidence            36899999999999999999874

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=95.69  E-value=0.0064  Score=48.22  Aligned_cols=23  Identities=17%  Similarity=0.349  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..|+|+|++|+|||+|++.+.+.
T Consensus        46 ~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            35999999999999999998763

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.68  E-value=0.0087  Score=46.80  Aligned_cols=25  Identities=16%  Similarity=0.236  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ....|+|.|++||||||+++.|...
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4578999999999999999998763

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.67  E-value=0.0073  Score=44.50  Aligned_cols=22  Identities=27%  Similarity=0.395  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -.|+|.|.+||||||+.+.|..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998864

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.66  E-value=0.0065  Score=50.90  Aligned_cols=24  Identities=13%  Similarity=0.275  Sum_probs=21.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-.|+|+|++||||||+++.+.+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHh
Confidence            445789999999999999999884

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.66  E-value=0.0072  Score=47.90  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..+.|+|.|.+||||||+.+.|..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            447899999999999999998865

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=95.62  E-value=0.0076  Score=46.82  Aligned_cols=25  Identities=12%  Similarity=0.263  Sum_probs=21.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..-.++|.|++|+|||+|++.+...
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3467999999999999999998753

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.61  E-value=0.0067  Score=50.63  Aligned_cols=26  Identities=23%  Similarity=0.418  Sum_probs=22.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=+++|+|++|+|||||++.+.+..
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34488999999999999999999864

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.61  E-value=0.0086  Score=48.37  Aligned_cols=25  Identities=20%  Similarity=0.161  Sum_probs=21.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...+.|+|.|.+||||||+.+.|..
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999873

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=95.60  E-value=0.006  Score=52.92  Aligned_cols=24  Identities=33%  Similarity=0.634  Sum_probs=21.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-.++|+|+.|||||||++.+.+
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~G  160 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCS  160 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            345899999999999999999886

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=95.58  E-value=0.0071  Score=52.69  Aligned_cols=24  Identities=21%  Similarity=0.342  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-.|+|+|++|||||||++.|.+
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHH
Confidence            456799999999999999999874

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=95.57  E-value=0.0065  Score=49.31  Aligned_cols=25  Identities=24%  Similarity=0.412  Sum_probs=21.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..=-++|+|++|+|||||+..+.+.
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            3346899999999999999998863

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=95.56  E-value=0.0078  Score=46.25  Aligned_cols=24  Identities=21%  Similarity=0.081  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..--++|+|++|+|||||+..+..
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            334689999999999999999987

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=95.55  E-value=0.0079  Score=46.99  Aligned_cols=25  Identities=20%  Similarity=0.264  Sum_probs=21.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..--++|+|++|+|||||+..+...
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            3457899999999999999999874

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=95.55  E-value=0.0091  Score=43.00  Aligned_cols=25  Identities=12%  Similarity=0.021  Sum_probs=21.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ...|+|.|++|+|||++++.+....
T Consensus        24 ~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           24 DIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             CSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHhC
Confidence            3569999999999999999987643

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.54  E-value=0.0065  Score=53.43  Aligned_cols=25  Identities=20%  Similarity=0.337  Sum_probs=21.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .-.|+|+|++|||||||++.+++--
T Consensus       260 g~~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          260 KFSAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3469999999999999999988744

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=95.54  E-value=0.0088  Score=45.48  Aligned_cols=23  Identities=17%  Similarity=0.392  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..++|.|++|+|||+|+..+...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999988763

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.52  E-value=0.008  Score=47.73  Aligned_cols=23  Identities=17%  Similarity=0.232  Sum_probs=20.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .-.|+|+|++|+||||+.+.|..
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.52  E-value=0.011  Score=48.10  Aligned_cols=24  Identities=13%  Similarity=0.212  Sum_probs=20.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|.|++|+|||+|++.+..
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999987664

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.50  E-value=0.011  Score=45.43  Aligned_cols=23  Identities=17%  Similarity=0.192  Sum_probs=20.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|.+|+||||+++.|..
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998765

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.45  E-value=0.0074  Score=46.29  Aligned_cols=21  Identities=33%  Similarity=0.365  Sum_probs=18.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .++|.|+||+|||+++.++..
T Consensus        60 ~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999888775

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=95.42  E-value=0.039  Score=47.47  Aligned_cols=96  Identities=21%  Similarity=0.188  Sum_probs=52.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh------------------CCCC--CCccc-cceeee---eeeEEcCCCcEEEEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY------------------DRFI--SRYKE-TVEELH---RGEYELPDGAQLTLDI  102 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~------------------~~~~--~~~~~-t~~~~~---~~~~~~~~~~~~~~~l  102 (253)
                      .+..-|+|+|..++|||+|+|.|+.                  ..|.  ....+ |.+-..   ...+..+++..+.+-+
T Consensus        65 ~~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vll  144 (457)
T 4ido_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLL  144 (457)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEE
T ss_pred             CceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEEE
Confidence            3556778999999999999996651                  1221  11112 222111   1123345777888999


Q ss_pred             EeCCCCCCChhh------HH-HhcccCCEEEEEEEC-CChhhHHHHHH
Q psy549          103 LDTSGAYQFPAM------RE-LSISTADAFVLVYAV-DDASTWDVVKD  142 (253)
Q Consensus       103 ~D~~g~~~~~~~------~~-~~~~~~d~~i~v~d~-~~~~s~~~~~~  142 (253)
                      +||.|.......      .- ..+--++.+||-..- -+...++.+..
T Consensus       145 lDTEG~~d~~~~~~~d~~ifaLa~LLSS~~IyN~~~~i~~~~L~~L~~  192 (457)
T 4ido_A          145 MDTQGTFDSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQHLQL  192 (457)
T ss_dssp             EEECCBTCTTCCHHHHHHHHHHHHHHCSEEEEEEESSCCHHHHHHHHH
T ss_pred             EeccCCCCcccCccccHHHHHHHHHHhhheeecccccCCHHHHHHHHH
Confidence            999995533211      11 122346666664433 34444555443

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.41  E-value=0.0093  Score=43.31  Aligned_cols=20  Identities=30%  Similarity=0.521  Sum_probs=17.7

Q ss_pred             eEEEECCCCCCHHHHHHHHH
Q psy549           51 RVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~   70 (253)
                      -.+|+|+.|+|||||+.++.
T Consensus        25 ~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           25 INLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            35789999999999999976

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=95.36  E-value=0.0062  Score=50.18  Aligned_cols=23  Identities=17%  Similarity=0.369  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .-++|+|..|||||||++.+.+.
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cEEEEEecCCCCHHHHHHHHHhh
Confidence            45789999999999999999975

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.35  E-value=0.01  Score=45.07  Aligned_cols=25  Identities=20%  Similarity=0.221  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..+.|+|+|.+||||||+.+.|...
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHh
Confidence            4578999999999999999998754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.35  E-value=0.013  Score=47.69  Aligned_cols=25  Identities=20%  Similarity=0.114  Sum_probs=20.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...-|++.|+||+|||+|++.+...
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3456788899999999999998864

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=95.31  E-value=0.0099  Score=51.73  Aligned_cols=22  Identities=27%  Similarity=0.465  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      =.++|+|++|+|||||++.+.+
T Consensus        30 e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhc
Confidence            4678999999999999999884

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.30  E-value=0.01  Score=50.10  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=21.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-.|+|+|++|+|||||++.+.+
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            335789999999999999999886

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.30  E-value=0.01  Score=52.51  Aligned_cols=27  Identities=22%  Similarity=0.238  Sum_probs=22.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ...=.++|+|++|+|||||++.+.+-.
T Consensus        45 ~~Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           45 KEGMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             CTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            344578999999999999999988744

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=95.26  E-value=0.013  Score=47.06  Aligned_cols=24  Identities=13%  Similarity=0.317  Sum_probs=21.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...++|.|++|+|||+|++.+...
T Consensus        51 ~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           51 PKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             CSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            346999999999999999998764

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=95.25  E-value=0.011  Score=45.68  Aligned_cols=21  Identities=29%  Similarity=0.314  Sum_probs=19.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .++|.|++|+|||+|++.+..
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~   67 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAK   67 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999875

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=95.25  E-value=0.014  Score=46.15  Aligned_cols=24  Identities=13%  Similarity=0.317  Sum_probs=20.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...|+|.|++|+|||+|++.+...
T Consensus        39 ~~~vll~G~~GtGKT~la~~la~~   62 (262)
T 2qz4_A           39 PKGALLLGPPGCGKTLLAKAVATE   62 (262)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            356999999999999999998763

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=95.24  E-value=0.013  Score=47.41  Aligned_cols=24  Identities=13%  Similarity=0.292  Sum_probs=21.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...|+|.|++|+|||+|++.+.+.
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            457999999999999999998763

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.24  E-value=0.01  Score=51.12  Aligned_cols=26  Identities=23%  Similarity=0.369  Sum_probs=22.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=+++|+|++|+|||||++.+.+..
T Consensus       156 ~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          156 RGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            34488999999999999999998854

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=95.23  E-value=0.012  Score=44.94  Aligned_cols=22  Identities=18%  Similarity=0.303  Sum_probs=19.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .++|.|++|+|||+|++.+...
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999998753

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.21  E-value=0.011  Score=47.91  Aligned_cols=22  Identities=23%  Similarity=0.465  Sum_probs=20.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..|+|+|.+||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999885

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=95.19  E-value=0.012  Score=46.19  Aligned_cols=24  Identities=25%  Similarity=0.346  Sum_probs=21.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...-|+|.|.+||||||+++.|..
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l~~   49 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVVVE   49 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999999864

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.14  E-value=0.016  Score=45.40  Aligned_cols=24  Identities=21%  Similarity=0.292  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|+|.+|+||||+.+.|..
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999998875

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=95.14  E-value=0.012  Score=47.95  Aligned_cols=24  Identities=17%  Similarity=0.326  Sum_probs=21.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .-.|+|.|++|+|||+|++.+.+.
T Consensus        49 ~~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           49 SKGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCcCHHHHHHHHHHH
Confidence            346999999999999999998864

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.09  E-value=0.0091  Score=47.61  Aligned_cols=26  Identities=15%  Similarity=0.294  Sum_probs=21.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .....|+|.|.+||||||+++.|...
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHh
Confidence            45578999999999999999887653

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=95.08  E-value=0.011  Score=52.91  Aligned_cols=26  Identities=27%  Similarity=0.279  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.++|+|++|+|||||++.+.+-.
T Consensus       368 ~G~~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          368 AGKTVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            34478999999999999999888743

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.04  E-value=0.013  Score=52.65  Aligned_cols=26  Identities=15%  Similarity=0.250  Sum_probs=22.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.++|+|++|+|||||++.+.+-.
T Consensus       102 ~Gei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          102 PGQVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            44579999999999999999988743

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=95.03  E-value=0.012  Score=52.53  Aligned_cols=26  Identities=27%  Similarity=0.354  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.++|+|++|+|||||++.+.+-.
T Consensus       368 ~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          368 QGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34478999999999999999988743

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=95.01  E-value=0.014  Score=48.04  Aligned_cols=23  Identities=13%  Similarity=0.333  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -.++|.|++|+|||+|++.+.+.
T Consensus        38 ~~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           38 NPIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            46899999999999999998863

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=95.00  E-value=0.013  Score=47.16  Aligned_cols=24  Identities=17%  Similarity=0.097  Sum_probs=20.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..--++|+|++|+|||||+..+..
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH
Confidence            345789999999999999999885

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=94.96  E-value=0.019  Score=46.61  Aligned_cols=24  Identities=17%  Similarity=0.303  Sum_probs=21.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .-.++|+|++|+|||++++.+...
T Consensus        47 ~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           47 IGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             SEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCcCHHHHHHHHHHH
Confidence            347999999999999999988764

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=94.95  E-value=0.02  Score=45.70  Aligned_cols=26  Identities=15%  Similarity=0.281  Sum_probs=22.3

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .....++|.|++|+|||+|++.+...
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            34568999999999999999998764

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=94.93  E-value=0.023  Score=48.60  Aligned_cols=25  Identities=32%  Similarity=0.441  Sum_probs=21.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...-|+|+|.+||||||++++|...
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            3457889999999999999998753

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.93  E-value=0.021  Score=50.56  Aligned_cols=28  Identities=21%  Similarity=0.355  Sum_probs=22.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ....=-++|+|+.|+|||||++.+.+-.
T Consensus        22 ~~~Gei~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           22 PKNNTILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             CCTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            3344578999999999999999988743

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=94.92  E-value=0.018  Score=43.83  Aligned_cols=21  Identities=29%  Similarity=0.320  Sum_probs=19.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|.|.+||||||+.+.|..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999865

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.87  E-value=0.016  Score=51.24  Aligned_cols=24  Identities=13%  Similarity=0.279  Sum_probs=21.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|+.|+|||||++.+.+-.
T Consensus       313 e~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          313 EVIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            368899999999999999998754

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=94.84  E-value=0.015  Score=52.16  Aligned_cols=27  Identities=22%  Similarity=0.254  Sum_probs=22.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ...=.++|+|++|+|||||++.+.+-.
T Consensus       115 ~~Ge~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          115 KDGMVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             CTTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            344578999999999999999988744

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=94.81  E-value=0.017  Score=48.57  Aligned_cols=19  Identities=37%  Similarity=0.448  Sum_probs=17.5

Q ss_pred             EEEECCCCCCHHHHHHHHH
Q psy549           52 VVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~   70 (253)
                      .+|+|+.|+|||||++.+.
T Consensus        26 ~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           26 TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5699999999999999987

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.80  E-value=0.02  Score=44.75  Aligned_cols=23  Identities=17%  Similarity=0.336  Sum_probs=20.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .++.+|+|+|||||||+..+|..
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHH
Confidence            47899999999999999998864

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.78  E-value=0.015  Score=51.38  Aligned_cols=23  Identities=13%  Similarity=0.307  Sum_probs=20.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .++|+|++|+|||||++.+.+-.
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988744

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=94.75  E-value=0.016  Score=48.38  Aligned_cols=24  Identities=17%  Similarity=0.372  Sum_probs=20.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .-.++|.|++|+|||+|++.+.+.
T Consensus        45 ~~~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           45 PNNIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CCCEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            347899999999999999998863

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=94.74  E-value=0.018  Score=51.69  Aligned_cols=23  Identities=13%  Similarity=0.286  Sum_probs=20.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .++|+|+.|+|||||++.+.+-.
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998754

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=94.74  E-value=0.021  Score=46.26  Aligned_cols=22  Identities=23%  Similarity=0.526  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..++|.|++|+|||+|++.+..
T Consensus        51 ~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999875

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.71  E-value=0.017  Score=45.09  Aligned_cols=22  Identities=36%  Similarity=0.653  Sum_probs=18.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      --++|+|++|+|||||+..+..
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999887763

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.70  E-value=0.015  Score=48.24  Aligned_cols=21  Identities=19%  Similarity=0.303  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ++|.|++|+||||+++.+.+.
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999998773

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=94.70  E-value=0.017  Score=47.02  Aligned_cols=22  Identities=18%  Similarity=0.546  Sum_probs=19.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHH
Q psy549           49 KRRVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~   70 (253)
                      .-.|+|+|++|+||||++..|.
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA  126 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLA  126 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4578999999999999999876

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.69  E-value=0.019  Score=49.26  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      --|++.|+||+|||+|++++.+.
T Consensus       207 rGiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          207 RGVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            45999999999999999998864

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=94.67  E-value=0.011  Score=52.88  Aligned_cols=26  Identities=23%  Similarity=0.193  Sum_probs=21.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      +.=.++|+|++|+|||||++.+.+-.
T Consensus       366 ~G~~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          366 KGETVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34478999999999999998877643

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.66  E-value=0.019  Score=47.57  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .++|.|++|+||||+++.+.+.
T Consensus        48 ~~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           48 HLLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999998864

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.65  E-value=0.013  Score=52.69  Aligned_cols=26  Identities=19%  Similarity=0.370  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      +.=.++|+|++|+|||||++.+.+-.
T Consensus       380 ~G~~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          380 PGQKVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             TTCEEEEECCTTSSTTHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            44588999999999999999887643

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=94.64  E-value=0.027  Score=46.26  Aligned_cols=24  Identities=17%  Similarity=0.299  Sum_probs=21.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...|+|.|+||+|||+|++.+...
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            457999999999999999998764

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=94.64  E-value=0.028  Score=46.31  Aligned_cols=24  Identities=21%  Similarity=0.342  Sum_probs=21.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .-.|+|.|++|+|||+|++.+...
T Consensus        45 ~~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           45 WRGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CceEEEECCCCccHHHHHHHHHHH
Confidence            357999999999999999998864

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=94.63  E-value=0.021  Score=47.82  Aligned_cols=22  Identities=18%  Similarity=0.345  Sum_probs=20.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .++|.|++|+|||+|++.+...
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWEL   67 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998864

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.63  E-value=0.023  Score=47.11  Aligned_cols=22  Identities=18%  Similarity=0.289  Sum_probs=19.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..|+|+|++|||||||...|..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            4789999999999999998875

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=94.60  E-value=0.02  Score=43.68  Aligned_cols=26  Identities=23%  Similarity=0.284  Sum_probs=22.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ....|+|+|++|+|||+|+..|...-
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            45679999999999999999988653

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.60  E-value=0.028  Score=48.22  Aligned_cols=25  Identities=12%  Similarity=0.214  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..--|++.||||+|||+|++++.+.
T Consensus       214 ~prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          214 APKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCCeeEEECcCCCCHHHHHHHHHHH
Confidence            3457999999999999999998874

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.58  E-value=0.018  Score=45.04  Aligned_cols=25  Identities=16%  Similarity=0.181  Sum_probs=18.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....-|+|.|.+||||||+++.|..
T Consensus        23 ~~g~~I~~eG~~GsGKsT~~~~l~~   47 (227)
T 3v9p_A           23 ARGKFITFEGIDGAGKTTHLQWFCD   47 (227)
T ss_dssp             CCCCEEEEECCC---CHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3567899999999999999998874

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=94.58  E-value=0.028  Score=45.94  Aligned_cols=23  Identities=17%  Similarity=0.390  Sum_probs=20.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-|+|+|++|||||+|...+..
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCccCHHHHHHHHHH
Confidence            34688999999999999999874

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.57  E-value=0.021  Score=49.05  Aligned_cols=25  Identities=16%  Similarity=0.259  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      +.--|++.||||+|||+|++++.+.
T Consensus       214 ~prGvLL~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          214 PPKGVLLYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHH
Confidence            4467999999999999999998864

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=94.57  E-value=0.022  Score=46.62  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=20.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .-.|+|+|++|+||||++..+.+
T Consensus       104 ~~vi~ivG~~GsGKTTl~~~LA~  126 (306)
T 1vma_A          104 PFVIMVVGVNGTGKTTSCGKLAK  126 (306)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHH
Confidence            45689999999999999998873

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=94.55  E-value=0.019  Score=47.89  Aligned_cols=27  Identities=15%  Similarity=0.154  Sum_probs=22.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ...--+.|+|++|+|||||+..+....
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            344578999999999999999998753

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.54  E-value=0.011  Score=47.96  Aligned_cols=24  Identities=21%  Similarity=0.313  Sum_probs=17.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..+.|+|.|++||||||+.+.|..
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999999875

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.53  E-value=0.014  Score=52.17  Aligned_cols=25  Identities=24%  Similarity=0.280  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..=.++|+|++|+|||||++.+.+-
T Consensus       368 ~Ge~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          368 PGSLVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             TTCEEEEECSSSSSHHHHHHTTTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3447899999999999999988764

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.53  E-value=0.027  Score=46.35  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=19.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..|+|+|++|||||||...|..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998875

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.51  E-value=0.021  Score=51.24  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=20.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .++|+|+.|+|||||++.+.+-.
T Consensus       380 iv~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          380 ILVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             EEEEESCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            37999999999999999998744

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.43  E-value=0.024  Score=48.13  Aligned_cols=25  Identities=16%  Similarity=0.299  Sum_probs=21.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      +.--|++.||||+|||.|++++.+.
T Consensus       181 ~prGvLL~GPPGTGKTllAkAiA~e  205 (405)
T 4b4t_J          181 QPKGVILYGPPGTGKTLLARAVAHH  205 (405)
T ss_dssp             CCCCEEEESCSSSSHHHHHHHHHHH
T ss_pred             CCCceEEeCCCCCCHHHHHHHHHHh
Confidence            4457999999999999999999864

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.37  E-value=0.024  Score=46.82  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .++|.|++|+|||++++.+...
T Consensus        60 ~~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           60 HMLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4999999999999999998764

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=94.36  E-value=0.012  Score=46.96  Aligned_cols=21  Identities=19%  Similarity=0.286  Sum_probs=19.2

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|.|++|+|||+|++.+..
T Consensus        46 ~vll~G~~GtGKT~la~~la~   66 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAG   66 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            488999999999999999886

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=94.35  E-value=0.027  Score=43.04  Aligned_cols=20  Identities=30%  Similarity=0.521  Sum_probs=17.6

Q ss_pred             eEEEECCCCCCHHHHHHHHH
Q psy549           51 RVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~   70 (253)
                      -.+|+|+.|+|||||+.++.
T Consensus        25 ~~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           25 INLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHH
Confidence            45788999999999999876

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.26  E-value=0.029  Score=43.94  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..|+|.|..||||||+++.|...
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            56999999999999999998753

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=94.24  E-value=0.023  Score=47.50  Aligned_cols=24  Identities=17%  Similarity=0.275  Sum_probs=20.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .-.++|.|++|+|||+|++.+...
T Consensus        44 ~~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           44 PSNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999998853

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=94.24  E-value=0.0044  Score=48.46  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=19.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -++|+|++|+|||||++.+.+-
T Consensus        29 ~~~i~GpnGsGKSTll~~i~g~   50 (227)
T 1qhl_A           29 VTTLSGGNGAGKSTTMAAFVTA   50 (227)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            3578999999999999998863

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=94.23  E-value=0.024  Score=47.25  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -.++|.|++|+|||+|++.+...
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999998853

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=94.23  E-value=0.03  Score=52.85  Aligned_cols=25  Identities=24%  Similarity=0.393  Sum_probs=21.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF   74 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~   74 (253)
                      =.++|+|+.|+|||||++.+.++.+
T Consensus       462 e~v~LiGpNGsGKSTLLk~LagG~i  486 (986)
T 2iw3_A          462 RRYGICGPNGCGKSTLMRAIANGQV  486 (986)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHTCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc
Confidence            3679999999999999999997654

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=94.19  E-value=0.031  Score=45.74  Aligned_cols=24  Identities=17%  Similarity=0.433  Sum_probs=21.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .-.++|.|++|+|||+|+..+...
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988753

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=94.19  E-value=0.028  Score=46.96  Aligned_cols=24  Identities=17%  Similarity=0.299  Sum_probs=21.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...|+|.|++|+|||+|++.+...
T Consensus        84 ~~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           84 TSGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CCCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Confidence            346999999999999999998864

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.18  E-value=0.032  Score=46.49  Aligned_cols=23  Identities=26%  Similarity=0.452  Sum_probs=19.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..+|+|+|++|+||||+.+.+..
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHH
Confidence            35799999999999999987663

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.17  E-value=0.031  Score=42.91  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +.|+|+|.+|+||||+.+.|..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998865

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=94.16  E-value=0.033  Score=46.80  Aligned_cols=24  Identities=17%  Similarity=0.367  Sum_probs=21.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...|+|.|++|+|||++++.+...
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999998763

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=94.12  E-value=0.028  Score=48.41  Aligned_cols=23  Identities=17%  Similarity=0.404  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -.++|.|++|+|||+|++.+.+.
T Consensus       131 ~~lll~Gp~G~GKTtLa~aia~~  153 (440)
T 2z4s_A          131 NPLFIYGGVGLGKTHLLQSIGNY  153 (440)
T ss_dssp             CCEEEECSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998763

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=94.11  E-value=0.031  Score=45.76  Aligned_cols=23  Identities=22%  Similarity=0.328  Sum_probs=20.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .-|+|+|++|||||+|...|...
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHh
Confidence            35889999999999999998753

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=94.11  E-value=0.026  Score=49.07  Aligned_cols=25  Identities=28%  Similarity=0.441  Sum_probs=21.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..-+++|+|+||+|||++++.+...
T Consensus       200 ~~~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          200 TKNNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             SSCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCCCeEEECCCCCCHHHHHHHHHHH
Confidence            3457899999999999999998753

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=94.10  E-value=0.029  Score=49.14  Aligned_cols=22  Identities=23%  Similarity=0.389  Sum_probs=19.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -|+|+|++|+|||+|++.+.+.
T Consensus        66 GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999998864

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=94.08  E-value=0.029  Score=49.75  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=20.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .-.++|+|++|+|||||++.+.+
T Consensus       108 g~~vll~Gp~GtGKTtlar~ia~  130 (543)
T 3m6a_A          108 GPILCLAGPPGVGKTSLAKSIAK  130 (543)
T ss_dssp             SCEEEEESSSSSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999998875

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.07  E-value=0.033  Score=42.99  Aligned_cols=23  Identities=22%  Similarity=0.089  Sum_probs=20.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-|+|.|.+||||||+++.|..
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~   28 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAE   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHH
Confidence            46799999999999999999864

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=94.05  E-value=0.035  Score=45.77  Aligned_cols=23  Identities=22%  Similarity=0.512  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..|+|.|++|+|||+|++.+...
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            46999999999999999998654

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=94.04  E-value=0.033  Score=44.21  Aligned_cols=24  Identities=29%  Similarity=0.491  Sum_probs=21.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..|+|.|++|+|||+|++.+...-
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             CCEEEECCCCCcHHHHHHHHHHhc
Confidence            579999999999999999988643

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=94.03  E-value=0.046  Score=45.67  Aligned_cols=24  Identities=17%  Similarity=0.371  Sum_probs=21.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....|+|.|+||+|||++++.+..
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~   73 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLAR   73 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999999875

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.01  E-value=0.032  Score=47.67  Aligned_cols=25  Identities=16%  Similarity=0.327  Sum_probs=21.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..--|++.|+||+|||+|++++.+.
T Consensus       215 ~prGvLLyGPPGTGKTlLAkAiA~e  239 (437)
T 4b4t_I          215 PPKGVILYGAPGTGKTLLAKAVANQ  239 (437)
T ss_dssp             CCSEEEEESSTTTTHHHHHHHHHHH
T ss_pred             CCCCCceECCCCchHHHHHHHHHHH
Confidence            3457999999999999999999864

---

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	253
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	5e-33
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	1e-31
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	4e-31
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	5e-31
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	4e-29
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	6e-29
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	7e-29
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	1e-28
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-28
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	3e-28
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	4e-27
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	6e-27
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	7e-27
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	3e-26
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	5e-26
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	2e-25
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	4e-25
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	5e-25
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	1e-24
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	4e-24
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	5e-24
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	8e-24
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	2e-23
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	2e-23
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	2e-23
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	4e-23
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	1e-22
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	5e-22
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	1e-20
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	2e-20
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	2e-20
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	3e-20
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	6e-20
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	6e-20
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	1e-19
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	2e-19
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	7e-19
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	3e-18
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	4e-18
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	5e-18
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	6e-18
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	3e-17
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	4e-17
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	9e-17
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	6e-16
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-15
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	8e-14
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	8e-14
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-13
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	8e-13
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-12
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	2e-09
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	2e-08
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	1e-06
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	5e-06
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	1e-05
d2c78a3	204	c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N	2e-05
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	4e-05
d1d2ea3	196	c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu),	5e-05
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	8e-05
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	1e-04
d1lnza2	185	c.37.1.8 (A:158-342) Obg GTP-binding protein middl	2e-04
d1f60a3	239	c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N	2e-04
d1jnya3	224	c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N	3e-04
d1wf3a1	178	c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {	4e-04
d1xzpa2	160	c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotog	0.002
d1svia_	195	c.37.1.8 (A:) Probable GTPase EngB {Bacillus subti	0.003
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	0.003

>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 =  116 bits (290), Expect = 5e-33
 Identities = 40/165 (24%), Positives = 77/165 (46%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++++G + VGK+ ++ +F  D F S +  T+    +      DG ++ L I DT+G  +
Sbjct: 8   KLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQER 67

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F  +       A   +LVY + +  ++D +++    I       V  +++GNKC++  K 
Sbjct: 68  FRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKR 127

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYN 215
              +        D+   F+E SAK N N+   F  L    K + +
Sbjct: 128 QVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMD 172

>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 =  112 bits (281), Expect = 1e-31
 Identities = 39/161 (24%), Positives = 81/161 (50%), Gaps = 1/161 (0%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++++G + VGKS ++ +F+ D+F   +  T+    + +    +G ++ L I DT+G  +
Sbjct: 4   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQER 63

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F  +       A   +LVY + D  T+  +K   + +         +++VGNK ++E + 
Sbjct: 64  FRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRV 123

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           V  +  E +A  +    F+E SAK + N+ ++F  L    +
Sbjct: 124 VTADQGEALA-KELGIPFIESSAKNDDNVNEIFFTLAKLIQ 163

>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 =  111 bits (278), Expect = 4e-31
 Identities = 38/161 (23%), Positives = 73/161 (45%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +VV++G + VGKS+++S+F  + F    K T+           DG  +   I DT+G  +
Sbjct: 6   KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQER 65

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           +  +       A   +LVY +    T++ V+   +++ +     + I++VGNK +L    
Sbjct: 66  YRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLR 125

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
                            F+E SA ++ N+ + FK +L +  
Sbjct: 126 AVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIY 166

>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 =  111 bits (277), Expect = 5e-31
 Identities = 36/160 (22%), Positives = 75/160 (46%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++V++G A VGK+ ++ +F    F      T+      +    +G ++ L I DT+G  +
Sbjct: 7   KIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQER 66

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F ++ +    +A+A +L Y +    ++  + +   +I       V  V+VGNK +L  + 
Sbjct: 67  FRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERR 126

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
              +             ++E SAKE+ N+ ++F +L  + 
Sbjct: 127 EVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 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 =  105 bits (263), Expect = 4e-29
 Identities = 40/160 (25%), Positives = 71/160 (44%), Gaps = 2/160 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + +++G   VGKS ++ QF   +F++    T+            G ++ L I DT+G  +
Sbjct: 6   KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQER 65

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F A+       A   ++VY +   ST++ +        N       I+++GNK +LE + 
Sbjct: 66  FRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQR 125

Query: 171 VR-REIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
               E A+  A  +    F+E SAK   N+   F E   +
Sbjct: 126 DVTYEEAKQFA-EENGLLFLEASAKTGENVEDAFLEAAKK 164

>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 =  105 bits (262), Expect = 6e-29
 Identities = 43/159 (27%), Positives = 81/159 (50%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++V +G   VGK+S+I++F+YD F + Y+ T+      +    +   + L + DT+G  +
Sbjct: 2   KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQER 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F ++    I  + A V+VY + + +++       + +  +RG  V I++VGNK +L  K 
Sbjct: 62  FRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKR 121

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
                       +    F+E SAK  YN+ Q+F+ + A 
Sbjct: 122 QVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAA 160

>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 =  106 bits (264), Expect = 7e-29
 Identities = 41/161 (25%), Positives = 77/161 (47%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++++G + VGKS ++ +F  D + + Y  T+    + +    DG  + L I DT+G  +
Sbjct: 8   KLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQER 67

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F  +       +   ++VY V D  +++ VK   ++I       V  ++VGNKC+L+ K 
Sbjct: 68  FRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKR 127

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           V             +  F+E SA ++ N+   F  +  Q K
Sbjct: 128 VVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIK 168

>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 =  104 bits (261), Expect = 1e-28
 Identities = 39/159 (24%), Positives = 77/159 (48%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++++G + VGK+S + ++  D F   +  TV    + +    +  ++ L I DT+G  +
Sbjct: 7   KILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQER 66

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           +  +       A  F+L+Y + +  +++ V+D   QI         +++VGNKC++E + 
Sbjct: 67  YRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDER 126

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           V                F E SAK+N N+ Q F+ L+  
Sbjct: 127 VVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDV 165

>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 =  104 bits (259), Expect = 2e-28
 Identities = 38/159 (23%), Positives = 67/159 (42%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + +++G   VGKS ++ QF   RF   +  T+           DG Q+ L I DT+G   
Sbjct: 5   KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQES 64

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F ++       A   +LVY +    T++ +    E         + I+++GNK +LE + 
Sbjct: 65  FRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR 124

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
             +         +    F+E SAK   N+ + F     +
Sbjct: 125 DVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKE 163

>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 =  103 bits (258), Expect = 3e-28
 Identities = 33/161 (20%), Positives = 67/161 (41%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + +V+G A  GKS ++ QF+  +F      T+      +     G  + L I DT+G  +
Sbjct: 7   KFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQER 66

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F ++       A   +LVY +    T++ + +            + I++ GNK +L+   
Sbjct: 67  FRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADR 126

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
               +  +    + +  F+E SA    N+ + F +   +  
Sbjct: 127 EVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKIL 167

>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 =  100 bits (250), Expect = 4e-27
 Identities = 50/162 (30%), Positives = 90/162 (55%), Gaps = 2/162 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +V+++G   VGKS++  QF+YD F+  Y+ T  + +R +    DG ++ +DILDT+G   
Sbjct: 6   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQED 64

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKCELEFK 169
           + A+R+    + + F+ V+++ +  ++    D REQI+  +    VP ++VGNK +LE K
Sbjct: 65  YAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDK 124

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
                         W   +VE SAK   N+ +VF +L+ + +
Sbjct: 125 RQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIR 166

>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 =  100 bits (249), Expect = 6e-27
 Identities = 41/163 (25%), Positives = 84/163 (51%), Gaps = 3/163 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFIS-RYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
           +V+++G + VGK+ ++ +F    F++  +  TV    R +    DG ++ L + DT+G  
Sbjct: 8   KVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQE 67

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK 169
           +F ++       A A +L+Y V + +++D ++    +I       V ++++GNK +   +
Sbjct: 68  RFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHE 127

Query: 170 D-VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
             V+RE  E +A  ++   F+E SAK   N+   F  +  + K
Sbjct: 128 RVVKREDGEKLA-KEYGLPFMETSAKTGLNVDLAFTAIAKELK 169

>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 =  100 bits (249), Expect = 7e-27
 Identities = 39/164 (23%), Positives = 87/164 (53%), Gaps = 4/164 (2%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +V+++G   VGKSS++++++ ++F ++   T+      +    DG  +T+ I DT+G  +
Sbjct: 8   KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQER 67

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVN----KRGLMVPIVVVGNKCEL 166
           F ++R      +D  +L ++VDD+ ++  + + +++ +     K     P V++GNK ++
Sbjct: 68  FRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDI 127

Query: 167 EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
             + V  E A+     +    + E SAK+  N+   F+E + + 
Sbjct: 128 SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 171

>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 = 98.5 bits (244), Expect = 3e-26
 Identities = 57/160 (35%), Positives = 94/160 (58%), Gaps = 2/160 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +VVV+G   VGKS++  QF+   FI +Y  T+E+ +R E E  D +   L+ILDT+G  Q
Sbjct: 5   KVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIE-VDSSPSVLEILDTAGTEQ 63

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKCELEFK 169
           F +MR+L I     F+LVY++ +  ++  +K +R+QI+  +    VP+++VGNK +LE +
Sbjct: 64  FASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESE 123

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
                        +W C F+E SAK    + ++F E++ Q
Sbjct: 124 REVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQ 163

>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 = 5e-26
 Identities = 40/160 (25%), Positives = 73/160 (45%), Gaps = 2/160 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++++G + VGKSS++ +F  D F      T+    + +    DG +  L I DT+G  +
Sbjct: 9   KILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQER 68

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI-VVVGNKCELEFK 169
           F  +       A   +LVY V    T+  + +   ++         + ++VGNK + E +
Sbjct: 69  FRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENR 128

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +V R      A       F+E SAK    +   F+EL+ +
Sbjct: 129 EVDRNEGLKFA-RKHSMLFIEASAKTCDGVQCAFEELVEK 167

>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 = 96.6 bits (239), Expect = 2e-25
 Identities = 37/159 (23%), Positives = 77/159 (48%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +VV++G   VGK+S++ ++  ++F  ++  T+      +     G ++ L I DT+G  +
Sbjct: 5   KVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQER 64

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F A+  +    ++  +LVY + D  ++  VK+  +++    G  + + +VGNK +LE + 
Sbjct: 65  FHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKER 124

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
                                SAK+N  I ++F +L  +
Sbjct: 125 HVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKR 163

>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 = 95.9 bits (237), Expect = 4e-25
 Identities = 53/164 (32%), Positives = 87/164 (53%), Gaps = 2/164 (1%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
             ++VV+GG  VGKS++  QF+   F+S Y  T+E+ +       DG    LDILDT+G 
Sbjct: 6   THKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICS-VDGIPARLDILDTAGQ 64

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKCELE 167
            +F AMRE  +     F+LV+A++D  +++ V  L  QI+  +     P+V+VGNK +LE
Sbjct: 65  EEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLE 124

Query: 168 FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
            +        +         + E SAK   N+ + F++L+   +
Sbjct: 125 SQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVR 168

>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 = 95.7 bits (237), Expect = 5e-25
 Identities = 31/172 (18%), Positives = 71/172 (41%), Gaps = 11/172 (6%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGE----------YELPDGAQLTL 100
           +++ +G + VGK++ + ++  ++F  ++  TV    R +                 ++ L
Sbjct: 7   KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHL 66

Query: 101 DILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVV 159
            + DT+G  +F ++       A  F+L++ +    ++  V++   Q+          IV+
Sbjct: 67  QLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVL 126

Query: 160 VGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +GNK +L  +    E         +   + E SA    N+ +  + LL    
Sbjct: 127 IGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIM 178

>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 = 95.1 bits (235), Expect = 1e-24
 Identities = 43/173 (24%), Positives = 74/173 (42%), Gaps = 14/173 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + VV+G   VGK+ ++  +  ++F S Y  TV + +        G   TL + DT+G   
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQED 63

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           +  +R LS    D F++ ++V   S+++ VK+     +       P ++VG + +L    
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123

Query: 171 V-------------RREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
                           E AE +A       +VECSA     +  VF E +  A
Sbjct: 124 STIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA 176

>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 = 92.7 bits (229), Expect = 4e-24
 Identities = 49/162 (30%), Positives = 91/162 (56%), Gaps = 3/162 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G   VGKS++  Q + + F+  Y  T+E+ +R +  +       LDILDT+G  +
Sbjct: 5   KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETC-LLDILDTAGQEE 63

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKCELEFK 169
           + AMR+  + T + F+ V+A+++  +++ +   REQI   +    VP+V+VGNKC+L  +
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAAR 123

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
            V    A+ +A   +   ++E SAK    +   F  L+ + +
Sbjct: 124 TVESRQAQDLA-RSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 92.7 bits (229), Expect = 5e-24
 Identities = 63/179 (35%), Positives = 94/179 (52%), Gaps = 13/179 (7%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           RV V G   VGKSS++ +F+   F   Y  TVE+ +R                DT+G++Q
Sbjct: 4   RVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQIT-DTTGSHQ 62

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM--VPIVVVGNKCELEF 168
           FPAM+ LSIS   AF+LVY++    + + +K + EQI   +G +  +PI++VGNKC+   
Sbjct: 63  FPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESP 122

Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPAVRRRRQSL 227
               +          W+C F+E SAK N+N+ ++F+ELL   K          RR  SL
Sbjct: 123 SREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEK----------RRTVSL 171

>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 = 92.8 bits (229), Expect = 8e-24
 Identities = 37/173 (21%), Positives = 69/173 (39%), Gaps = 14/173 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + VV+G   VGK+ ++  +  + F   Y  TV + +       DG  + L + DT+G   
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQED 65

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           +  +R LS    D  ++ +++   ++++ V+      V       PI++VG K +L    
Sbjct: 66  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 125

Query: 171 VRRE-------------IAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
              E                 +A       ++ECSA     +  VF E +   
Sbjct: 126 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 178

>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 = 91.2 bits (225), Expect = 2e-23
 Identities = 39/161 (24%), Positives = 68/161 (42%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +V ++G   VGKSSI+ +F+ D F      T+      +            I DT+G  +
Sbjct: 6   KVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLER 65

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F A+  +    + A ++VY +    T+  +K+   ++       + + + GNKC+L    
Sbjct: 66  FRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVR 125

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
              E             FVE SAK   NI ++F E+  +  
Sbjct: 126 EVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 166

>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 = 91.7 bits (226), Expect = 2e-23
 Identities = 45/167 (26%), Positives = 81/167 (48%), Gaps = 4/167 (2%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +V+++G + VGK+S+++Q++  +F ++YK T+      +  + D   +T+ I DT+G  +
Sbjct: 4   KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQER 63

Query: 111 FPAMRELSISTADAFVLVYAVDD----ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL 166
           F ++       AD  VLV+ V       +      +   Q   +     P VV+GNK +L
Sbjct: 64  FQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDL 123

Query: 167 EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           E + V  + A+          + E SAKE  N+ Q F+ +   A  Q
Sbjct: 124 ENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQ 170

>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 = 91.3 bits (225), Expect = 2e-23
 Identities = 37/162 (22%), Positives = 76/162 (46%), Gaps = 3/162 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++V++G A VGKSSI+ +F+ + F    + T+      +    +   +  +I DT+G  +
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F ++  +    A A ++VY V    ++   +   +++  +    + I +VGNK ++  + 
Sbjct: 65  FASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEG 124

Query: 171 VRREIAETIALY---DWQCGFVECSAKENYNIVQVFKELLAQ 209
             R++A         +    F E SAK   N+  VF  +  +
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEK 166

>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 = 90.5 bits (223), Expect = 4e-23
 Identities = 34/159 (21%), Positives = 76/159 (47%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++V++G + VGKSS++ +F+  +F    + T+      +    D   +  +I DT+G  +
Sbjct: 8   KLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQER 67

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           + ++  +    A A ++VY + +  ++   K+  +++  +    + I + GNK +L  K 
Sbjct: 68  YHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKR 127

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
                       D    F+E SAK + N+ ++F  +  +
Sbjct: 128 AVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKK 166

>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 = 89.3 bits (220), Expect = 1e-22
 Identities = 51/167 (30%), Positives = 93/167 (55%), Gaps = 2/167 (1%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
            ++K R+VV+GG  VGKS++  QF+   F++ Y  T+E+ +  +  + D A    DILDT
Sbjct: 2   MQEKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRAARL-DILDT 60

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKC 164
           +G  +F AMRE  + T + F+LV++V D  +++ +   + QI+  +     P++++GNK 
Sbjct: 61  AGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKA 120

Query: 165 ELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +L+ +    +          +  ++E SAK   N+ Q F EL+   +
Sbjct: 121 DLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIR 167

>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 = 87.4 bits (215), Expect = 5e-22
 Identities = 62/161 (38%), Positives = 101/161 (62%), Gaps = 3/161 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G   VGKS++  QF+   F+ +Y  T+E+ +R + E+    Q  L+ILDT+G  Q
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQ-QCMLEILDTAGTEQ 63

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKCELEFK 169
           F AMR+L +     F LVY++   ST++ ++DLREQI+  +    VP+++VGNKC+LE +
Sbjct: 64  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDE 123

Query: 170 DVR-REIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
            V  +E  + +A     C F+E SAK   N+ ++F +L+ Q
Sbjct: 124 RVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQ 164

>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 = 84.3 bits (207), Expect = 1e-20
 Identities = 43/181 (23%), Positives = 79/181 (43%), Gaps = 19/181 (10%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           + VV+G   VGK+ ++  +  D F   Y  TV + +        G Q  L + DT+G   
Sbjct: 11  KCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYA-VSVTVGGKQYLLGLYDTAGQED 69

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL---- 166
           +  +R LS    D F++ ++V + +++  VK+     + +    VP +++G + +L    
Sbjct: 70  YDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDP 129

Query: 167 ---------EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLS 217
                    + K +  E  + +A     C +VECSA     +  VF E +        L+
Sbjct: 130 KTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAI-----LT 184

Query: 218 P 218
           P
Sbjct: 185 P 185

>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 = 83.5 bits (205), Expect = 2e-20
 Identities = 44/175 (25%), Positives = 80/175 (45%), Gaps = 14/175 (8%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           ++++V++G    GK+ ++     D+F   Y  TV E +  + E  DG Q+ L + DT+G 
Sbjct: 2   RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIE-VDGKQVELALWDTAGL 60

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF 168
             +  +R LS    D  ++ +++D   + + + +     V      VPI++VGNK +L  
Sbjct: 61  EDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRN 120

Query: 169 KDVRR-------------EIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
            +  R             E    +A      G++ECSAK    + +VF+     A
Sbjct: 121 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAA 175

>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 = 83.2 bits (204), Expect = 2e-20
 Identities = 42/178 (23%), Positives = 79/178 (44%), Gaps = 14/178 (7%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           K ++VV+G ++ GK++++  F  D F   Y  TV E +   +E  D  ++ L + DTSG+
Sbjct: 2   KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFE-IDTQRIELSLWDTSGS 60

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF 168
             +  +R LS   +DA ++ + +    T D V    +  + +      +++VG K +L  
Sbjct: 61  PYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT 120

Query: 169 -------------KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
                          V  +    +A       ++ECSA ++ N V+    +   A V 
Sbjct: 121 DVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN 178

>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 = 82.4 bits (202), Expect = 3e-20
 Identities = 40/162 (24%), Positives = 76/162 (46%), Gaps = 7/162 (4%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++V+G + VGK+ +  +F   RF  R + T+    R      DG ++ + + DT+G  +
Sbjct: 4   KIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQER 63

Query: 111 F-PAMRELSISTADAFVLVYAVDDAST-WDVVKDLREQIVNKRGLMVPIVVVGNKCEL-E 167
           F  +M +       A V VY + + ++   +   + E   +     +P ++VGNKC+L  
Sbjct: 64  FRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRS 123

Query: 168 FKDVRREIAETIALYDWQCGFVECSAK---ENYNIVQVFKEL 206
              V  ++A+  A         E SAK   +N ++  +F  L
Sbjct: 124 AIQVPTDLAQKFA-DTHSMPLFETSAKNPNDNDHVEAIFMTL 164

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 82.0 bits (201), Expect = 6e-20
 Identities = 41/167 (24%), Positives = 76/167 (45%), Gaps = 7/167 (4%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQL-TLDILDTSGAY 109
           +V+++G + VGK+S++ +++ D++  +YK T+      +    DG ++ T+ + DT+G  
Sbjct: 4   KVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQE 63

Query: 110 QFPAMRELSISTADAFVLVYAVDDAST----WDVVKDLREQIVNKRGLMVPIVVVGNKCE 165
           +F ++       AD  VLVY V +AS+         +             P V++GNK +
Sbjct: 64  RFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKID 123

Query: 166 LEFKDVRRE--IAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
            E          A+ +A           SAK   N+   F+E+   A
Sbjct: 124 AEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSA 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 = 82.0 bits (201), Expect = 6e-20
 Identities = 47/165 (28%), Positives = 84/165 (50%), Gaps = 3/165 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G   VGKS++  QF    F+  Y  T+E+    ++   D     LD+LDT+G  +
Sbjct: 6   KLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIED-SYLKHTEIDNQWAILDVLDTAGQEE 64

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVPIVVVGNKCELEFK 169
           F AMRE  + T D F++VY+V D ++++ V    + I+  +     P+++V NK +L   
Sbjct: 65  FSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHL 124

Query: 170 DVRREIAETIALYDWQCGFVECSAKE-NYNIVQVFKELLAQAKVQ 213
                         +   ++E SAK+   N+ + F +L+   + Q
Sbjct: 125 RKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 169

>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 = 80.9 bits (198), Expect = 1e-19
 Identities = 35/168 (20%), Positives = 73/168 (43%), Gaps = 3/168 (1%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           + ++V++G    GK++ + + L   F  +Y  T+           +   +  ++ DT+G 
Sbjct: 3   QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 62

Query: 109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF 168
            +F  +R+     A   ++++ V    T+  V +    +V      +PIV+ GNK +++ 
Sbjct: 63  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV-CENIPIVLCGNKVDIKD 121

Query: 169 KDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNL 216
           + V+ +             + + SAK NYN  + F  L  +     NL
Sbjct: 122 RKVKAKSIVFHR--KKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 167

>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 = 80.5 bits (197), Expect = 2e-19
 Identities = 44/160 (27%), Positives = 79/160 (49%), Gaps = 1/160 (0%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++VV+G   VGKSS+I ++    F   YK+T+           +   + L + DT+G  +
Sbjct: 4   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEE 63

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F A+ +     A A VLV++  D  +++ +   RE++V + G +   +V      L+   
Sbjct: 64  FDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDSC 123

Query: 171 VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
           ++ E AE +A    +  F   S KE+ N+ +VFK L  + 
Sbjct: 124 IKNEEAEGLA-KRLKLRFYRTSVKEDLNVSEVFKYLAEKH 162

>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 = 79.0 bits (193), Expect = 7e-19
 Identities = 46/167 (27%), Positives = 88/167 (52%), Gaps = 2/167 (1%)

Query: 46  QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDT 105
           Q   R++ ++G   VGKSS+  QF+  +F+  Y  T+E          +G +  L ++DT
Sbjct: 1   QSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLIT-VNGQEYHLQLVDT 59

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKC 164
           +G  ++    +      + ++LVY+V    +++V+K +  ++++  G + +PI++VGNK 
Sbjct: 60  AGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKK 119

Query: 165 ELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
           +L  + V            W   F+E SAKEN   V VF+ ++ +A+
Sbjct: 120 DLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAE 166

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 77.4 bits (189), Expect = 3e-18
 Identities = 47/175 (26%), Positives = 76/175 (43%), Gaps = 12/175 (6%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           ++ + G A VGKS+++ +FL  RFI  Y  T+E  +R +    D   ++++ILDT+G   
Sbjct: 4   KLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQAT-IDDEVVSMEILDTAGQED 62

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
                          ++    D  S  +V+         K+   V +++VGNK +L+   
Sbjct: 63  TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSR 122

Query: 171 VRREIAETIALYDWQCGFVECSAKENY-NIVQVFKELLAQAKVQYNLSPAVRRRR 224
                       +  C F ECSA     NI ++F EL  +          VRRRR
Sbjct: 123 QVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCRE----------VRRRR 167

>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 = 77.4 bits (189), Expect = 4e-18
 Identities = 24/172 (13%), Positives = 62/172 (36%), Gaps = 9/172 (5%)

Query: 45  LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILD 104
               + +V+++G    GK++I+ QF  +  +               E          + D
Sbjct: 11  FNHQEHKVIIVGLDNAGKTTILYQFSMNEVV-----HTSPTIGSNVEEIVINNTRFLMWD 65

Query: 105 TSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLR-EQIVNKRGLMVPIVVVGNK 163
             G     +      +  +  ++V    D     V ++   + + ++      +++  NK
Sbjct: 66  IGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANK 125

Query: 164 CELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQVFKELLAQAKV 212
            +++      EI++ + L    D Q     C A     + Q  + ++++ K+
Sbjct: 126 QDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKI 177

>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 = 76.9 bits (188), Expect = 5e-18
 Identities = 24/169 (14%), Positives = 57/169 (33%), Gaps = 9/169 (5%)

Query: 47  KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTS 106
             + R++++G    GK++I+ +    + ++        +    Y+      +  ++ D  
Sbjct: 10  NKEMRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVETVTYK-----NVKFNVWDVG 64

Query: 107 GAYQFPAMRELSISTADAFVLVYAVDD-ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE 165
           G  +   +     +     + V    D     +  ++L   I ++      I++  NK +
Sbjct: 65  GQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQD 124

Query: 166 LEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQVFKELLAQAK 211
           L       EI E + L    D         A     + +    L +  K
Sbjct: 125 LPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 173

>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 = 76.7 bits (187), Expect = 6e-18
 Identities = 32/168 (19%), Positives = 64/168 (38%), Gaps = 3/168 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
           RVV++G   VGKS++ + F      +    E + E       + DG   T+ +LD     
Sbjct: 5   RVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENK 64

Query: 110 QFPAMRELSISTADAFVLVYAVDDAST--WDVVKDLREQIVNKRGLMVPIVVVGNKCELE 167
                            L+              +   +    ++   +PI++VGNK +L 
Sbjct: 65  GENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLV 124

Query: 168 FKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYN 215
                           + C F+E SA   +N+ ++F+ ++ Q +++ +
Sbjct: 125 RCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRD 172

>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 = 75.0 bits (183), Expect = 3e-17
 Identities = 29/163 (17%), Positives = 56/163 (34%), Gaps = 7/163 (4%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           R+ V+G AR GKSS+I +FL   +    K   E+  +          + +     +   +
Sbjct: 7   RLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQYKKEMLVDGQTHLVLIREEAGAPDAK 66

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
           F    +  I              +     +  LR +          + +VG +  +    
Sbjct: 67  FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGL----ALALVGTQDRISASS 122

Query: 171 VR---REIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQA 210
            R      A  +     +C + E  A    N+ +VF+E+  + 
Sbjct: 123 PRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKV 165

>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 = 74.0 bits (180), Expect = 4e-17
 Identities = 29/164 (17%), Positives = 56/164 (34%), Gaps = 6/164 (3%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
            + ++G    GK++ ++     +F      TV    R   +     +L            
Sbjct: 4   ELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKITKGNVTIKLWDIGGQP---RF 60

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD 170
                      +    +V A D         +L   +   +   +P++V+GNK +L    
Sbjct: 61  RSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL 120

Query: 171 VRREIAETIALY---DWQCGFVECSAKENYNIVQVFKELLAQAK 211
             +E+ E + L    D +      S KE  NI    + L+  +K
Sbjct: 121 DEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSK 164

>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 = 73.1 bits (178), Expect = 9e-17
 Identities = 22/163 (13%), Positives = 56/163 (34%), Gaps = 9/163 (5%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           R++++G    GK++I+ +      ++        +   EY+      ++  + D  G  +
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYK-----NISFTVWDVGGQDK 56

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL-MVPIVVVGNKCELEFK 169
              +           + V   +D    +  ++   +++ +  L    ++V  NK +L   
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 116

Query: 170 DVRREIAETIALY---DWQCGFVECSAKENYNIVQVFKELLAQ 209
               EI + + L+             A     + +    L  Q
Sbjct: 117 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQ 159

>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 = 71.5 bits (174), Expect = 6e-16
 Identities = 27/174 (15%), Positives = 58/174 (33%), Gaps = 9/174 (5%)

Query: 42  GVGLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLD 101
            +     + R++++G    GK++I+ +      ++        +    Y+      L L+
Sbjct: 10  KLWGSNKELRILILGLDGAGKTTILYRLQIGEVVTTKPTIGFNVETLSYK-----NLKLN 64

Query: 102 ILDTSGAYQFPAMRELSISTADAFVLVYAVDDAST-WDVVKDLREQIVNKRGLMVPIVVV 160
           + D  G            +   A + V    D        K+L   +  +      ++V 
Sbjct: 65  VWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVF 124

Query: 161 GNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQVFKELLAQAK 211
            NK +        E+++ + L    D     V  SA +   I +    L+   K
Sbjct: 125 ANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIK 178

>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 = 70.4 bits (171), Expect = 1e-15
 Identities = 26/167 (15%), Positives = 57/167 (34%), Gaps = 9/167 (5%)

Query: 47  KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTS 106
             + R++++G    GK++++ Q   +            +   + +        L++ D  
Sbjct: 14  DQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIKSVQSQ-----GFKLNVWDIG 68

Query: 107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCE 165
           G  +            D  + V    D   ++       +++ +  L  VP+++  NK +
Sbjct: 69  GQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQD 128

Query: 166 LEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQVFKELLAQ 209
           L       EIAE + L+   D       CSA     +      +   
Sbjct: 129 LLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKN 175

>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 = 65.9 bits (159), Expect = 8e-14
 Identities = 30/181 (16%), Positives = 55/181 (30%), Gaps = 19/181 (10%)

Query: 44  GLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDIL 103
           GL K   ++V +G    GK++++     DR      + V  LH    EL           
Sbjct: 8   GLYKKTGKLVFLGLDNAGKTTLLHMLKDDRLG----QHVPTLHPTSEELTIAGMTFTTFD 63

Query: 104 DTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNK 163
                      +    +      LV   D     +  ++L   + ++    VPI+++GNK
Sbjct: 64  LGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNK 123

Query: 164 CELEFKDVRREIAETIALY---------------DWQCGFVECSAKENYNIVQVFKELLA 208
            +         + E   LY                       CS  +     + F+ +  
Sbjct: 124 IDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQ 183

Query: 209 Q 209
            
Sbjct: 184 Y 184

>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 = 65.5 bits (158), Expect = 8e-14
 Identities = 39/166 (23%), Positives = 76/166 (45%), Gaps = 3/166 (1%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +V+++G   VGKS++   F          E     +       DG + +L + D      
Sbjct: 3   KVLLLGAPGVGKSALARIFGGVED-GPEAEAAGHTYDRSIV-VDGEEASLMVYDIWEQDG 60

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELEFK 169
              +    ++  DA+V+VY+V D  +++   +LR Q+   R    VPI++VGNK +L   
Sbjct: 61  GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRS 120

Query: 170 DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYN 215
                         + C F+E SA  ++N+  +F+ ++ Q +++ +
Sbjct: 121 REVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRD 166

>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 = 63.6 bits (153), Expect = 3e-13
 Identities = 29/165 (17%), Positives = 57/165 (34%), Gaps = 9/165 (5%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           R++++G    GK++I+ +      +     T         E      L   + D  G   
Sbjct: 7   RILILGLDGAGKTTILYRLQVGEVV-----TTIPTIGFNVETVTYKNLKFQVWDLGGLTS 61

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVV-KDLREQIVNKRGLMVPIVVVGNKCELEFK 169
                    S  DA + V    D     +   +L   +  +      +VV  NK ++E  
Sbjct: 62  IRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQA 121

Query: 170 DVRREIAETIA---LYDWQCGFVECSAKENYNIVQVFKELLAQAK 211
               E+A ++    L D +    + SA +   + +  + L+   K
Sbjct: 122 MTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLK 166

>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 = 62.4 bits (150), Expect = 8e-13
 Identities = 28/170 (16%), Positives = 56/170 (32%), Gaps = 17/170 (10%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++ +G    GK++++     DR       T++       E      +     D  G  Q
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRL-----ATLQPTWHPTSEELAIGNIKFTTFDLGGHIQ 56

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNKCELEFK 169
              + +      +  V +    D   +D  +   + + N   L  VP V++GNK +    
Sbjct: 57  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA 116

Query: 170 DVRREIAETIALY----------DWQCGFVECSAKENYNIVQVFKELLAQ 209
               E+   + L                   CS       ++ F + L+Q
Sbjct: 117 VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAF-QWLSQ 165

>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 = 62.0 bits (149), Expect = 1e-12
 Identities = 29/165 (17%), Positives = 60/165 (36%), Gaps = 9/165 (5%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           R++++G    GK++I+ +F  +       +T+        +  +     L+I D  G   
Sbjct: 4   RLLMLGLDNAGKTTILKKFNGEDV-----DTISPTLGFNIKTLEHRGFKLNIWDVGGQKS 58

Query: 111 FPAMRELSISTADAFVLVYAVDDASTW-DVVKDLREQIVNKRGLMVPIVVVGNKCELEFK 169
             +       + D  + V    D     D  ++L+  +V +R     +++  NK +L   
Sbjct: 59  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 118

Query: 170 DVRREIAETIALYDWQ---CGFVECSAKENYNIVQVFKELLAQAK 211
                I E + L   +        CSA    +++     LL    
Sbjct: 119 LSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDIS 163

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 53.5 bits (127), Expect = 2e-09
 Identities = 22/171 (12%), Positives = 52/171 (30%), Gaps = 3/171 (1%)

Query: 50  RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
           R V+ +G    GK+ +  + L  ++        +     +     G  LTL  L    + 
Sbjct: 1   RAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESL 60

Query: 110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL---MVPIVVVGNKCEL 166
           +F  +     S      +V +         V +   Q++           +++  NK ++
Sbjct: 61  RFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDI 120

Query: 167 EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLS 217
                 + I + +            +A    +        L +   ++  S
Sbjct: 121 AMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFS 171

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 50.8 bits (120), Expect = 2e-08
 Identities = 27/183 (14%), Positives = 54/183 (29%), Gaps = 19/183 (10%)

Query: 49  KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGA 108
           +  +++ G    GK+S+++    D      + TV           DG+ +TL        
Sbjct: 3   QPSIIIAGPQNSGKTSLLTLLTTDSV----RPTVVSQEPLSAADYDGSGVTLVDFPGHVK 58

Query: 109 YQFPAMREL---SISTADAFVLVYAVDDASTWDVVKDLREQIV----NKRGLMVPIVVVG 161
            ++     L   +        +V +  D        +    I+    +     + I++  
Sbjct: 59  LRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIAC 118

Query: 162 NKCELEFKD--------VRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQAKVQ 213
           NK EL            +  EI + I         VE    E          L +    +
Sbjct: 119 NKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTLDVLQSTDGFK 178

Query: 214 YNL 216
           +  
Sbjct: 179 FAN 181

>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 = 45.7 bits (107), Expect = 1e-06
 Identities = 23/191 (12%), Positives = 43/191 (22%), Gaps = 46/191 (24%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
           +++++G    GKS+I+ Q                  +  +           + D  G   
Sbjct: 4   KLLLLGAGESGKSTIVKQMKIIHEAGTGIVETHFTFKDLHF---------KMFDVGGQRS 54

Query: 111 FPAMRELSISTADAFVLVYAVDDASTWDVVK-----------DLREQIVNKRGLMVPIVV 159
                        A +   A+ D                          NK      I++
Sbjct: 55  ERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIIL 114

Query: 160 VGN-KCELEFKDVRREIA----ETIALYDWQCG---------------------FVECSA 193
             N K   E K  +  +     E      ++                            A
Sbjct: 115 FLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCA 174

Query: 194 KENYNIVQVFK 204
            +  N+  VF 
Sbjct: 175 TDTKNVQFVFD 185

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 44.0 bits (103), Expect = 5e-06
 Identities = 22/166 (13%), Positives = 49/166 (29%), Gaps = 20/166 (12%)

Query: 45  LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILD 104
           + +   R++++G    GKS+I+ Q      +        +            ++   + D
Sbjct: 2   VYRATHRLLLLGAGESGKSTIVKQMRILHVVLTSGIFETKF--------QVDKVNFHMFD 53

Query: 105 TSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKD----------LREQIVNKRGLM 154
             G            +   A + V A    +      +          L + I N R L 
Sbjct: 54  VGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLR 113

Query: 155 -VPIVVVGNKCEL-EFKDVRREIAETIALYDWQCGFVECSAKENYN 198
            + +++  NK +L   K +  +        ++        A     
Sbjct: 114 TISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPG 159

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.0 bits (100), Expect = 1e-05
 Identities = 26/187 (13%), Positives = 51/187 (27%), Gaps = 31/187 (16%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRF-----ISRYKETVEELHRGEYELPDGAQLTLDILDT 105
           +++++G    GKS+ I Q               +   +        +  G Q +      
Sbjct: 4   KLLLLGTGESGKSTFIKQMRIIHGSGVPTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWI 63

Query: 106 SGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGN-KC 164
                  ++  L   +    VLV + ++    +     R  I         +++  N K 
Sbjct: 64  HCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKD 123

Query: 165 ELEFKDVRREIAETIALY-------------------------DWQCGFVECSAKENYNI 199
            LE K +   + +    Y                         D         A +  NI
Sbjct: 124 LLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENI 183

Query: 200 VQVFKEL 206
             VF  +
Sbjct: 184 RFVFAAV 190

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 204

class: 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]

 Score = 42.3 bits (99), Expect = 2e-05
 Identities = 35/181 (19%), Positives = 59/181 (32%), Gaps = 34/181 (18%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETV----------EELHRG--------EYELP 93
           V  +G    GK+++ +   Y          V          EE  RG        EYE  
Sbjct: 6   VGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETA 65

Query: 94  DGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL 153
                    +D  G   +        +  D  +LV +  D      +   RE I+  R +
Sbjct: 66  KR---HYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADG----PMPQTREHILLARQV 118

Query: 154 MVP-IVVVGNKCELE-----FKDVRREIAETIALYDW---QCGFVECSAKENYNIVQVFK 204
            VP IVV  NK ++         V  E+ + +  Y++   +   +  SA      +    
Sbjct: 119 GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLALEQMHRNP 178

Query: 205 E 205
           +
Sbjct: 179 K 179

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.0 bits (95), Expect = 4e-05
 Identities = 28/164 (17%), Positives = 56/164 (34%), Gaps = 14/164 (8%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVE------ELHRGEYELPDGAQLTLDILD 104
           +++++G    GKS+ + Q    R I     T        E+    +++ D      +   
Sbjct: 4   KILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHEYDFEIKNVPFKMVDVGGQRSERKR 60

Query: 105 TSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLM-VPIVVVGNK 163
               +         +S+++   ++      +      ++ E IVN R    V I++  NK
Sbjct: 61  WFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNK 120

Query: 164 C-ELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
              LE K     I +         G   C       +V+ F+  
Sbjct: 121 TDLLEEKVQVVSIKDYFL---EFEGDPHCLRDVQKFLVECFRGK 161

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]} Length = 196

class: 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]

 Score = 40.8 bits (95), Expect = 5e-05
 Identities = 28/170 (16%), Positives = 48/170 (28%), Gaps = 27/170 (15%)

Query: 52  VVVMGGARVGKSSIISQFLY---------DRFISRYKETVEELHRG-----EYELPDGAQ 97
           V  +G    GK+++ +              +         EE  RG      +     A 
Sbjct: 6   VGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAA 65

Query: 98  LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMV-P 156
                 D  G   +        +  D  +LV A +D      +   RE ++  R + V  
Sbjct: 66  RHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDG----PMPQTREHLLLARQIGVEH 121

Query: 157 IVVVGNKCELEFKDVR--------REIAETIALYDWQCGFVECSAKENYN 198
           +VV  NK +               RE+         +   +  SA     
Sbjct: 122 VVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCALE 171

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]} Length = 188

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

 Score = 40.2 bits (92), Expect = 8e-05
 Identities = 17/169 (10%), Positives = 50/169 (29%), Gaps = 10/169 (5%)

Query: 48  DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSG 107
               V   G +  GKSS ++     + ++R  +T               +  +D+     
Sbjct: 15  TGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGY 74

Query: 108 AYQFPAMREL----------SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPI 157
           A     M+               +    V++  +         + +   + +   ++V +
Sbjct: 75  AEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVLL 134

Query: 158 VVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL 206
                      K     + E +  ++        S+ +   + ++ ++L
Sbjct: 135 TKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKL 183

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 39.7 bits (91), Expect = 1e-04
 Identities = 28/174 (16%), Positives = 54/174 (31%), Gaps = 14/174 (8%)

Query: 47  KDKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPD---------G 95
            D  +V ++G   VGKS++ +  L      +S    T  +    E  +           G
Sbjct: 6   TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAG 65

Query: 96  AQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMV 155
            +    +   +           SI  AD  V+V       T    +         R  +V
Sbjct: 66  LRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVV 125

Query: 156 PIVVV--GNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL 207
                      E  + +  +   E +   D+    +  SA + +NI ++   + 
Sbjct: 126 VFNKWDLVVHREKRYDEFTKLFREKLYFIDY-SPLIFTSADKGWNIDRMIDAMN 178

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 39.1 bits (90), Expect = 2e-04
 Identities = 22/170 (12%), Positives = 51/170 (30%), Gaps = 13/170 (7%)

Query: 51  RVVVMGGARVGKSSIISQFL-YDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY 109
            V ++G   VGKS+++S        I+ Y  T    + G  E  DG      + D  G  
Sbjct: 3   DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGRSFV--MADLPGLI 60

Query: 110 Q-FPAMRELSISTADA---------FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVV 159
           +       L                 + +  ++    +D    + +++      +     
Sbjct: 61  EGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQ 120

Query: 160 VGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           +    +++  +    +                SA     + ++  E+  Q
Sbjct: 121 IIVANKMDMPEAAENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQ 170

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 239

class: 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]

 Score = 39.2 bits (91), Expect = 2e-04
 Identities = 37/192 (19%), Positives = 65/192 (33%), Gaps = 42/192 (21%)

Query: 52  VVVMGGARVGKSSIISQFLYD------RFISRYKETVEELHRGE---YELPDGAQLTLD- 101
           VVV+G    GKS+     +Y       R I ++++   EL +G      + D  +   + 
Sbjct: 9   VVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERER 68

Query: 102 -------------------ILDTSGAYQFPAMRELSISTADAFVLVYAVDDA---STWDV 139
                              ++D  G   F        S AD  +L+ A       +    
Sbjct: 69  GITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISK 128

Query: 140 VKDLREQIVNKRGLMVP-IVVVGNKC------ELEFKDVRREIAETIALYDW---QCGFV 189
               RE  +    L V  ++V  NK       E  F+++ +E +  I    +      FV
Sbjct: 129 DGQTREHALLAFTLGVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFV 188

Query: 190 ECSAKENYNIVQ 201
             S     N+++
Sbjct: 189 PISGWNGDNMIE 200

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Length = 224

class: 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]

 Score = 38.7 bits (89), Expect = 3e-04
 Identities = 35/194 (18%), Positives = 63/194 (32%), Gaps = 44/194 (22%)

Query: 51  RVVVMGGARVGKSSIISQFLYD------------------------RFISRYKETVEELH 86
            ++V+G    GKS+++ + L D                        +F        EE  
Sbjct: 5   NLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERE 64

Query: 87  RGEYELPDGAQLTLD-----ILDTSGAYQFPAMRELSISTADAFVLVYAVDD---ASTWD 138
           RG        +         I+D  G   F        S ADA +LV +       +   
Sbjct: 65  RGVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMS 124

Query: 139 VVKDLREQIVNKRGLMVPIVVVGNKC---------ELEFKDVRREIAETIALYDWQCG-- 187
           V    RE I+  + + +  ++V             E  +K++  ++++ +  Y +     
Sbjct: 125 VEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKV 184

Query: 188 -FVECSAKENYNIV 200
            FV   A    NI 
Sbjct: 185 RFVPVVAPSGDNIT 198

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 178

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

 Score = 37.8 bits (86), Expect = 4e-04
 Identities = 34/163 (20%), Positives = 62/163 (38%), Gaps = 7/163 (4%)

Query: 52  VVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPD---GAQLTLDILDTS 106
           V ++G   VGKS++++  L  +   IS   +T  +  RG             T  +    
Sbjct: 8   VAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPM 67

Query: 107 GAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCEL 166
            A      +E+  + AD   +V+ VD         +L  + +      VPI++VGNK + 
Sbjct: 68  DALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDA 127

Query: 167 EFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
                  E  +       +      SA +   + ++  +LLA 
Sbjct: 128 --AKYPEEAMKAYHELLPEAEPRMLSALDERQVAELKADLLAL 168

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]} 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: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 35.7 bits (81), Expect = 0.002
 Identities = 27/165 (16%), Positives = 68/165 (41%), Gaps = 13/165 (7%)

Query: 51  RVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLD----ILD 104
           R+V++G   VGKS+++++ L +    ++    T  ++   E  +       +D      +
Sbjct: 2   RMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSE 61

Query: 105 TSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC 164
           T+   +   +         A ++++ +D +S  D      ++ + +R      +VV NK 
Sbjct: 62  TNDLVERLGIERTLQEIEKADIVLFVLDASSPLDE----EDRKILERIKNKRYLVVINKV 117

Query: 165 ELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ 209
           ++  K    EI   +         V+ SA +   + ++ + +  +
Sbjct: 118 DVVEKINEEEIKNKLGTDRH---MVKISALKGEGLEKLEESIYRE 159

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

 Score = 35.5 bits (80), Expect = 0.003
 Identities = 20/165 (12%), Positives = 55/165 (33%), Gaps = 9/165 (5%)

Query: 51  RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ 110
            + + G + VGKSS I+  +  + ++R      +     + + +     +D+     A  
Sbjct: 25  EIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFAKV 84

Query: 111 FPAMRELSISTADAF------VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKC 164
             + RE      + +      +               D  +     +   +P++V+  K 
Sbjct: 85  SKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKA 144

Query: 165 ELEFKDVRREIAETIAL---YDWQCGFVECSAKENYNIVQVFKEL 206
           +   K    + A+ +      D +   +  S++      + +  +
Sbjct: 145 DKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAI 189

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 35.4 bits (80), Expect = 0.003
 Identities = 29/176 (16%), Positives = 54/176 (30%), Gaps = 20/176 (11%)

Query: 52  VVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF 111
           ++  G + VGKS++I +    +     +  V                        G  + 
Sbjct: 3   IIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIEIEWKNHKIIDMPGFGFMMGLPKE 62

Query: 112 ---------PAMRELSISTADAFVLVYA------VDDASTWDVVKDLREQIVNK-RGLMV 155
                        E +    D  VLV        +           +  +     R L +
Sbjct: 63  VQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDI 122

Query: 156 PIVVVGNKCEL--EFKDVRREIAE--TIALYDWQCGFVECSAKENYNIVQVFKELL 207
           P +V  NK +     ++V   +AE   + L +    F+  SAK   NI ++   + 
Sbjct: 123 PTIVAVNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIF 178

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	253
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.98
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.98
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.98
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.97
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.97
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.97
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.96
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.96
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.95
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.95
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.95
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.94
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.92
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.91
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.91
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.89
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.89
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.89
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.88
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.88
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.87
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.87
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.87
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.87
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.86
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.84
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.84
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.84
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.83
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.82
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.82
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.81
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.8
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.78
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.77
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.73
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.72
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.71
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.68
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.67
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.6
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.59
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.57
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.56
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.56
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.44
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.42
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.42
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.41
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.4
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.36
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.33
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.25
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.98
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	98.87
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.73
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.48
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.44
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.21
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.11
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.95
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.94
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.87
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.75
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.66
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.47
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.45
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.41
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.4
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.38
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.33
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.31
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.27
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.27
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.25
d1okkd2	207	GTPase domain of the signal recognition particle r	97.22
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.21
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.2
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.13
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.13
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.12
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.11
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.08
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.06
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.04
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.0
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.0
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.0
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.97
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.91
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.89
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.89
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.85
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.78
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.77
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.75
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.75
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.72
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.71
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.71
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.69
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.68
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.65
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.65
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.65
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.65
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.63
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.62
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.61
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.6
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.6
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.59
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.58
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.58
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	96.54
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.54
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.52
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.51
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.5
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.49
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.49
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.47
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.47
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.45
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.44
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.44
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.44
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.44
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.41
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.4
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.39
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.37
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.35
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.26
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.25
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.23
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.22
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.2
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.2
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.17
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.13
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.1
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.04
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.98
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	95.88
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.82
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.81
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	95.76
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	95.76
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.76
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	95.7
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.62
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	95.6
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	95.59
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.52
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.49
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.44
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.42
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.23
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.2
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.1
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.1
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.1
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.02
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.89
d2qy9a2	211	GTPase domain of the signal recognition particle r	94.79
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.76
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.65
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.49
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.41
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.41
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.29
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.25
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	94.2
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.15
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.06
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.05
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.03
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	93.88
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	93.84
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	93.78
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	93.76
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.75
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	93.71
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	93.69
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	93.55
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.47
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	93.43
d1tuea_	205	Replication protein E1 helicase domain {Human papi	93.37
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.27
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	93.25
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	93.16
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	93.11
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.07
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.06
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.04
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	92.98
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	92.97
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.93
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	92.77
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	92.74
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.72
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	92.62
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.25
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	91.85
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	91.1
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	90.91
d1xpua3	289	Transcription termination factor Rho, ATPase domai	90.76
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	90.3
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	90.25
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	90.24
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	89.73
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	89.55
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	87.97
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	87.0
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	86.77
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	85.74
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	84.94
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	83.29
d1y7ta1	154	Malate dehydrogenase {Thermus thermophilus [TaxId:	82.77
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	82.61
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	82.06
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	81.55
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	80.12

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.4e-34  Score=219.85  Aligned_cols=168  Identities=33%  Similarity=0.527  Sum_probs=152.0

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      +....+||+|+|++|||||||+++|+++.+...+.++..+.....+.+ ++..+.+.+||++|++++...+..+++++|+
T Consensus         2 ~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~   80 (173)
T d2fn4a1           2 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICSV-DGIPARLDILDTAGQEEFGAMREQYMRAGHG   80 (173)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEEEEEEE-TTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEecc-CCeeeeeeccccccccccccccchhhcccee
Confidence            456779999999999999999999999999888888888888888888 8889999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|+|||++++.+|..+..|+..+... ...++|+++|+||+|+... ....+.++.++. ..++++++|||++|.||+++
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~-~~~~~~~e~Sak~g~gv~e~  159 (173)
T d2fn4a1          81 FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGA-SHHVAYFEASAKLRLNVDEA  159 (173)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEECBTTTTBSHHHH
T ss_pred             eeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHH-hcCCEEEEEeCCCCcCHHHH
Confidence            99999999999999999999988764 3467899999999998766 567788888888 67899999999999999999


Q ss_pred             HHHHHHHHHHhc
Q psy549          203 FKELLAQAKVQY  214 (253)
Q Consensus       203 ~~~l~~~~~~~~  214 (253)
                      |+.|++.+.+..
T Consensus       160 f~~l~~~i~k~~  171 (173)
T d2fn4a1         160 FEQLVRAVRKYQ  171 (173)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999986653

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.3e-34  Score=219.41  Aligned_cols=167  Identities=25%  Similarity=0.383  Sum_probs=147.9

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCC
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTAD  123 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d  123 (253)
                      ++....+||+|+|++|||||||+++|+++.+...+.+|..+.....+.. ++..+.+.+||++|++.+..++..+++.+|
T Consensus         4 ~~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~~~~~~~~~-~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~   82 (185)
T d2atxa1           4 GPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTV-GGKQYLLGLYDTAGQEDYDRLRPLSYPMTD   82 (185)
T ss_dssp             CCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCEEEEEES-SSCEEEEEEECCCCSSSSTTTGGGGCTTCS
T ss_pred             CCCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceeeeeeEEEee-CCceEEeecccccccchhhhhhhhcccccc
Confidence            3567789999999999999999999999999988888888887777777 788999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEE
Q psy549          124 AFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVE  190 (253)
Q Consensus       124 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~  190 (253)
                      ++++|||+++++||+.+..|+.........++|+++|+||+|+.+.             .+..+.+..+++..+.++|++
T Consensus        83 ~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E  162 (185)
T d2atxa1          83 VFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVE  162 (185)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEE
T ss_pred             eeeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEE
Confidence            9999999999999998777666666655678999999999998752             456778888888667789999


Q ss_pred             eccCCCCCHHHHHHHHHHHHH
Q psy549          191 CSAKENYNIVQVFKELLAQAK  211 (253)
Q Consensus       191 ~Sa~~~~~i~~l~~~l~~~~~  211 (253)
                      |||++|.||+++|+.+++.++
T Consensus       163 ~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         163 CSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHH
T ss_pred             ecCCCCcCHHHHHHHHHHHHc
Confidence            999999999999999998873

>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=7.9e-34  Score=214.60  Aligned_cols=163  Identities=34%  Similarity=0.599  Sum_probs=144.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      +.+||+|+|++|||||||+++|+++.+...+.+|.++.+...+.+ ++..+.+.+||++|++++..++..+++++|++++
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~~~~~~-~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEE-TTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccccccccc-ccccccccccccccccchhhhhhhcccccceeEE
Confidence            457999999999999999999999999888888888777777777 8899999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |||+++..+|..+..|+..+... ...++|+++|+||+|+... .+..+.++.+++ .+++++++|||++|.||+++|.+
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~Sak~g~gv~e~f~~  160 (168)
T d1u8za_          82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAD-QWNVNYVETSAKTRANVDKVFFD  160 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHH-HHTCEEEECCTTTCTTHHHHHHH
T ss_pred             EeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHH-HcCCeEEEEcCCCCcCHHHHHHH
Confidence            99999999999999999988774 4567999999999998765 677888888888 66789999999999999999999


Q ss_pred             HHHHHHH
Q psy549          206 LLAQAKV  212 (253)
Q Consensus       206 l~~~~~~  212 (253)
                      |++.+..
T Consensus       161 l~~~i~~  167 (168)
T d1u8za_         161 LMREIRA  167 (168)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHC
Confidence            9998753

>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=3.1e-34  Score=217.43  Aligned_cols=162  Identities=41%  Similarity=0.639  Sum_probs=144.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      +++||+++|++|||||||+++|+++.+...+.+|.++.+.....+ ++..+.+.+||++|.+.+...+..+++.+|++++
T Consensus         1 n~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~~~~~~~-~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   79 (171)
T d2erxa1           1 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISC-DKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   79 (171)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEEEEEE-TTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeeccccceee-ccccceeccccccccccccccccccccceeEEEE
Confidence            468999999999999999999999999888888888877777777 8888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc--CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKR--GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |||++++++|..+..|+..+....  ..++|+++|+||+|+... ++..+.++.+++ ..++++++|||++|.||+++|+
T Consensus        80 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~-~~~~~~~e~Sak~~~~v~e~f~  158 (171)
T d2erxa1          80 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALAR-TWKCAFMETSAKLNHNVKELFQ  158 (171)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHH-HHTCEEEECBTTTTBSHHHHHH
T ss_pred             EeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHH-HcCCeEEEEcCCCCcCHHHHHH
Confidence            999999999999999998877643  366899999999998765 677888889988 6778999999999999999999


Q ss_pred             HHHHHHH
Q psy549          205 ELLAQAK  211 (253)
Q Consensus       205 ~l~~~~~  211 (253)
                      .|++.+.
T Consensus       159 ~l~~~~~  165 (171)
T d2erxa1         159 ELLNLEK  165 (171)
T ss_dssp             HHHHTCC
T ss_pred             HHHHHHH
Confidence            9997663

>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=7.8e-34  Score=214.64  Aligned_cols=162  Identities=25%  Similarity=0.359  Sum_probs=130.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+|+|++|||||||+++|.+..+.. ..++....+...+.+ ++..+.+.+||++|++++..++..+++.+|++|+||
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~-~~~~~~~~~~~~i~~-~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~   79 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGP-EAEAAGHTYDRSIVV-DGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVY   79 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC----------CEEEEEEEEE-TTEEEEEEEEECC-------CHHHHHTSCSEEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCC-cCCeeeeeecceeec-cccccceeeeecccccccceecccchhhhhhhceec
Confidence            799999999999999999999887643 344556667777777 888999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      |++++.+|+.+..|+..+.... ...+|+++|+||+|+.+. ++....++.++. .+++++++|||++|.||+++|.+|+
T Consensus        80 d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~Sak~~~~v~~~f~~l~  158 (168)
T d2gjsa1          80 SVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAV-VFDCKFIETSAALHHNVQALFEGVV  158 (168)
T ss_dssp             ETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHH-HHTSEEEECBTTTTBSHHHHHHHHH
T ss_pred             cccccccccccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHH-hcCCEEEEEeCCCCcCHHHHHHHHH
Confidence            9999999999999999887754 356899999999999876 677888888888 6788999999999999999999999


Q ss_pred             HHHHHhc
Q psy549          208 AQAKVQY  214 (253)
Q Consensus       208 ~~~~~~~  214 (253)
                      +.+..++
T Consensus       159 ~~i~~~~  165 (168)
T d2gjsa1         159 RQIRLRR  165 (168)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9886653

>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=2.2e-33  Score=212.38  Aligned_cols=163  Identities=31%  Similarity=0.529  Sum_probs=147.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      +.+||+++|++|||||||+++|+++.+...+.+|..+.+...+.+ ++..+.+.+||++|++++..++..+++++|++++
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ll   81 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTEI-DNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLI   81 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEEEEEEEE-TTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecccccccc-ccccccccccccccccccccchhhhhhhccEEEE
Confidence            569999999999999999999999999888888887777777777 8889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCC-CHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENY-NIVQVFK  204 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~i~~l~~  204 (253)
                      |||++++.+|..+..|+..+.... ...+|+++|+||+|+... .+..+.++.+++ ..++++++|||+++. ||+++|.
T Consensus        82 v~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~-~~~~~~~e~Sak~~~~nV~~~F~  160 (169)
T d1x1ra1          82 VYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMAT-KYNIPYIETSAKDPPLNVDKTFH  160 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHH-HHTCCEEEEBCSSSCBSHHHHHH
T ss_pred             ecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHH-HcCCEEEEEcCCCCCcCHHHHHH
Confidence            999999999999999999887753 457999999999999876 677888899988 667899999999886 9999999


Q ss_pred             HHHHHHHH
Q psy549          205 ELLAQAKV  212 (253)
Q Consensus       205 ~l~~~~~~  212 (253)
                      .|++.+.+
T Consensus       161 ~l~~~i~~  168 (169)
T d1x1ra1         161 DLVRVIRQ  168 (169)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998865

>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=2.2e-33  Score=211.94  Aligned_cols=163  Identities=39%  Similarity=0.639  Sum_probs=147.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..+||+|+|++|||||||+++|..+.+...+.++....+...+.+ ++..+.+.+||++|++.+...+..+++++|++|+
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   80 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEV-DCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEES-SSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccccceeEEe-eeeEEEeccccccCcccccccccccccccceeEE
Confidence            468999999999999999999999999988888888888888877 8888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |||++++.+|+.+..|+..+... ...++|+++|+||+|+... ....+.+..+++...++++++|||++|.||+++|.+
T Consensus        81 v~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~  160 (167)
T d1c1ya_          81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYD  160 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHH
T ss_pred             eeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHH
Confidence            99999999999999999988774 3467999999999999876 666777788877567899999999999999999999


Q ss_pred             HHHHHH
Q psy549          206 LLAQAK  211 (253)
Q Consensus       206 l~~~~~  211 (253)
                      |++.+.
T Consensus       161 l~~~i~  166 (167)
T d1c1ya_         161 LVRQIN  166 (167)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            998873

>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=3.2e-33  Score=211.82  Aligned_cols=165  Identities=33%  Similarity=0.561  Sum_probs=145.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...+||+|+|++|||||||+++|+++.+...+.+|..+.....+.+ ++..+.+.+||++|.+++...+..+++.+|+++
T Consensus         3 ~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   81 (171)
T d2erya1           3 QEKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVI-DDRAARLDILDTAGQEEFGAMREQYMRTGEGFL   81 (171)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCEEEEEEEEE-TTEEEEEEEEECC----CCHHHHHHHHHCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccccceeeeeee-cccccccccccccccccccccccccccccceEE
Confidence            4569999999999999999999999999888888888888888888 888999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      +|||.+++.+|..+..|+..+... .....|+++|+||+|+... .+..+.++.+++ ..++++++|||++|.||+++|.
T Consensus        82 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~Sak~~~~i~e~f~  160 (171)
T d2erya1          82 LVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLAR-QLKVTYMEASAKIRMNVDQAFH  160 (171)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHH-HTTCEEEECBTTTTBSHHHHHH
T ss_pred             EeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHH-HcCCEEEEEcCCCCcCHHHHHH
Confidence            999999999999999999877664 3456999999999998766 677888889988 6788999999999999999999


Q ss_pred             HHHHHHHHh
Q psy549          205 ELLAQAKVQ  213 (253)
Q Consensus       205 ~l~~~~~~~  213 (253)
                      +|++.+.+.
T Consensus       161 ~l~~~i~k~  169 (171)
T d2erya1         161 ELVRVIRKF  169 (171)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999998644

>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=8.2e-34  Score=214.28  Aligned_cols=163  Identities=28%  Similarity=0.558  Sum_probs=147.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      +..+||+|+|++|||||||+++|+++.+...+.+|....+...+.+ ++..+.+.+||++|.+++..++..++..+|++|
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~i   80 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITV-NGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYI   80 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEEEEEEEE-TTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEE
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceecccceEEec-CcEEEEeeecccccccccccccchhhhhhhhhh
Confidence            3568999999999999999999999999888888888777777888 889999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      +|||++++.+|..+..|+..+... ...++|+++|+||+|+... .+..+.++.+++ .+++++++|||++|.||+++|+
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~-~~~~~~~e~Sak~~~~v~~~f~  159 (167)
T d1xtqa1          81 LVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAE-SWNAAFLESSAKENQTAVDVFR  159 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCEEEECCTTCHHHHHHHHH
T ss_pred             hhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHH-HcCCEEEEEecCCCCCHHHHHH
Confidence            999999999999999999888774 3467999999999998765 677888888988 6788999999999999999999


Q ss_pred             HHHHHHH
Q psy549          205 ELLAQAK  211 (253)
Q Consensus       205 ~l~~~~~  211 (253)
                      .|++.+.
T Consensus       160 ~li~~~~  166 (167)
T d1xtqa1         160 RIILEAE  166 (167)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            9998874

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2e-33  Score=214.18  Aligned_cols=162  Identities=27%  Similarity=0.418  Sum_probs=144.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      ..||+|+|++|||||||+++|.++.+...+.+|..+.......+ ++..+.+++||++|++.+...+..+++++|++|+|
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEV-DGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMC   80 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeeccccccc-cccceeeeccccCccchhcccchhhcccchhhhhh
Confidence            47999999999999999999999999888888888777777777 88889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      ||++++.||+.+..|+..+.....+++|+++|+||+|+.+.             .+..+.++.+++.....+|++|||++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt  160 (177)
T d1kmqa_          81 FSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKT  160 (177)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTT
T ss_pred             cccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCC
Confidence            99999999999888777766666688999999999999753             35677788888866667999999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQAK  211 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~  211 (253)
                      |.||+++|+.+++.++
T Consensus       161 ~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         161 KDGVREVFEMATRAAL  176 (177)
T ss_dssp             CTTHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHh
Confidence            9999999999998875

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.8e-33  Score=216.97  Aligned_cols=161  Identities=27%  Similarity=0.414  Sum_probs=145.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+++|++|||||||+++|..+.+..++.+|..........+ ++..+.+.+||++|+++|..++..+++.+|++++|
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   81 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   81 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeecceeEee-CCceeeeeccccccchhhhhhhhhcccccceeecc
Confidence            58999999999999999999999999888888888877777777 78889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      ||+++++||+.+..|+.........++|+++|+||+|+.+.             .+..+.++.++....++++++|||++
T Consensus        82 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~  161 (191)
T d2ngra_          82 FSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALT  161 (191)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTTT
T ss_pred             cccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCCC
Confidence            99999999999988776666666678999999999998643             36778888898866778999999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQA  210 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~  210 (253)
                      |.||+++|+.++..+
T Consensus       162 ~~~V~e~f~~l~~~~  176 (191)
T d2ngra_         162 QKGLKNVFDEAILAA  176 (191)
T ss_dssp             CTTHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHH
Confidence            999999999998876

>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=2.2e-33  Score=211.92  Aligned_cols=162  Identities=36%  Similarity=0.660  Sum_probs=146.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      +++||+++|++|||||||+++|+++.+...+.++..+.+.....+ ++..+.+.+||++|++.+...+..+++++|++++
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   80 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEV-DSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEE-TTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeeeeeeeeec-CcceEeeccccCCCccccccchHHHhhcccceee
Confidence            568999999999999999999999999888888888888888888 8888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |||++++.+|..+..|+..+.... .+++|+++|+||+|+... .+..+.++.+++ .+++++++|||++|.||+++|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~-~~~~~~~e~Sak~g~~i~e~f~~  159 (167)
T d1kaoa_          81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAE-EWGCPFMETSAKSKTMVDELFAE  159 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-HHTSCEEEECTTCHHHHHHHHHH
T ss_pred             eeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHH-HcCCeEEEECCCCCcCHHHHHHH
Confidence            999999999999999998887743 467999999999998765 667777888887 56789999999999999999999


Q ss_pred             HHHHHH
Q psy549          206 LLAQAK  211 (253)
Q Consensus       206 l~~~~~  211 (253)
                      |++++.
T Consensus       160 i~~~i~  165 (167)
T d1kaoa_         160 IVRQMN  165 (167)
T ss_dssp             HHHHHH
T ss_pred             HHHHHc
Confidence            998774

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2e-33  Score=212.94  Aligned_cols=164  Identities=24%  Similarity=0.378  Sum_probs=146.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+||+|+|++|||||||+++|.++.+...+..+.. +.....+.+ ++..+.+.+|||+|+++|..++..+++++++++
T Consensus         4 ~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~-~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i   82 (171)
T d2ew1a1           4 FLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI-NGEKVKLQIWDTAGQERFRSITQSYYRSANALI   82 (171)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEE-CCEEEEEEEEECCCchhhHHHHHHHHhccceEE
Confidence            358999999999999999999999998766665554 777778888 788899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||++++.++..+..|+..+.......+|+++|+||+|+... .+..+.++.+++ ..++++++|||++|.||+++|.+
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~-~~~~~~~~~SAktg~gV~e~f~~  161 (171)
T d2ew1a1          83 LTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSE-AQDMYYLETSAKESDNVEKLFLD  161 (171)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHH-HHTCCEEECCTTTCTTHHHHHHH
T ss_pred             EeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHH-hCCCEEEEEccCCCCCHHHHHHH
Confidence            9999999999999999999988877778999999999998765 677788888888 56789999999999999999999


Q ss_pred             HHHHHHHh
Q psy549          206 LLAQAKVQ  213 (253)
Q Consensus       206 l~~~~~~~  213 (253)
                      |++.+...
T Consensus       162 l~~~l~~~  169 (171)
T d2ew1a1         162 LACRLISE  169 (171)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99887554

>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=2e-33  Score=212.13  Aligned_cols=163  Identities=25%  Similarity=0.383  Sum_probs=139.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+||+|+|++|||||||+++|+++.+...+.+|.. +........ ++..+.+.+||++|++++..++..+++++|+++
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   80 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNI-GGKRVNLAIWDTAGQERFHALGPIYYRDSNGAI   80 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEES-SSCEEEEEEEECCCC-------CCSSTTCSEEE
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeecc-CCccceeeeeccCCcceecccchhhccCCceeE
Confidence            358999999999999999999999999888888777 455556666 888999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||+++++||+.+..|+..+........|+++|+||+|+... .+..+.++.+++ ..++++++|||++|.||+++|.+
T Consensus        81 ~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~-~~~~~~~e~Sak~~~~v~e~F~~  159 (167)
T d1z08a1          81 LVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAE-SVGAKHYHTSAKQNKGIEELFLD  159 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEEEBTTTTBSHHHHHHH
T ss_pred             EEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHHHHHHH-HcCCeEEEEecCCCcCHHHHHHH
Confidence            9999999999999999998887766677899999999998766 678888999998 67889999999999999999999


Q ss_pred             HHHHHHH
Q psy549          206 LLAQAKV  212 (253)
Q Consensus       206 l~~~~~~  212 (253)
                      |++.+.+
T Consensus       160 l~~~i~~  166 (167)
T d1z08a1         160 LCKRMIE  166 (167)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHhh
Confidence            9998853

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=3.1e-33  Score=211.52  Aligned_cols=163  Identities=25%  Similarity=0.408  Sum_probs=144.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+||+|+|++|||||||+++|.++.+...+.++.. +.....+.. ++..+.+++||+||++++..++..+++.+|++|
T Consensus         4 ~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~i   82 (169)
T d3raba_           4 YMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYR-NDKRIKLQIWDTAGQERYRTITTAYYRGAMGFI   82 (169)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEe-ecceEEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            458999999999999999999999998777666665 666666666 777899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||++++.++..+..|+..+........|+++|+||+|+.+. .+..+.++.+++ ..++++++|||++|.||+++|++
T Consensus        83 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~-~~~~~~~e~Sak~g~gv~e~f~~  161 (169)
T d3raba_          83 LMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLAD-HLGFEFFEASAKDNINVKQTFER  161 (169)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHH-HcCCEEEEecCCCCcCHHHHHHH
Confidence            9999999999999999998887777778999999999998876 667778888887 56789999999999999999999


Q ss_pred             HHHHHHH
Q psy549          206 LLAQAKV  212 (253)
Q Consensus       206 l~~~~~~  212 (253)
                      |++.+.+
T Consensus       162 l~~~i~e  168 (169)
T d3raba_         162 LVDVICE  168 (169)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhh
Confidence            9998854

>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=2e-33  Score=211.55  Aligned_cols=160  Identities=29%  Similarity=0.443  Sum_probs=143.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+||+++|++|||||||+++|.++.+...+.+|.. +........ ++..+.+.+||++|++++..++..+++.+|++++
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~-~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~   80 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQV-NDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVL   80 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEE-TTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeee-cCceeeeeeeccCCccchhhhhhhhhccCceEEE
Confidence            47999999999999999999999999888888776 556666666 8888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      |||++++.+|+.+..|+..+.... .++|+++|+||+|+... .+..+.++.+++ .+++++++|||++|.||+++|++|
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~Sak~g~~v~e~f~~l  158 (164)
T d1z2aa1          81 VFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAK-RLKLRFYRTSVKEDLNVSEVFKYL  158 (164)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHH-HHTCEEEECBTTTTBSSHHHHHHH
T ss_pred             EEeccchhhhhhcccccccccccC-CCceEEEeeccCCcccceeeeehhhHHHHH-HcCCEEEEeccCCCcCHHHHHHHH
Confidence            999999999999999999887754 57999999999998765 677788888888 567899999999999999999999


Q ss_pred             HHHHH
Q psy549          207 LAQAK  211 (253)
Q Consensus       207 ~~~~~  211 (253)
                      ++.+.
T Consensus       159 ~~~~l  163 (164)
T d1z2aa1         159 AEKHL  163 (164)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            99875

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=7.1e-33  Score=208.88  Aligned_cols=161  Identities=27%  Similarity=0.381  Sum_probs=143.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+||+|+|++|||||||+++|+++.+...+.++.. +.....+.+ ++..+.+.+||++|++++..++..+++.+|+++
T Consensus         3 y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~i   81 (166)
T d1z0fa1           3 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-SGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL   81 (166)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEE-TTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEE-CCEEEEEEEeccCCchhHHHHHHHHhcCCcEEE
Confidence            358999999999999999999999998777766555 556666667 888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||+++.++|..+..|+..+........|+++|+||+|+... .+..+.++.+++ ..++++++|||++|.||+++|.+
T Consensus        82 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~-~~~~~~~e~Saktg~~v~e~f~~  160 (166)
T d1z0fa1          82 MVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAE-ENGLLFLEASAKTGENVEDAFLE  160 (166)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHH-HcCCEEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999999988877788999999999998766 566778888888 57789999999999999999999


Q ss_pred             HHHHH
Q psy549          206 LLAQA  210 (253)
Q Consensus       206 l~~~~  210 (253)
                      |++.+
T Consensus       161 i~~~i  165 (166)
T d1z0fa1         161 AAKKI  165 (166)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            98875

>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=9.4e-33  Score=208.63  Aligned_cols=162  Identities=33%  Similarity=0.557  Sum_probs=141.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      ++||+++|++|||||||+++|+++.+...+.+|....+...+.. ++..+.+++||++|++.+. .+..+++++|++++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv   79 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATI-DDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLV   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEE-TTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccccccccc-cccceEEEEeecccccccc-cchhhhcccccceee
Confidence            58999999999999999999999999888888887767777766 8889999999999998875 556688999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCC-CHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENY-NIVQVFKE  205 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~i~~l~~~  205 (253)
                      ||++++.+|..+..|+..... ....++|+++|+||+|+... .+..+.++.+++ .++++|++|||++|. ||+++|..
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~-~~~~~~~e~Saktg~gnV~e~F~~  158 (168)
T d2atva1          80 YDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLAT-ELACAFYECSACTGEGNITEIFYE  158 (168)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-HHTSEEEECCTTTCTTCHHHHHHH
T ss_pred             cccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHH-HhCCeEEEEccccCCcCHHHHHHH
Confidence            999999999999988766555 34467999999999999765 678888999988 667899999999998 59999999


Q ss_pred             HHHHHHHh
Q psy549          206 LLAQAKVQ  213 (253)
Q Consensus       206 l~~~~~~~  213 (253)
                      |++.+.++
T Consensus       159 l~~~i~~~  166 (168)
T d2atva1         159 LCREVRRR  166 (168)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99988654

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.3e-33  Score=209.12  Aligned_cols=159  Identities=30%  Similarity=0.498  Sum_probs=143.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+|+|++|||||||+++|+++++...+.++.. ......... ++..+.+.+||++|++++...+..++..+|++++|
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv   79 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYL-EDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVV   79 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEC-SSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeecc-CCCceeeeecccCCcchhccchHHHhhccceEEEe
Confidence            6999999999999999999999999888777766 555555555 88889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      ||++++.+|..+..|+..+......++|+++|+||+|+... .+..+.+..+++ ..++++++|||++|.||+++|++|+
T Consensus        80 ~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~-~~~~~~~e~SAk~g~~v~e~f~~i~  158 (164)
T d1yzqa1          80 YDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAK-ELNVMFIETSAKAGYNVKQLFRRVA  158 (164)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             eccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHHHHHHH-HcCCEEEEecCCCCcCHHHHHHHHH
Confidence            99999999999999999988877788999999999998765 677778888888 6788999999999999999999999


Q ss_pred             HHH
Q psy549          208 AQA  210 (253)
Q Consensus       208 ~~~  210 (253)
                      +.+
T Consensus       159 ~~l  161 (164)
T d1yzqa1         159 AAL  161 (164)
T ss_dssp             HHS
T ss_pred             Hhh
Confidence            876

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=8.4e-33  Score=208.48  Aligned_cols=162  Identities=31%  Similarity=0.580  Sum_probs=147.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      +++||+++|++|||||||+++|+++.+...+.++.+..+...+.. ++..+.+.+||++|.+.+...+..+++.++++++
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~ii   80 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   80 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEEE-TTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeeccceee-eceeeeeeeeeccCccccccchhhhhhcccccce
Confidence            458999999999999999999999999888888888777777777 7788999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      |||++++.+|+.+..|+..+.... ..++|+++|+||+|+....+..+.++.+++ ..++++++|||++|.||+++|.+|
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~e~Sak~g~gi~e~f~~i  159 (166)
T d1ctqa_          81 VFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLAR-SYGIPYIETSAKTRQGVEDAFYTL  159 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCCCSCHHHHHHHHH-HHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             eecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccccccccHHHHHHHHH-HhCCeEEEEcCCCCcCHHHHHHHH
Confidence            999999999999999999888754 356999999999999888888888899988 567899999999999999999999


Q ss_pred             HHHHH
Q psy549          207 LAQAK  211 (253)
Q Consensus       207 ~~~~~  211 (253)
                      ++.+.
T Consensus       160 ~~~i~  164 (166)
T d1ctqa_         160 VREIR  164 (166)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99875

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=7.8e-33  Score=208.88  Aligned_cols=162  Identities=25%  Similarity=0.346  Sum_probs=145.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..+||+|+|++|||||||+++|.++.+...+.+|............++..+.+.+||++|++++..++..+++.++++|+
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~   82 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAII   82 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEE
Confidence            46899999999999999999999999988888887755554444447788899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      |||++++++|..+..|+..+........|+++|+||+|+.+. .+..+.++.+++ ..++++++|||++|.||+++|.+|
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~SAk~~~nV~e~f~~l  161 (167)
T d1z0ja1          83 VYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYAD-SIHAIFVETSAKNAININELFIEI  161 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHH-HcCCEEEEEecCCCCCHHHHHHHH
Confidence            999999999999999998888888788999999999999765 677888899998 678899999999999999999999


Q ss_pred             HHHH
Q psy549          207 LAQA  210 (253)
Q Consensus       207 ~~~~  210 (253)
                      ++.+
T Consensus       162 ~~~i  165 (167)
T d1z0ja1         162 SRRI  165 (167)
T ss_dssp             HHHC
T ss_pred             HHhC
Confidence            9876

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2e-32  Score=207.97  Aligned_cols=167  Identities=22%  Similarity=0.279  Sum_probs=147.3

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceee-eeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEEL-HRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...+||+|+|++|||||||+++|..+.+...+.++.... ....+.. ++..+.+.+||++|++++..++..+++.+|++
T Consensus         3 ~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~   81 (174)
T d2bmea1           3 DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQIWDTAGQERFRSVTRSYYRGAAGA   81 (174)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEE-TTEEEEEEEEEECCSGGGHHHHHTTSTTCSEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEe-cCcceeEEEEECCCchhhhhhHHHHhhhCCEE
Confidence            346899999999999999999999999988777776644 4444555 78889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ++|||.+++.+|..+..|+..+......++|+++|+||+|+... +...+.+..+++ ..++++++|||++|.||+++|.
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~e~Sak~~~gi~e~f~  160 (174)
T d2bmea1          82 LLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQ-ENELMFLETSALTGENVEEAFV  160 (174)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHH-hCCCEEEEeeCCCCcCHHHHHH
Confidence            99999999999999999999988887788999999999998665 677777788887 6789999999999999999999


Q ss_pred             HHHHHHHHhcc
Q psy549          205 ELLAQAKVQYN  215 (253)
Q Consensus       205 ~l~~~~~~~~~  215 (253)
                      ++++.+..+..
T Consensus       161 ~l~~~i~~~~~  171 (174)
T d2bmea1         161 QCARKILNKIE  171 (174)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999876643

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.5e-32  Score=207.83  Aligned_cols=162  Identities=23%  Similarity=0.362  Sum_probs=145.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeee-eeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELH-RGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+||+|+|++|||||||+++|+++.+...+.++..... ...... ++..+.+.+||++|++++..++..+++++|+++
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   83 (170)
T d1r2qa_           5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAI   83 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEE-TTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeec-cceEEEEEeccCCCchhhhhhHHHHhhCcceEE
Confidence            458999999999999999999999999887777776444 445555 778899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||+++..+|..+..|+..+.....+++|+++|+||+|+... .+..+.++.++. .+++++++|||++|.||+++|.+
T Consensus        84 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~-~~~~~~~e~SAk~g~~V~e~f~~  162 (170)
T d1r2qa_          84 VVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYAD-DNSLLFMETSAKTSMNVNEIFMA  162 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHH-hcCCEEEEeeCCCCCCHHHHHHH
Confidence            9999999999999999999988877788999999999998776 778888999998 67889999999999999999999


Q ss_pred             HHHHHH
Q psy549          206 LLAQAK  211 (253)
Q Consensus       206 l~~~~~  211 (253)
                      |++.+.
T Consensus       163 l~~~i~  168 (170)
T d1r2qa_         163 IAKKLP  168 (170)
T ss_dssp             HHHTSC
T ss_pred             HHHHHh
Confidence            988763

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.6e-32  Score=210.14  Aligned_cols=164  Identities=22%  Similarity=0.343  Sum_probs=144.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ...+||+|+|++|||||||+++|+.+.+...+.+|..+.....+.. ++..+.+.+||++|++.+..++..+++.+|+++
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   81 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEEEEEEE-TTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceeeceeeeeec-cCcceEEEeecccccccchhhhhhcccccceee
Confidence            3568999999999999999999999999888888988888888877 888999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEecc
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSA  193 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa  193 (253)
                      +|||++++.+|+.+..|+.........++|+++|+||+|+...             ......+..+++....++|++|||
T Consensus        82 lv~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~SA  161 (183)
T d1mh1a_          82 ICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  161 (183)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             eeeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcCC
Confidence            9999999999999887666666655678999999999998653             244556777777566689999999


Q ss_pred             CCCCCHHHHHHHHHHHHH
Q psy549          194 KENYNIVQVFKELLAQAK  211 (253)
Q Consensus       194 ~~~~~i~~l~~~l~~~~~  211 (253)
                      ++|.||+++|++|++.++
T Consensus       162 k~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         162 LTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             TTCTTHHHHHHHHHHHHS
T ss_pred             CCCcCHHHHHHHHHHHHc
Confidence            999999999999999873

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2e-32  Score=207.73  Aligned_cols=164  Identities=27%  Similarity=0.388  Sum_probs=141.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+||+|+|++|||||||+++|+++++...+..+.. ......... ++..+.+.+||++|++.+..++..++..+|++++
T Consensus         3 ~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (173)
T d2a5ja1           3 LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNI-DGKQIKLQIWDTAGQESFRSITRSYYRGAAGALL   81 (173)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEE-TTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeee-eeeEEEEEeecccCccchhhHHHHHhhccCEEEE
Confidence            48999999999999999999999998776665554 444444555 7778999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKEL  206 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  206 (253)
                      |||++++.+|+.+..|+..+......++|+++|+||+|+... ....+.+..++. ..++++++|||++|.||+++|.+|
T Consensus        82 v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~-~~~~~~~e~Sa~tg~~V~e~f~~i  160 (173)
T d2a5ja1          82 VYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAR-EHGLIFMETSAKTACNVEEAFINT  160 (173)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCEEEEECTTTCTTHHHHHHHH
T ss_pred             EEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHHHHHHH-HcCCEEEEecCCCCCCHHHHHHHH
Confidence            999999999999999999988887788999999999998765 677778888887 567899999999999999999999


Q ss_pred             HHHHHHhc
Q psy549          207 LAQAKVQY  214 (253)
Q Consensus       207 ~~~~~~~~  214 (253)
                      ++.+.++.
T Consensus       161 ~~~i~~~~  168 (173)
T d2a5ja1         161 AKEIYRKI  168 (173)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99987654

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4e-32  Score=206.49  Aligned_cols=164  Identities=26%  Similarity=0.382  Sum_probs=142.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..+||+|+|++|||||||+++|+++.+...+..+.. ......+.+ ++..+.+.+||++|+++|...+..+++.+|++|
T Consensus         3 ~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i   81 (175)
T d2f9la1           3 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   81 (175)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEE-TTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEE-CCEEEEEEecccCCcHHHHHHHHHHhhccCeEE
Confidence            358999999999999999999999998776665554 555666677 888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||.+++.+|..+..|+..+......++|+++|+||+|+.+. ....+....+.. ..+.++++|||++|.|++++|++
T Consensus        82 ~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~g~~i~e~f~~  160 (175)
T d2f9la1          82 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAE-KNNLSFIETSALDSTNVEEAFKN  160 (175)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHHHHHHhhc-ccCceEEEEecCCCcCHHHHHHH
Confidence            9999999999999999999998888788999999999999876 455555666666 67889999999999999999999


Q ss_pred             HHHHHHHh
Q psy549          206 LLAQAKVQ  213 (253)
Q Consensus       206 l~~~~~~~  213 (253)
                      +++.+.+.
T Consensus       161 l~~~i~~~  168 (175)
T d2f9la1         161 ILTEIYRI  168 (175)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988654

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=8.1e-32  Score=204.68  Aligned_cols=166  Identities=27%  Similarity=0.406  Sum_probs=130.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      -+||+|+|++|||||||+++|+++.+...+.++.. ..........+...+.+.+||++|++++...+..+++.++++++
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   81 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVL   81 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEE
Confidence            47999999999999999999999998877776665 33444444445666789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc----CCCCCEEEEEecCCCCCc--cccHHHHHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKR----GLMVPIVVVGNKCELEFK--DVRREIAETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~----~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      |||++++.+|..+..|+..+....    ...+|+++|+||+|+.+.  .+..+.++.+++.....++++|||++|.||++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~e  161 (175)
T d1ky3a_          82 VYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDT  161 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHH
T ss_pred             EeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHHH
Confidence            999999999999999998887632    246899999999999765  46778888888866678999999999999999


Q ss_pred             HHHHHHHHHHHhc
Q psy549          202 VFKELLAQAKVQY  214 (253)
Q Consensus       202 l~~~l~~~~~~~~  214 (253)
                      +|++|++.+.+++
T Consensus       162 ~f~~l~~~~l~~~  174 (175)
T d1ky3a_         162 AFEEIARSALQQN  174 (175)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999887664

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.4e-31  Score=206.72  Aligned_cols=168  Identities=27%  Similarity=0.400  Sum_probs=148.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...+||+|+|++|||||||+++|+++.+...+.++.. ......+.+ ++..+.+.+|||+|++++..++..+++++|++
T Consensus         4 ~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~-~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~   82 (194)
T d2bcgy1           4 DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL-DGKTVKLQIWDTAGQERFRTITSSYYRGSHGI   82 (194)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEE-TTEEEEEEEECCTTTTTTTCCCGGGGTTCSEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEE-eeEEEEEEEEECCCchhhHHHHHHHhccCCEE
Confidence            3468999999999999999999999998888777776 444456667 77889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |+|||++++.+|..+..|+..+.......+|+++|+||+|+... .+..+....++. ..+++++++||++|.||+++|+
T Consensus        83 i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~e~SAk~g~gi~e~f~  161 (194)
T d2bcgy1          83 IIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFAD-ANKMPFLETSALDSTNVEDAFL  161 (194)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHH-HTTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHHhhhhh-ccCcceEEEecCcCccHHHHHH
Confidence            99999999999999999999888877788999999999999876 667777777777 6788999999999999999999


Q ss_pred             HHHHHHHHhccc
Q psy549          205 ELLAQAKVQYNL  216 (253)
Q Consensus       205 ~l~~~~~~~~~~  216 (253)
                      ++++.+......
T Consensus       162 ~l~~~i~~~~~~  173 (194)
T d2bcgy1         162 TMARQIKESMSQ  173 (194)
T ss_dssp             HHHHHHHHHCCH
T ss_pred             HHHHHHHHHhhh
Confidence            999998776443

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=4.4e-32  Score=204.47  Aligned_cols=163  Identities=24%  Similarity=0.435  Sum_probs=143.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      -+||+++|++|||||||+++|+++.+...+.+|.. +.....+.+ ++..+.+.+||+||++++..++..+++++|++++
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   80 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEES-SSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEE-CCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEE
Confidence            47999999999999999999999998887777766 666677877 8888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      |||.+++.+|+.+..|+..+........|++++++|.|+.......+.++.++. .+++++++|||++|.||.++|++|+
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~e~f~~l~  159 (166)
T d1g16a_          81 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVVTADQGEALAK-ELGIPFIESSAKNDDNVNEIFFTLA  159 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCCSCHHHHHHHHH-HHTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhhhhhhHHHHHHHHH-hcCCeEEEECCCCCCCHHHHHHHHH
Confidence            999999999999999999888888888999999999999888888888999988 5678999999999999999999999


Q ss_pred             HHHHHh
Q psy549          208 AQAKVQ  213 (253)
Q Consensus       208 ~~~~~~  213 (253)
                      +.+.++
T Consensus       160 ~~i~~k  165 (166)
T d1g16a_         160 KLIQEK  165 (166)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            988664

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=3.3e-32  Score=207.67  Aligned_cols=163  Identities=24%  Similarity=0.364  Sum_probs=145.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      ++||+|+|++|||||||+++|+.+.++..+.+|..+.....+.+ ++..+.+++||++|++.+...+..+++.+|++|+|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI-DTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLIC   80 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEC-SSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeecccccccc-cceEEeeccccccccccccccccchhhhhhhhhee
Confidence            47999999999999999999999999988888888888888888 88899999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          129 YAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      ||+++++||+.+..|+........+++|+++|+||+|+...             .+..+.+..+++.....+|+||||++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~  160 (179)
T d1m7ba_          81 FDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQ  160 (179)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTT
T ss_pred             eecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCC
Confidence            99999999999888776666666678999999999998642             46677888888866678999999999


Q ss_pred             CC-CHHHHHHHHHHHHHH
Q psy549          196 NY-NIVQVFKELLAQAKV  212 (253)
Q Consensus       196 ~~-~i~~l~~~l~~~~~~  212 (253)
                      |. +++++|+.+++.+..
T Consensus       161 ~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         161 SENSVRDIFHVATLACVN  178 (179)
T ss_dssp             BHHHHHHHHHHHHHHHHT
T ss_pred             CCcCHHHHHHHHHHHHhc
Confidence            98 599999999998754

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.8e-32  Score=207.99  Aligned_cols=166  Identities=28%  Similarity=0.477  Sum_probs=118.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ...+||+|+|++|||||||+++|+++.+...+.++.. +.....+.+ ++..+.+.+||+||++.+..++..+++.+|++
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~   82 (173)
T d2fu5c1           4 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL-DGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   82 (173)
T ss_dssp             SEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEE-TTEEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEE-CCEEEEEEEEECCCchhhHHHHHHhccCCCEE
Confidence            4568999999999999999999999988777766665 667777888 78889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      |+|||++++.+|..+..|+..+......++|+++|+||.|+... ....+.+..++. ..++++++|||++|.||.++|.
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~g~gv~e~f~  161 (173)
T d2fu5c1          83 MLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLAL-DYGIKFMETSAKANINVENAFF  161 (173)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHH-HHTCEEEECCC---CCHHHHHH
T ss_pred             EEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHH-hcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999998877788999999999998876 555666777776 6789999999999999999999


Q ss_pred             HHHHHHHHhc
Q psy549          205 ELLAQAKVQY  214 (253)
Q Consensus       205 ~l~~~~~~~~  214 (253)
                      +|++.+..+.
T Consensus       162 ~l~~~i~~k~  171 (173)
T d2fu5c1         162 TLARDIKAKM  171 (173)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9999987653

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.2e-31  Score=202.84  Aligned_cols=163  Identities=23%  Similarity=0.403  Sum_probs=135.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccc-e-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETV-E-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~-~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ...+||+|+|+++||||||+++|+++.+...+..++ . +.....+.. ++..+.+.+|||+|++++..++..+++++|+
T Consensus         4 d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~   82 (170)
T d2g6ba1           4 DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDV-DGVKVKLQMWDTAGQERFRSVTHAYYRDAHA   82 (170)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEE-TTEEEEEEEEECCCC--------CCGGGCSE
T ss_pred             ceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEe-cCcEEEEEEEECCCchhhHHHHHHhhcCCce
Confidence            456899999999999999999999998765544333 3 555556767 7888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      +++|||++++.++..+..|+..+........|+++|+||.|+... .+..+.+..+++ .+++++++|||++|.||+++|
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~-~~~~~~~e~Sak~g~gi~e~f  161 (170)
T d2g6ba1          83 LLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAK-EYGLPFMETSAKTGLNVDLAF  161 (170)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHH-HHTCCEEECCTTTCTTHHHHH
T ss_pred             eEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHH-HcCCEEEEEeCCCCcCHHHHH
Confidence            999999999999999999998888877778999999999998877 777788888888 567899999999999999999


Q ss_pred             HHHHHHHH
Q psy549          204 KELLAQAK  211 (253)
Q Consensus       204 ~~l~~~~~  211 (253)
                      ++|++.+.
T Consensus       162 ~~l~~~i~  169 (170)
T d2g6ba1         162 TAIAKELK  169 (170)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHcC
Confidence            99998874

>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=99.98  E-value=1e-31  Score=203.20  Aligned_cols=160  Identities=25%  Similarity=0.374  Sum_probs=143.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+||+|+|++|||||||+++|+++.+...+.+|.+ +.....+.. ++..+.+.+||++|++++..++..++..+|++++
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~-~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTI-NEHTVKFEIWDTAGQERFASLAPMYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEE-TTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeecccccc-ccccccccccccCCchhHHHHHHHHHhccceEEE
Confidence            58999999999999999999999999888887776 555667777 8889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc----cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK----DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      |||++++.+|..+..|+..+........|+++|+||+|+.+.    .+..+.++.+++ ..++++++|||++|.||+++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~-~~~~~~~e~Sak~g~gV~e~F  160 (170)
T d1ek0a_          82 VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAE-EKGLLFFETSAKTGENVNDVF  160 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHH-HHTCEEEECCTTTCTTHHHHH
T ss_pred             EEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHH-HcCCEEEEecCCCCcCHHHHH
Confidence            999999999999999998888877788999999999998654    677788888888 567899999999999999999


Q ss_pred             HHHHHHH
Q psy549          204 KELLAQA  210 (253)
Q Consensus       204 ~~l~~~~  210 (253)
                      ..|++.+
T Consensus       161 ~~i~~~i  167 (170)
T d1ek0a_         161 LGIGEKI  167 (170)
T ss_dssp             HHHHTTS
T ss_pred             HHHHHHh
Confidence            9988765

>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=99.98  E-value=6.8e-33  Score=209.79  Aligned_cols=161  Identities=22%  Similarity=0.378  Sum_probs=135.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .+||+++|++|||||||+++|+++.+...+.+|.+ +.....+.. ++..+.+.+||++|++++..++..+++++|++++
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHT-NRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAII   81 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECB-TTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccceecccccccccc-ccccccccccccccccccceecchhcccccchhh
Confidence            47999999999999999999999999888888776 556666666 8888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKELL  207 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  207 (253)
                      |||++++.+|+.+..|+..+.... .++|+++|+||+|+.......+ +..++. ..++++++|||++|.||+++|.+|+
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~-~~~~~~-~~~~~~~e~Sak~~~~v~e~f~~l~  158 (170)
T d1i2ma_          82 MFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKVKAK-SIVFHR-KKNLQYYDISAKSNYNFEKPFLWLA  158 (170)
T ss_dssp             EEETTSGGGGTTHHHHHHHHHHHH-CSCCEEEEEECCCCSCSCCTTT-SHHHHS-SCSSEEEEEBTTTTBTTTHHHHHHH
T ss_pred             ccccccccccchhHHHHHHHhhcc-CCCceeeecchhhhhhhhhhhH-HHHHHH-HcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            999999999999999998877654 6799999999999987644433 345555 6788999999999999999999999


Q ss_pred             HHHHHh
Q psy549          208 AQAKVQ  213 (253)
Q Consensus       208 ~~~~~~  213 (253)
                      +.+...
T Consensus       159 ~~l~~~  164 (170)
T d1i2ma_         159 RKLIGD  164 (170)
T ss_dssp             HHHHTC
T ss_pred             HHHccC
Confidence            988643

>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=99.98  E-value=4.1e-31  Score=200.63  Aligned_cols=165  Identities=24%  Similarity=0.426  Sum_probs=141.4

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeee-eeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELH-RGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADA  124 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~  124 (253)
                      ..+.+||+|+|++|||||||+++|+++.+...+..|..... ...... ++..+.+.+||++|..++...+...+..+|+
T Consensus         3 ~~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~   81 (174)
T d1wmsa_           3 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVTMQIWDTAGQERFRSLRTPFYRGSDC   81 (174)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEE-TTEEEEEEEEECCCCGGGHHHHGGGGTTCSE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeee-cCceeeEeeecccCcceehhhhhhhhhccce
Confidence            34568999999999999999999999999888887776444 444455 7888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhc----CCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          125 FVLVYAVDDASTWDVVKDLREQIVNKR----GLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       125 ~i~v~d~~~~~s~~~~~~~~~~~~~~~----~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      ++++||.+++.+|+.+..|+..+....    ..++|+++|+||+|+.+..+..+.++.+++..+.+++++|||++|.||+
T Consensus        82 ~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~  161 (174)
T d1wmsa_          82 CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVA  161 (174)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHH
T ss_pred             EEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhhccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHH
Confidence            999999999999999999998876642    2468999999999998878888888889886677899999999999999


Q ss_pred             HHHHHHHHHHH
Q psy549          201 QVFKELLAQAK  211 (253)
Q Consensus       201 ~l~~~l~~~~~  211 (253)
                      ++|++|++.+.
T Consensus       162 e~f~~l~~~il  172 (174)
T d1wmsa_         162 AAFEEAVRRVL  172 (174)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999999875

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.1e-30  Score=198.23  Aligned_cols=161  Identities=25%  Similarity=0.338  Sum_probs=136.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      +.+||+++|++|||||||+++|+++.+.. +..+....+...+.+ ++..+.+.+||++|+.++     .+++.+|++|+
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~~~~~~i~v-~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~il   76 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQYKKEMLV-DGQTHLVLIREEAGAPDA-----KFSGWADAVIF   76 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCEEEEEEEEE-TTEEEEEEEEECSSCCCH-----HHHHHCSEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccceeEEEEeec-CceEEEEEEeeccccccc-----ccccccceeEE
Confidence            57999999999999999999999999854 445666667777777 899999999999998865     36788999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc---CCCCCEEEEEecCCCCCc---cccHHHHHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          128 VYAVDDASTWDVVKDLREQIVNKR---GLMVPIVVVGNKCELEFK---DVRREIAETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       128 v~d~~~~~s~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      |||++++.||+.+..|+..+....   ...+|+++|+||.|+...   .+..+.++.++...++++|++|||++|.||++
T Consensus        77 Vfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~  156 (175)
T d2bmja1          77 VFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDR  156 (175)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHH
T ss_pred             EeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHH
Confidence            999999999999999998876643   356899999999997653   56677788886646788999999999999999


Q ss_pred             HHHHHHHHHHHhcc
Q psy549          202 VFKELLAQAKVQYN  215 (253)
Q Consensus       202 l~~~l~~~~~~~~~  215 (253)
                      +|..+++.+....+
T Consensus       157 ~F~~l~~~i~~~~~  170 (175)
T d2bmja1         157 VFQEVAQKVVTLRK  170 (175)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999998877644

>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=99.97  E-value=7.5e-31  Score=199.74  Aligned_cols=164  Identities=24%  Similarity=0.347  Sum_probs=144.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      +.+||+++|++|||||||+++|.++.+...+..+.. ......+.+ ++..+.+.+||++|++++..++..++..+|+++
T Consensus         6 ~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii   84 (177)
T d1x3sa1           6 TTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV-DGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVI   84 (177)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEE-eccccEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            458999999999999999999999998777766665 445556666 788899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      +|||++++.++..+..|+..+.... ....|+++++||.|.....+..+.+..+++ ..++++++|||++|.||+++|++
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~v~~~~~~~~~~-~~~~~~~e~Sa~tg~gv~e~f~~  163 (177)
T d1x3sa1          85 LVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFAR-KHSMLFIEASAKTCDGVQCAFEE  163 (177)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCCSCHHHHHHHHH-HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEECCCccccccchhhhhhhcccccccceeeEEEeeccccccccccHHHHHHHHH-HCCCEEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999998876633 355899999999999888888888888888 67789999999999999999999


Q ss_pred             HHHHHHHh
Q psy549          206 LLAQAKVQ  213 (253)
Q Consensus       206 l~~~~~~~  213 (253)
                      +++.+...
T Consensus       164 l~~~l~~~  171 (177)
T d1x3sa1         164 LVEKIIQT  171 (177)
T ss_dssp             HHHHHHTS
T ss_pred             HHHHHccC
Confidence            99998755

>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=99.97  E-value=8.1e-31  Score=200.75  Aligned_cols=165  Identities=28%  Similarity=0.453  Sum_probs=145.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      +||+|+|.+|||||||+++|+++.+...+.+|.. +.....+.. .+..+.+.+||++|+.++...+..++..+|++++|
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   81 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMV-DDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLV   81 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEES-SSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeee-CCceEEEEeeecCCcccccccccccccCccEEEEe
Confidence            7999999999999999999999999888877765 566666666 77788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc----CCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNKR----GLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~~----~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ||.++..++..+..|+..+....    ...+|+++|+||+|+.+..+..+....++....++++++|||++|.||.++|+
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~  161 (184)
T d1vg8a_          82 FDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQ  161 (184)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHH
T ss_pred             ecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccccchhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHHH
Confidence            99999999999999998877643    23589999999999988888888888887667889999999999999999999


Q ss_pred             HHHHHHHHhcc
Q psy549          205 ELLAQAKVQYN  215 (253)
Q Consensus       205 ~l~~~~~~~~~  215 (253)
                      +|++.+.++..
T Consensus       162 ~l~~~i~~~~~  172 (184)
T d1vg8a_         162 TIARNALKQET  172 (184)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHhccc
Confidence            99998877644

>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=99.97  E-value=7.2e-31  Score=198.92  Aligned_cols=164  Identities=25%  Similarity=0.378  Sum_probs=134.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCC--CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC-hhhHHHhcccCCEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFI--SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF-PAMRELSISTADAF  125 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~-~~~~~~~~~~~d~~  125 (253)
                      -+||+++|++|||||||+++|.+..+.  ...+.+..+.+...+.+ ++..+.+.+||+++.... .-++..+++++|++
T Consensus         3 ~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~d~~~~~g~e~~~~~~~~~~~~~~   81 (172)
T d2g3ya1           3 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMV-DGESATIILLDMWENKGENEWLHDHCMQVGDAY   81 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEE-TTEEEEEEEECCTTTTHHHHHHHHCCCCCCSEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeecc-CCceeeeeeecccccccccccccccccccccee
Confidence            489999999999999999999987653  33333444777788888 888899999998754321 12456678999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                      |+|||++++.+|..+..|+..+... ..+++|+++|+||+|+.+. ++..+.++.++. ..++++++|||++|.||+++|
T Consensus        82 ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~-~~~~~~~e~Sak~g~~i~~~f  160 (172)
T d2g3ya1          82 LIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAV-VFDCKFIETSAAVQHNVKELF  160 (172)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHH-HHTCEEEECBTTTTBSHHHHH
T ss_pred             eeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHH-HcCCeEEEEeCCCCcCHHHHH
Confidence            9999999999999999999888764 3467999999999998776 677888888888 567899999999999999999


Q ss_pred             HHHHHHHHHhc
Q psy549          204 KELLAQAKVQY  214 (253)
Q Consensus       204 ~~l~~~~~~~~  214 (253)
                      ++|++.+..++
T Consensus       161 ~~l~~~i~~rr  171 (172)
T d2g3ya1         161 EGIVRQVRLRR  171 (172)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHcc
Confidence            99999986653

>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=3e-31  Score=203.48  Aligned_cols=165  Identities=19%  Similarity=0.327  Sum_probs=139.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce-eeeeeeEEcC---------CCcEEEEEEEeCCCCCCChhhHHH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE-ELHRGEYELP---------DGAQLTLDILDTSGAYQFPAMREL  117 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~---------~~~~~~~~l~D~~g~~~~~~~~~~  117 (253)
                      ..+||+|+|++|||||||+++|+++.+...+.++.. +.....+.+.         .+..+.+.+||++|+++|..++..
T Consensus         4 ~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~~   83 (186)
T d2f7sa1           4 YLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTA   83 (186)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHH
T ss_pred             EEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHHH
Confidence            458999999999999999999999998777766655 3334444432         223578999999999999999999


Q ss_pred             hcccCCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          118 SISTADAFVLVYAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      +++++|++|+|||++++.+|+.+..|+..+... ....+|+++|+||+|+... .+..+.++.+++ ..++++++|||++
T Consensus        84 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~-~~~~~~~e~Sak~  162 (186)
T d2f7sa1          84 FFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELAD-KYGIPYFETSAAT  162 (186)
T ss_dssp             HHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCCEEEEBTTT
T ss_pred             HHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHH-HcCCEEEEEeCCC
Confidence            999999999999999999999999998876653 3356889999999999766 677888888988 5678999999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy549          196 NYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~~~  213 (253)
                      |.||+++|++|++.+.++
T Consensus       163 ~~~i~e~f~~l~~~i~~k  180 (186)
T d2f7sa1         163 GQNVEKAVETLLDLIMKR  180 (186)
T ss_dssp             TBTHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHH
Confidence            999999999999988665

>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=99.97  E-value=1e-29  Score=191.08  Aligned_cols=157  Identities=25%  Similarity=0.425  Sum_probs=134.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeee-eeeEEcCCCcEEEEEEEeCCCCCCChh-hHHHhcccCCEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELH-RGEYELPDGAQLTLDILDTSGAYQFPA-MRELSISTADAFV  126 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~l~D~~g~~~~~~-~~~~~~~~~d~~i  126 (253)
                      .+||+++|++|||||||+++|+++.+...+..+..... .....+ +.....+.+||++|...+.. .+..+++++|++|
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i   80 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI-DGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEE-TTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeee-eccceEEEEEeccCchhhccccceeeecCCCceE
Confidence            48999999999999999999999998877777776443 455556 77788899999999887654 4667899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCC---CCCHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVNKR-GLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKE---NYNIVQ  201 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~~i~~  201 (253)
                      +|||++++++|+.+..|+..+.... ..++|+++|+||+|+.+. ++..+.++.+++ .+++++++|||++   +.||++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~-~~~~~~~e~SAkt~~~~~~V~e  159 (165)
T d1z06a1          81 FVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFAD-THSMPLFETSAKNPNDNDHVEA  159 (165)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-HTTCCEEECCSSSGGGGSCHHH
T ss_pred             EEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHH-HCCCEEEEEecccCCcCcCHHH
Confidence            9999999999999999999887753 457999999999999776 688888999998 6788999999987   559999


Q ss_pred             HHHHHH
Q psy549          202 VFKELL  207 (253)
Q Consensus       202 l~~~l~  207 (253)
                      +|.+|+
T Consensus       160 ~F~~lA  165 (165)
T d1z06a1         160 IFMTLA  165 (165)
T ss_dssp             HHHHHC
T ss_pred             HHHHhC
Confidence            999874

>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=99.96  E-value=2.3e-28  Score=183.56  Aligned_cols=158  Identities=21%  Similarity=0.259  Sum_probs=128.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      ++||+|+|++|||||||+++|.++.+...+.+|... ....+.. +  .+.+.+||++|++.+...+..++..++++++|
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~-~~~~~~~-~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   77 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGF-NMRKITK-G--NVTIKLWDIGGQPRFRSMWERYCRGVSAIVYM   77 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSE-EEEEEEE-T--TEEEEEEEECCSHHHHTTHHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCccccccee-eeeeeee-e--eEEEEEeeccccccccccccccccccchhhcc
Confidence            689999999999999999999999987777666542 2233444 2  37899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVNK-RGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ||+++..+|.....|+..+... ...++|+++|+||.|+.+.....+..+.+...   ....+++++||++|.|++++|+
T Consensus        78 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~~~  157 (164)
T d1zd9a1          78 VDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQ  157 (164)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHH
T ss_pred             cccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhhHHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHHHH
Confidence            9999999999988887776653 34679999999999998765445555554431   2356789999999999999999


Q ss_pred             HHHHHH
Q psy549          205 ELLAQA  210 (253)
Q Consensus       205 ~l~~~~  210 (253)
                      +|++.+
T Consensus       158 ~l~~~~  163 (164)
T d1zd9a1         158 WLIQHS  163 (164)
T ss_dssp             HHHHTC
T ss_pred             HHHHcc
Confidence            998754

>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=99.96  E-value=2.8e-28  Score=185.08  Aligned_cols=159  Identities=16%  Similarity=0.245  Sum_probs=124.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....+||+++|++|||||||+++|.++.+....+.  .......+..   ..+.+.+||++|++.+...+..+++.+|++
T Consensus        13 ~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~~~~--~~~~~~~i~~---~~~~~~i~d~~g~~~~~~~~~~~~~~~~~i   87 (176)
T d1fzqa_          13 PDQEVRILLLGLDNAGKTTLLKQLASEDISHITPT--QGFNIKSVQS---QGFKLNVWDIGGQRKIRPYWRSYFENTDIL   87 (176)
T ss_dssp             CSSCEEEEEEESTTSSHHHHHHHHCCSCCEEEEEE--TTEEEEEEEE---TTEEEEEEECSSCGGGHHHHHHHHTTCSEE
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHhcCCCCcceee--eeeeEEEecc---CCeeEeEeeccccccchhHHHHHhhcccee
Confidence            34679999999999999999999999887432221  1222333433   347889999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCcEEEeccCCCCCHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      ++|||+++..++.....|+..+.. ....++|+++|+||+|+.+........+.+..   ....+++++|||++|.|+++
T Consensus        88 i~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv~e  167 (176)
T d1fzqa_          88 IYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQD  167 (176)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHH
T ss_pred             EEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccccHHHHHHHHHHHHHHhcCCEEEEEeCCCCCCHHH
Confidence            999999999999998887766655 33356899999999999876444444444332   13456799999999999999


Q ss_pred             HHHHHHHH
Q psy549          202 VFKELLAQ  209 (253)
Q Consensus       202 l~~~l~~~  209 (253)
                      +|+||++.
T Consensus       168 ~~~~l~~~  175 (176)
T d1fzqa_         168 GMNWVCKN  175 (176)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHhc
Confidence            99999875

>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=99.95  E-value=4.3e-28  Score=182.15  Aligned_cols=159  Identities=17%  Similarity=0.217  Sum_probs=124.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+|+|++|||||||+++|.+..+.. ..+|.. .....+..   ..+.+.+||++|++.++..+..+++.++++++|
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~~~-~~~t~~-~~~~~~~~---~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   76 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDVDT-ISPTLG-FNIKTLEH---RGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWV   76 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCCSS-CCCCSS-EEEEEEEE---TTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCCCc-ccceEe-eeeeeccc---cccceeeeecCcchhhhhHHHhhhhhhhcceee
Confidence            5899999999999999999999877642 333332 23333333   347899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHHHH
Q psy549          129 YAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       129 ~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      ||+++..++.....++..... ....++|+++|+||+|+.+.....+....+...   ...+++++|||++|.||.++|+
T Consensus        77 ~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~  156 (165)
T d1ksha_          77 VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGID  156 (165)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHH
T ss_pred             eecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCHHHHHHHHHhhhhhcCCCEEEEEECCCCCCHHHHHH
Confidence            999999999887776665544 334679999999999998764444444443321   2346789999999999999999


Q ss_pred             HHHHHHHH
Q psy549          205 ELLAQAKV  212 (253)
Q Consensus       205 ~l~~~~~~  212 (253)
                      ||++.+..
T Consensus       157 ~l~~~i~~  164 (165)
T d1ksha_         157 WLLDDISS  164 (165)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHc
Confidence            99998754

>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=99.95  E-value=4.4e-28  Score=183.55  Aligned_cols=159  Identities=15%  Similarity=0.206  Sum_probs=125.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      +..+||+++|++|||||||+++|.++.+....+ | ..........   ..+.+.+||++|++.+...+..+++.+++++
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~~~~~~~~-t-~~~~~~~~~~---~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii   84 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLGQSVTTIP-T-VGFNVETVTY---KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLI   84 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCCCCEEEEE-E-TTEEEEEEEE---TTEEEEEEEESCCGGGHHHHGGGTTTCCEEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCCccc-e-eeeeEEEeec---cceeeEEecCCCcchhhhHHHhhhcccceEE
Confidence            356999999999999999999999887643322 2 2222222322   3478899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|+|+++..++..+..|+..... .....+|+++|+||+|+.+.....++...+...   ...+++++|||++|.||.|+
T Consensus        85 ~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~  164 (173)
T d1e0sa_          85 FVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEG  164 (173)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHH
T ss_pred             EEEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccccccHHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHH
Confidence            99999999999998888776655 334679999999999998765555555554321   23557899999999999999


Q ss_pred             HHHHHHHH
Q psy549          203 FKELLAQA  210 (253)
Q Consensus       203 ~~~l~~~~  210 (253)
                      |++|.+.+
T Consensus       165 ~~~l~~~~  172 (173)
T d1e0sa_         165 LTWLTSNY  172 (173)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhc
Confidence            99998764

>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=99.95  E-value=2.3e-28  Score=186.66  Aligned_cols=163  Identities=15%  Similarity=0.205  Sum_probs=123.2

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      ....+||+++|++|||||||+++|.++.+.... +|. ......+..   ..+.+.+||++|++.+...+..++..+|++
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~~~-~t~-~~~~~~~~~---~~~~~~i~D~~g~~~~~~~~~~~~~~~~~i   88 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQIGEVVTTK-PTI-GFNVETLSY---KNLKLNVWDLGGQTSIRPYWRCYYADTAAV   88 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTCCSEEEEEC-SST-TCCEEEEEE---TTEEEEEEEEC----CCTTGGGTTTTEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCccc-ccc-ceEEEEEee---CCEEEEEEecccccccchhHHhhhccceeE
Confidence            456899999999999999999999887763322 222 222223333   347889999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCcEEEeccCCCCCHHH
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      ++|+|+++..++.....|+..+.. ....++|+++|+||+|+.+.....+..+.+..   ....+++++|||++|.||++
T Consensus        89 i~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv~e  168 (182)
T d1moza_          89 IFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITE  168 (182)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHH
T ss_pred             EEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccccCHHHHHHHHHHHHHhhCCCEEEEEECCCCCCHHH
Confidence            999999999999988888766554 33356999999999999875444444444432   13356799999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy549          202 VFKELLAQAKVQ  213 (253)
Q Consensus       202 l~~~l~~~~~~~  213 (253)
                      +|++|++.+.+.
T Consensus       169 ~~~~l~~~i~~~  180 (182)
T d1moza_         169 GLDWLIDVIKEE  180 (182)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc
Confidence            999999998664

>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=99.94  E-value=7.5e-27  Score=173.90  Aligned_cols=156  Identities=12%  Similarity=0.160  Sum_probs=123.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEE
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVY  129 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~  129 (253)
                      +||+|+|++|||||||+++|.++++......+.    ...... +...+.+.+||++|...+...+..++..+++++++|
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~----~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   75 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIG----FNVETV-EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSS----CCEEEE-ECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcccccee----eEEEEE-eeeeEEEEEecCCCcccchhhhhhhhccceeEEEEE
Confidence            589999999999999999999988754433322    222233 445678999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCcEEEeccCCCCCHHHHHHH
Q psy549          130 AVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCGFVECSAKENYNIVQVFKE  205 (253)
Q Consensus       130 d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~i~~l~~~  205 (253)
                      |..+..++..+..|+..+.. .....+|+++++||.|+.+.....+.......   ...++++++|||++|.||+++|++
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~  155 (160)
T d1r8sa_          76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDW  155 (160)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHH
T ss_pred             EecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHH
Confidence            99999999998888877766 33356899999999998876444444333222   134678999999999999999999


Q ss_pred             HHHHH
Q psy549          206 LLAQA  210 (253)
Q Consensus       206 l~~~~  210 (253)
                      |++++
T Consensus       156 l~~~l  160 (160)
T d1r8sa_         156 LSNQL  160 (160)
T ss_dssp             HHHHC
T ss_pred             HHhcC
Confidence            98763

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.92  E-value=3.8e-24  Score=161.97  Aligned_cols=159  Identities=15%  Similarity=0.212  Sum_probs=119.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..++||+|+|.+|||||||+++|.++++..... + ..........   ..+.+.+||+++.+.+...+...+..+++++
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~~-~-~~~~~~~~~~---~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i   87 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSP-T-IGSNVEEIVI---NNTRFLMWDIGGQESLRSSWNTYYTNTEFVI   87 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEEC-C-SCSSCEEEEE---TTEEEEEEECCC----CGGGHHHHTTCCEEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCcccc-c-cceeEEEEee---cceEEEEeccccccccccchhhhhccceeee
Confidence            466999999999999999999999988743221 1 1222233333   2367899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +|+|.++..++.....+...... ......|+++|+||+|+.......+..+.+...   ...+++++|||++|.|++++
T Consensus        88 ~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~e~  167 (177)
T d1zj6a1          88 VVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQG  167 (177)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHH
T ss_pred             eecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCcHHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHHHH
Confidence            99999999998876655544443 333678999999999998765555555555431   34568999999999999999


Q ss_pred             HHHHHHHH
Q psy549          203 FKELLAQA  210 (253)
Q Consensus       203 ~~~l~~~~  210 (253)
                      |++|++.+
T Consensus       168 ~~~L~~~l  175 (177)
T d1zj6a1         168 LEWMMSRL  175 (177)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99999886

>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=99.91  E-value=1.3e-23  Score=157.31  Aligned_cols=162  Identities=17%  Similarity=0.223  Sum_probs=124.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEE
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFV  126 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i  126 (253)
                      ..++||+|+|++|||||||+++|+++.+....+ + ..........   ..+.+.+||.++.+.+.......+...++++
T Consensus         3 ~ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~~~-~-~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (169)
T d1upta_           3 TREMRILILGLDGAGKTTILYRLQVGEVVTTIP-T-IGFNVETVTY---KNLKFQVWDLGGLTSIRPYWRCYYSNTDAVI   77 (169)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCCCCCC-C-SSEEEEEEEE---TTEEEEEEEECCCGGGGGGGGGGCTTCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhCCCCcceec-c-cceeeeeecc---CceEEEEeeccccccccccchhhhhhhhhhh
Confidence            467999999999999999999999998854332 2 1222222222   2367899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHHh---cCCCcEEEeccCCCCCHHHH
Q psy549          127 LVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIALY---DWQCGFVECSAKENYNIVQV  202 (253)
Q Consensus       127 ~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~l  202 (253)
                      +++|+.+..++.....++..... ......|+++|+||.|+.+.....+....+...   ...+++++|||++|.||+++
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~  157 (169)
T d1upta_          78 YVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEA  157 (169)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHH
T ss_pred             hhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHH
Confidence            99999988887776665444433 344668999999999998875555555544321   34678999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy549          203 FKELLAQAKVQ  213 (253)
Q Consensus       203 ~~~l~~~~~~~  213 (253)
                      |++|++.+..+
T Consensus       158 ~~~l~~~l~~k  168 (169)
T d1upta_         158 MEWLVETLKSR  168 (169)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHhC
Confidence            99999988543

>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=99.91  E-value=1.2e-23  Score=159.57  Aligned_cols=155  Identities=21%  Similarity=0.192  Sum_probs=114.1

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH--------HHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR--------ELS  118 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~--------~~~  118 (253)
                      .-.|+|+|.+|||||||+|+|++.+.  ......++.......... .+  ..+.+|||||........        ...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~-~~--~~~~~~DtpG~~~~~~~~~~~~~~~~~~~   81 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTE-GR--RQIVFVDTPGLHKPMDALGEFMDQEVYEA   81 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE-TT--EEEEEEECCCCCCCCSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeee-ee--eeeeecccccccccccccchhcccccccc
Confidence            34799999999999999999998763  455566666666666655 33  468899999986643332        235


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                      +.++|++++|+|++++....  ..++.........++|+++|+||+|+...  .++..+.+........++++||++|.|
T Consensus        82 ~~~ad~il~v~D~~~~~~~~--~~~i~~~l~~~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~iSA~~~~g  157 (178)
T d1wf3a1          82 LADVNAVVWVVDLRHPPTPE--DELVARALKPLVGKVPILLVGNKLDAAKY--PEEAMKAYHELLPEAEPRMLSALDERQ  157 (178)
T ss_dssp             TSSCSEEEEEEETTSCCCHH--HHHHHHHHGGGTTTSCEEEEEECGGGCSS--HHHHHHHHHHTSTTSEEEECCTTCHHH
T ss_pred             cccccceeeeechhhhhccc--ccchhhheeccccchhhhhhhcccccccC--HHHHHHHHHhhcccCceEEEecCCCCC
Confidence            67899999999998875533  33333334444467899999999998653  234455666645567789999999999


Q ss_pred             HHHHHHHHHHHH
Q psy549          199 IVQVFKELLAQA  210 (253)
Q Consensus       199 i~~l~~~l~~~~  210 (253)
                      +++++++|++.+
T Consensus       158 i~~L~~~i~~~l  169 (178)
T d1wf3a1         158 VAELKADLLALM  169 (178)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhC
Confidence            999999998765

>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=99.89  E-value=3.6e-23  Score=154.21  Aligned_cols=150  Identities=21%  Similarity=0.254  Sum_probs=113.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhh--------HHHhc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAM--------RELSI  119 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~--------~~~~~  119 (253)
                      +||+++|++|||||||+|+|++...  ....+.++.+.....+.. .+  ..+.+||++|..+....        ...++
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~   78 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHI-DG--MPLHIIDTAGLREASDEVERIGIERAWQEI   78 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEE-TT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeec-cC--ceeeeccccccccccccchhHHHHHHHHHH
Confidence            7999999999999999999998764  455556666666666666 33  46789999997664322        22357


Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      ..+|++++++|..+..++.....|...+.. ....+|+++|+||+|+......      +.+ ....+++++||++|.||
T Consensus        79 ~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~-~~~~~~iilv~NK~Dl~~~~~~------~~~-~~~~~~~~iSAk~~~gi  150 (161)
T d2gj8a1          79 EQADRVLFMVDGTTTDAVDPAEIWPEFIAR-LPAKLPITVVRNKADITGETLG------MSE-VNGHALIRLSARTGEGV  150 (161)
T ss_dssp             HTCSEEEEEEETTTCCCCSHHHHCHHHHHH-SCTTCCEEEEEECHHHHCCCCE------EEE-ETTEEEEECCTTTCTTH
T ss_pred             Hhccccceeeccccccchhhhhhhhhhhhh-cccccceeeccchhhhhhhHHH------HHH-hCCCcEEEEECCCCCCH
Confidence            889999999999998877666655544443 4467999999999998665221      111 45678999999999999


Q ss_pred             HHHHHHHHHHH
Q psy549          200 VQVFKELLAQA  210 (253)
Q Consensus       200 ~~l~~~l~~~~  210 (253)
                      ++++++|++.+
T Consensus       151 ~~L~~~l~~~l  161 (161)
T d2gj8a1         151 DVLRNHLKQSM  161 (161)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhhC
Confidence            99999998753

>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=99.89  E-value=7.6e-24  Score=162.52  Aligned_cols=157  Identities=17%  Similarity=0.095  Sum_probs=114.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .++||+++|+.|||||||+++|..+.++....        ....+ +...+.+++||++|++.+...+..+++.++++++
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~t~~~--------~~~~~-~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~   71 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEAGTGI--------VETHF-TFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIF   71 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSCCCSE--------EEEEE-EETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCCccE--------EEEEE-EeeeeeeeeeccccccccccchhhcccCCceeee
Confidence            36899999999999999999999877753321        12223 3345789999999999999999999999999999


Q ss_pred             EEECCChhhH-----------HHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-----------------cccHH----H
Q psy549          128 VYAVDDASTW-----------DVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-----------------DVRRE----I  175 (253)
Q Consensus       128 v~d~~~~~s~-----------~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-----------------~~~~~----~  175 (253)
                      |+|.++..++           +....|...+........|+++++||+|+...                 ....+    .
T Consensus        72 v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (195)
T d1svsa1          72 CVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYI  151 (195)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHH
T ss_pred             EEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHH
Confidence            9999987765           22333444444455567899999999996321                 01111    1


Q ss_pred             HHHHHHh-----cCCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          176 AETIALY-----DWQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       176 ~~~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                      ...+...     ...+.+++|||+++.||+++|+.+.+.+.++
T Consensus       152 ~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         152 QCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             HHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHhc
Confidence            2222221     1234678899999999999999999888665

>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=99.89  E-value=2.4e-22  Score=149.50  Aligned_cols=153  Identities=17%  Similarity=0.278  Sum_probs=117.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYA  130 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d  130 (253)
                      ||+++|++|||||||+++|.++.+.. ..+|. ........+   ..+.+.+||+++...+......++..++++++++|
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~-~~~t~-~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d   76 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLAT-LQPTW-HPTSEELAI---GNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVD   76 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCC-CCCCC-SCEEEEECC---TTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCe-eecee-eEeEEEecc---CCeeEEEEeeccchhhhhhHhhhhhheeeeeeecc
Confidence            89999999999999999999988743 22222 233333333   23467899999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHHh----------cCCCcEEEeccCCCCCH
Q psy549          131 VDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIALY----------DWQCGFVECSAKENYNI  199 (253)
Q Consensus       131 ~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~----------~~~~~~~~~Sa~~~~~i  199 (253)
                      .++..++.....|+..... ....+.|+++++||.|+.......+..+.+...          ...+++++|||++|.||
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gv  156 (166)
T d2qtvb1          77 AADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGY  156 (166)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCCCHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTBSH
T ss_pred             ccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccCCHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCCCH
Confidence            9999998887777666555 344668999999999998754444444443221          22356899999999999


Q ss_pred             HHHHHHHHH
Q psy549          200 VQVFKELLA  208 (253)
Q Consensus       200 ~~l~~~l~~  208 (253)
                      +|+|+||.+
T Consensus       157 ~e~~~~l~~  165 (166)
T d2qtvb1         157 LEAFQWLSQ  165 (166)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHhC
Confidence            999999864

>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=99.88  E-value=3.2e-22  Score=151.88  Aligned_cols=160  Identities=17%  Similarity=0.222  Sum_probs=112.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAF  125 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~  125 (253)
                      .+...||+++|++|||||||+++|.++.+....+..  ......+.+ ++  ..+.+||+.+...+...+...+...+++
T Consensus        10 ~~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~~~~~--~~~~~~~~~-~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (186)
T d1f6ba_          10 YKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTL--HPTSEELTI-AG--MTFTTFDLGGHIQARRVWKNYLPAINGI   84 (186)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHHSCC------CCC--CCSCEEEEE-TT--EEEEEEEECC----CCGGGGGGGGCSEE
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCCCcceeccc--ccceeEEEe-cc--cccccccccchhhhhhHHhhhhccccee
Confidence            356789999999999999999999998875433222  222233444 33  4678999999999998899999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCccccHHHHHHHHH---------------hcCCCcEE
Q psy549          126 VLVYAVDDASTWDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFKDVRREIAETIAL---------------YDWQCGFV  189 (253)
Q Consensus       126 i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---------------~~~~~~~~  189 (253)
                      ++++|+.+...+.....++..... ....+.|+++++||.|+.......++.+.+..               ....++++
T Consensus        85 ~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (186)
T d1f6ba_          85 VFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVF  164 (186)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEE
T ss_pred             eeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccccCCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEEE
Confidence            999999999888776554443333 44467999999999998875444444433321               11234689


Q ss_pred             EeccCCCCCHHHHHHHHHHHH
Q psy549          190 ECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       190 ~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      +|||++|.||+|+|+||++.+
T Consensus       165 ~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         165 MCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             ECBTTTTBSHHHHHHHHHTTC
T ss_pred             EEeCCCCCCHHHHHHHHHHhh
Confidence            999999999999999998754

>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=99.88  E-value=7.2e-22  Score=149.86  Aligned_cols=157  Identities=19%  Similarity=0.190  Sum_probs=105.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC-------hhhHHHhcccC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF-------PAMRELSISTA  122 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~-------~~~~~~~~~~~  122 (253)
                      .|+|+|.+|||||||+|+|++... ......++............+  ..+++|||||....       .......+..+
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~   80 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEE--ERFTLADIPGIIEGASEGKGLGLEFLRHIART   80 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSSS--CEEEEEECCCCCCCGGGSCCSCHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeeecCC--CeEEEcCCCeeecCchHHHHHHHHHHHHHHhh
Confidence            599999999999999999997654 222233333333333333233  36789999995432       22233457789


Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHHh--cCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHH
Q psy549          123 DAFVLVYAVDDASTWDVVKDLREQIVNK--RGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNIV  200 (253)
Q Consensus       123 d~~i~v~d~~~~~s~~~~~~~~~~~~~~--~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  200 (253)
                      +++++++|..... +.....+...+...  ...++|+++|+||+|+.......+..+.+.  ..+.+++++||++|.|++
T Consensus        81 ~~~~~~~d~~~~~-~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~~~~~~~~~~~~--~~~~~~~~iSA~tg~gid  157 (180)
T d1udxa2          81 RVLLYVLDAADEP-LKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEEAVKALADALA--REGLAVLPVSALTGAGLP  157 (180)
T ss_dssp             SEEEEEEETTSCH-HHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHHHHHHHHHHHH--TTTSCEEECCTTTCTTHH
T ss_pred             hhhhhhccccccc-ccchhhhhhhhhccccccchhhhhhhhhhhhhhhHHHHHHHHHHHH--hcCCeEEEEEcCCCCCHH
Confidence            9999999986542 23333333332221  113479999999999987654444455554  357899999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy549          201 QVFKELLAQAKV  212 (253)
Q Consensus       201 ~l~~~l~~~~~~  212 (253)
                      ++++.|.+.+..
T Consensus       158 ~L~~~i~~~l~~  169 (180)
T d1udxa2         158 ALKEALHALVRS  169 (180)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhh
Confidence            999999888743

>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=99.87  E-value=6.2e-23  Score=157.95  Aligned_cols=160  Identities=14%  Similarity=0.059  Sum_probs=119.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      .++||+++|+.|||||||+++|..+.+.  +.+|.+. ....+..   ..+.+++||++|++.+...+..+++.++++++
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~~--~~pTiG~-~~~~~~~---~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   74 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHGS--GVPTTGI-IEYPFDL---QSVIFRMVDVGGQRSERRKWIHCFENVTSIMF   74 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTSS--CCCCCSC-EEEEEEC---SSCEEEEEECCCSTTGGGGGGGGCSSCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCCC--CCceeeE-EEEEEec---cceeeeeccccccccccccccccccccceeeE
Confidence            3689999999999999999999988763  4455542 2223333   34688999999999999999999999999999


Q ss_pred             EEECCChh-----------hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc-----------------ccHHHHH--
Q psy549          128 VYAVDDAS-----------TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-----------------VRREIAE--  177 (253)
Q Consensus       128 v~d~~~~~-----------s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-----------------~~~~~~~--  177 (253)
                      ++|.++..           .++....|...+......+.|+++++||.|+....                 .......  
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (200)
T d2bcjq2          75 LVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREF  154 (200)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHH
T ss_pred             eeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHH
Confidence            99998753           35556677777766666789999999999974321                 1111111  


Q ss_pred             ---HHHH----hcCCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          178 ---TIAL----YDWQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       178 ---~~~~----~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                         .+..    ....+.+++|||++|.||.++|+.+.+.+.++
T Consensus       155 i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         155 ILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             HHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence               1111    12234578999999999999999999888765

>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=99.87  E-value=1.2e-21  Score=145.60  Aligned_cols=148  Identities=22%  Similarity=0.274  Sum_probs=108.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC--------C-hhhHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ--------F-PAMRELS  118 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~--------~-~~~~~~~  118 (253)
                      +||+|+|.+|||||||+|+|++..  .....+.++.......+.. ++  +.+.+||+||...        + .......
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~   77 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVI-RG--ILFRIVDTAGVRSETNDLVERLGIERTLQE   77 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEE-TT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEe-CC--eeEEeccccccccCCccHHHHHHHHHHHHH
Confidence            589999999999999999999865  3455556666666666666 43  5678999999432        1 1223335


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCC
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYN  198 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  198 (253)
                      +..+|++++|+|++++........+. .+     ...++++++||.|+.+.....+....+   ....+++++||++|.|
T Consensus        78 ~~~ad~ii~v~d~~~~~~~~~~~~~~-~~-----~~~~~i~~~~k~d~~~~~~~~~~~~~~---~~~~~~~~vSA~~g~g  148 (160)
T d1xzpa2          78 IEKADIVLFVLDASSPLDEEDRKILE-RI-----KNKRYLVVINKVDVVEKINEEEIKNKL---GTDRHMVKISALKGEG  148 (160)
T ss_dssp             HHHCSEEEEEEETTSCCCHHHHHHHH-HH-----TTSSEEEEEEECSSCCCCCHHHHHHHH---TCSTTEEEEEGGGTCC
T ss_pred             HHhCCEEEEEEeCCCCcchhhhhhhh-hc-----ccccceeeeeeccccchhhhHHHHHHh---CCCCcEEEEECCCCCC
Confidence            77899999999999987655433222 11     447899999999998765544444433   4567899999999999


Q ss_pred             HHHHHHHHHHH
Q psy549          199 IVQVFKELLAQ  209 (253)
Q Consensus       199 i~~l~~~l~~~  209 (253)
                      |++|+++|.+.
T Consensus       149 i~~L~~~I~ke  159 (160)
T d1xzpa2         149 LEKLEESIYRE  159 (160)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            99999998763

>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=99.87  E-value=9.2e-22  Score=148.03  Aligned_cols=155  Identities=18%  Similarity=0.218  Sum_probs=103.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC---------hhhHHHhc
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF---------PAMRELSI  119 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~---------~~~~~~~~  119 (253)
                      .|+|+|++|||||||+|+|++...  ......++.......+.. .  ...+.+||++|....         ......++
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~-~--~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   78 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEW-Y--GKTFKLVDTCGVFDNPQDIISQKMKEVTLNMI   78 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEE-T--TEEEEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccc-c--ccccccccccceeeeecccccccccccccccc
Confidence            699999999999999999998663  455666666655555555 2  356889999995332         22223356


Q ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCCCCH
Q psy549          120 STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKENYNI  199 (253)
Q Consensus       120 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  199 (253)
                      ..+|+++++.+.++...... ..++..+..   .++|+++|+||+|+... ...+....+.. .....++++||++|.|+
T Consensus        79 ~~ad~i~~~~~~~~~~~~~~-~~~~~~l~~---~~~pviiv~NK~Dl~~~-~~~~~~~~~~~-~~~~~~i~iSAk~g~gi  152 (171)
T d1mkya1          79 READLVLFVVDGKRGITKED-ESLADFLRK---STVDTILVANKAENLRE-FEREVKPELYS-LGFGEPIPVSAEHNINL  152 (171)
T ss_dssp             TTCSEEEEEEETTTCCCHHH-HHHHHHHHH---HTCCEEEEEESCCSHHH-HHHHTHHHHGG-GSSCSCEECBTTTTBSH
T ss_pred             ccCcEEEEeecccccccccc-ccccccccc---ccccccccchhhhhhhh-hhhHHHHHHHh-cCCCCeEEEecCCCCCH
Confidence            78999999999887655433 344444443   34799999999998653 22333334443 34456789999999999


Q ss_pred             HHHHHHHHHHHHHhc
Q psy549          200 VQVFKELLAQAKVQY  214 (253)
Q Consensus       200 ~~l~~~l~~~~~~~~  214 (253)
                      ++++++|++.+.+..
T Consensus       153 d~L~~~i~~~l~e~~  167 (171)
T d1mkya1         153 DTMLETIIKKLEEKG  167 (171)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCCCCC
Confidence            999999999987654

>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=99.87  E-value=8.5e-22  Score=149.36  Aligned_cols=159  Identities=13%  Similarity=0.150  Sum_probs=108.5

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCCCCCccccce--------eeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVE--------ELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELS  118 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~--------~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~  118 (253)
                      ...++|+|+|++|+|||||+|+|++.........+..        ......+.. +  ...+.++|++|+..|.......
T Consensus         3 ~k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~-~--~~~~~~~d~~g~~~~~~~~~~~   79 (179)
T d1wb1a4           3 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL-E--NYRITLVDAPGHADLIRAVVSA   79 (179)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE-T--TEEEEECCCSSHHHHHHHHHHH
T ss_pred             CCCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeecccccccccc-C--Cccccccccccccccccchhhh
Confidence            4568999999999999999999997443221111111        111222222 2  2467899999999888888888


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc---cHHHHHHHHHh---cCCCcEEEec
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV---RREIAETIALY---DWQCGFVECS  192 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~---~~~~~~~~~~~---~~~~~~~~~S  192 (253)
                      +..+|++++|+|+.++...+....| ..+..   .++|+++|+||+|+.....   ..+..+.+...   ....+++++|
T Consensus        80 l~~~d~~ilv~d~~~g~~~~~~~~~-~~~~~---~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iS  155 (179)
T d1wb1a4          80 ADIIDLALIVVDAKEGPKTQTGEHM-LILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPIS  155 (179)
T ss_dssp             TTSCCEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECC
T ss_pred             hhhccccccccccccccchhhhhhh-hhhhh---cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEE
Confidence            9999999999999987554433322 22222   4689999999999877522   12222333221   2246899999


Q ss_pred             cCCCCCHHHHHHHHHHHHHH
Q psy549          193 AKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       193 a~~~~~i~~l~~~l~~~~~~  212 (253)
                      |++|.|++++++.|.+.+..
T Consensus       156 A~~g~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         156 AKTGFGVDELKNLIITTLNN  175 (179)
T ss_dssp             TTTCTTHHHHHHHHHHHHHH
T ss_pred             ccCCcCHHHHHHHHHhcCCc
Confidence            99999999999999988854

>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=99.86  E-value=7.5e-21  Score=144.79  Aligned_cols=159  Identities=21%  Similarity=0.175  Sum_probs=107.6

Q ss_pred             CCCCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC------------
Q psy549           45 LQKDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ------------  110 (253)
Q Consensus        45 ~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~------------  110 (253)
                      ..+..+||+|+|++|||||||+|+|++...  ...+..++.......+.+ ++.  .+.++|++|...            
T Consensus         4 ~~~~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~-~~~--~~~~~d~~g~~~~~~~~~~~~~~~   80 (186)
T d1mkya2           4 EITDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFI-DGR--KYVFVDTAGLRRKSRVEPRTVEKY   80 (186)
T ss_dssp             CCCSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEE-TTE--EEEESSCSCC-----------CCS
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeecc-CCc--eeeeeccCCccccccccccccccc
Confidence            345679999999999999999999998764  456666666666666766 443  567888888543            


Q ss_pred             ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc--ccHHHHHHHHHh---cCC
Q psy549          111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD--VRREIAETIALY---DWQ  185 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~---~~~  185 (253)
                      ........++.+|++++|+|++.+..... ..+...+..   .++|+++|+||+|+....  ...+..+.+...   ...
T Consensus        81 ~~~~~~~~~~~~dvii~v~d~~~~~~~~~-~~~~~~~~~---~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  156 (186)
T d1mkya2          81 SNYRVVDSIEKADVVVIVLDATQGITRQD-QRMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDY  156 (186)
T ss_dssp             CCHHHHHHHHHCSEEEEEEETTTCCCHHH-HHHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTT
T ss_pred             hhHHHHHHHhcCCEEEEeecccccchhhH-HHHHHHHHH---cCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCC
Confidence            22344446788999999999987654322 333333333   458999999999986552  222333333332   235


Q ss_pred             CcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          186 CGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       186 ~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      .+++++||++|.|+++++++|.+.+
T Consensus       157 ~~i~~vSa~~g~gv~~L~~~i~~~~  181 (186)
T d1mkya2         157 SPLIFTSADKGWNIDRMIDAMNLAY  181 (186)
T ss_dssp             SCEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999996655

>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=99.84  E-value=2e-20  Score=142.08  Aligned_cols=153  Identities=20%  Similarity=0.163  Sum_probs=98.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCC---------------hhh
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQF---------------PAM  114 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~---------------~~~  114 (253)
                      .|+|+|.+|||||||+|+|++... ...++.+|.+...  +.. .    .+.+|||||....               ...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~~~~--~~~-~----~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~   74 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIE--IEW-K----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   74 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSCEE--EEE-T----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeecccc--ccc-c----cceecccCCceeccccccccccccchhhhhh
Confidence            589999999999999999998765 4455556654322  222 1    3578999995321               112


Q ss_pred             HHHhcccCCEEEEEEECCChhhHHHHHHH-------HHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHh-----
Q psy549          115 RELSISTADAFVLVYAVDDASTWDVVKDL-------REQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALY-----  182 (253)
Q Consensus       115 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~-------~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----  182 (253)
                      ....++.+|++++|+|............+       ...+......++|+++|+||+|+....  +.....+...     
T Consensus        75 ~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~~~p~iiv~NK~D~~~~~--~~~~~~~~~~~~~~~  152 (184)
T d2cxxa1          75 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV--QEVINFLAEKFEVPL  152 (184)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH--HHHHHHHHHHHTCCG
T ss_pred             hhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHcCCCEEEEEeeeehhhhH--HHHHHHHHHHhcccc
Confidence            22346789999999998765332221110       011111122468999999999976541  1122222211     


Q ss_pred             -cCCCcEEEeccCCCCCHHHHHHHHHHHHHH
Q psy549          183 -DWQCGFVECSAKENYNIVQVFKELLAQAKV  212 (253)
Q Consensus       183 -~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  212 (253)
                       .....++++||++|.|+++++++|.+.+.+
T Consensus       153 ~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         153 SEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             GGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence             112348899999999999999999998865

>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=99.84  E-value=4e-20  Score=143.16  Aligned_cols=118  Identities=15%  Similarity=0.180  Sum_probs=87.8

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh-hhHHHhcccCCEEEEEE
Q psy549           51 RVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP-AMRELSISTADAFVLVY  129 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-~~~~~~~~~~d~~i~v~  129 (253)
                      +|+|+|++|||||||+++|+++.+...++.  .......+.+.++..+.+.+||++|++.+. ..+..++..++++++|+
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~~~t--~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~   79 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDTQTS--ITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVV   79 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCBCCC--CSCEEEEEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcccCC--eeEEEEEEEEeeeeeeeeeeeeccccccccchhhhhhhhhccccceEE
Confidence            699999999999999999999887655432  223334455546667789999999998875 45667889999999999


Q ss_pred             ECCChhhH-HHHHHHHHHHHH---hcCCCCCEEEEEecCCCCCcc
Q psy549          130 AVDDASTW-DVVKDLREQIVN---KRGLMVPIVVVGNKCELEFKD  170 (253)
Q Consensus       130 d~~~~~s~-~~~~~~~~~~~~---~~~~~~piilv~nK~Dl~~~~  170 (253)
                      |+++..++ .....++..+..   .....+|+++|+||+|+++..
T Consensus        80 D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~  124 (207)
T d2fh5b1          80 DSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  124 (207)
T ss_dssp             ETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             EcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCC
Confidence            99997664 334444433332   223458999999999998753

>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=99.84  E-value=6.5e-21  Score=145.10  Aligned_cols=157  Identities=20%  Similarity=0.121  Sum_probs=104.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCC----CChh---hHHHhccc
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAY----QFPA---MRELSIST  121 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~----~~~~---~~~~~~~~  121 (253)
                      ..|+|+|++|||||||+|+|++... ..++..++.........+.++.  .+.+|||||..    +...   .....+..
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~~--~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~   79 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGR--SFVMADLPGLIEGAHQGVGLGHQFLRHIER   79 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSSC--EEEEEEHHHHHHHTTCTTTTHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCCc--EEEEecCCCcccCchHHHHHHHHHHHHHHH
Confidence            3799999999999999999998664 3455555555555566665654  46899999942    2111   22234567


Q ss_pred             CCEEEEEEECCChhhHHHH--HHHHHHHHH---hcCCCCCEEEEEecCCCCCccccHHHHHHHHH-hcCCCcEEEeccCC
Q psy549          122 ADAFVLVYAVDDASTWDVV--KDLREQIVN---KRGLMVPIVVVGNKCELEFKDVRREIAETIAL-YDWQCGFVECSAKE  195 (253)
Q Consensus       122 ~d~~i~v~d~~~~~s~~~~--~~~~~~~~~---~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~~Sa~~  195 (253)
                      ++.++++.+..........  ..+......   ....++|+++|+||+|+.....   ..+.+.. ...+.+++.+||++
T Consensus        80 ~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~~---~~~~~~~~~~~~~~v~~iSA~~  156 (185)
T d1lnza2          80 TRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAE---NLEAFKEKLTDDYPVFPISAVT  156 (185)
T ss_dssp             CCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHHH---HHHHHHHHCCSCCCBCCCSSCC
T ss_pred             hhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHHH---HHHHHHHHhccCCcEEEEECCC
Confidence            8888888877654322221  111111112   2224589999999999876422   2222222 24567899999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q psy549          196 NYNIVQVFKELLAQAK  211 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~  211 (253)
                      |.|+++++++|++.+.
T Consensus       157 g~Gi~~L~~~i~~~L~  172 (185)
T d1lnza2         157 REGLRELLFEVANQLE  172 (185)
T ss_dssp             SSTTHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHhhh
Confidence            9999999999998873

>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=99.83  E-value=2.7e-21  Score=148.81  Aligned_cols=158  Identities=16%  Similarity=0.203  Sum_probs=104.3

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEE
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVLV  128 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v  128 (253)
                      .+||+++|++|||||||+++|.   +...+.+|.+ .....+..   ..+.+++||++|++.+...+..+++++++++++
T Consensus         2 ~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG-~~~~~~~~---~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~   74 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR---IIHGQDPTKG-IHEYDFEI---KNVPFKMVDVGGQRSERKRWFECFDSVTSILFL   74 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSS-EEEEEEEE---TTEEEEEEEECC-------CTTSCTTCCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHh---cCCCCCCeee-eEEEEEee---eeeeeeeecccceeeecccccccccccceeEEE
Confidence            5899999999999999999994   3334445554 22233333   457899999999999999999999999999999


Q ss_pred             EECCChhh----------HHHHHHHHHHHHH-hcCCCCCEEEEEecCCCCCc------------------cccHHHHH--
Q psy549          129 YAVDDAST----------WDVVKDLREQIVN-KRGLMVPIVVVGNKCELEFK------------------DVRREIAE--  177 (253)
Q Consensus       129 ~d~~~~~s----------~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~------------------~~~~~~~~--  177 (253)
                      ++.++...          +.....++..+.. ....++|+++|+||+|+...                  .......+  
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (200)
T d1zcba2          75 VSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFL  154 (200)
T ss_dssp             EETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHH
T ss_pred             EEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHH
Confidence            99987532          3333334444433 34467999999999997432                  01112222  


Q ss_pred             --HHHHh-----cCCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          178 --TIALY-----DWQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       178 --~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                        .+...     ...+.+++|||+++.||.++|+.+.+.+.++
T Consensus       155 ~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         155 VECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             HHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence              22211     1134567899999999999999998887654

>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=99.82  E-value=5.7e-20  Score=144.32  Aligned_cols=161  Identities=16%  Similarity=0.151  Sum_probs=104.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCC-CCcccccee----------------eeeeeEEcCCCcEEEEEEEeCCCCCCCh
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRFI-SRYKETVEE----------------LHRGEYELPDGAQLTLDILDTSGAYQFP  112 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~~-~~~~~t~~~----------------~~~~~~~~~~~~~~~~~l~D~~g~~~~~  112 (253)
                      ..|+|+|++++|||||+++|++.... .....++..                .......+ +.....+.++||||+..|.
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~iDtPGh~~f~   84 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSI-RETLPGLFFIDTPGHEAFT   84 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGG-GGTCCEEEEECCCTTSCCT
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceee-cccccccccccccceeccc
Confidence            34999999999999999999864321 111011100                00011112 2233467899999999998


Q ss_pred             hhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcccc------------------HH
Q psy549          113 AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR------------------RE  174 (253)
Q Consensus       113 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~------------------~~  174 (253)
                      ..+...+..+|++|+|+|+.++-...... .+..+..   .++|+++|+||+|+......                  ..
T Consensus        85 ~~~~~~~~~~D~~ilVvda~~g~~~~~~~-~~~~~~~---~~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~  160 (227)
T d1g7sa4          85 TLRKRGGALADLAILIVDINEGFKPQTQE-ALNILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQK  160 (227)
T ss_dssp             TSBCSSSBSCSEEEEEEETTTCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHH
T ss_pred             ccchhcccccceEEEEEecccCcccchhH-HHHHhhc---CCCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHH
Confidence            88888889999999999998865544433 3333333   45899999999998754110                  00


Q ss_pred             -------HHHHHHHh-------------cCCCcEEEeccCCCCCHHHHHHHHHHHHHHhcc
Q psy549          175 -------IAETIALY-------------DWQCGFVECSAKENYNIVQVFKELLAQAKVQYN  215 (253)
Q Consensus       175 -------~~~~~~~~-------------~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~  215 (253)
                             ....+...             ....+++++||++|.|++++++.|.....+...
T Consensus       161 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~~  221 (227)
T d1g7sa4         161 LDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYLR  221 (227)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHHH
Confidence                   01111110             112478999999999999999999887755543

>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=99.82  E-value=1.1e-19  Score=139.44  Aligned_cols=163  Identities=15%  Similarity=0.096  Sum_probs=105.3

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCCCC----cccccee--eeeeeE------------------EcCCCcEEEEE
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFISR----YKETVEE--LHRGEY------------------ELPDGAQLTLD  101 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~----~~~t~~~--~~~~~~------------------~~~~~~~~~~~  101 (253)
                      .++.++|+++|+.++|||||+++|++......    ....+..  +.....                  .........+.
T Consensus         2 ~~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (195)
T d1kk1a3           2 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVS   81 (195)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEE
T ss_pred             CCCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEe
Confidence            35678999999999999999999986332100    0000000  000000                  00012235689


Q ss_pred             EEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHH
Q psy549          102 ILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL  181 (253)
Q Consensus       102 l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~  181 (253)
                      ++|+||+..|.......+..+|++++|.|+.++.........+..+....  ..++++++||+|+.+.....+..+.+..
T Consensus        82 ~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~--~~~iiv~inK~D~~d~~~~~~~~~~~~~  159 (195)
T d1kk1a3          82 FIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG--QKNIIIAQNKIELVDKEKALENYRQIKE  159 (195)
T ss_dssp             EEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHH
T ss_pred             eeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc--CccceeeeecccchhhHHHHHHHHHHHH
Confidence            99999999998888888899999999999998643222233333333322  2467888999998876322222222222


Q ss_pred             h-----cCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          182 Y-----DWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       182 ~-----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      .     ...++++++||++|.|+++|++.+.+.+
T Consensus       160 ~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         160 FIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             HHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HhccccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            1     1246899999999999999999987754

>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=99.81  E-value=2.2e-19  Score=137.71  Aligned_cols=154  Identities=16%  Similarity=0.124  Sum_probs=95.2

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC---CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh----------h
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF---ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP----------A  113 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~---~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~----------~  113 (253)
                      ....+|+|+|.+|||||||+|+|++...   ......++..........      .+.+.|+++.....          .
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~------~~~~~d~~~~~~~~~~~~~~~~~~~   94 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND------ELHFVDVPGYGFAKVSKSEREAWGR   94 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT------TEEEEECCCBCCCSSCHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccccc------cceEEEEEeeccccccccccchhhh
Confidence            3445899999999999999999998653   222222332322222221      24456766633211          1


Q ss_pred             ---hHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHH---hcCCCc
Q psy549          114 ---MRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL---YDWQCG  187 (253)
Q Consensus       114 ---~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~  187 (253)
                         .....+..+|++++|+|+..+..-.. ..+++.+..   .++|+++|+||+|+.......+..+.+.+   .....+
T Consensus        95 ~~~~~~~~~~~~~~vi~viD~~~~~~~~~-~~~~~~l~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~l~~~~~~~  170 (195)
T d1svia_          95 MIETYITTREELKAVVQIVDLRHAPSNDD-VQMYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDE  170 (195)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSE
T ss_pred             HHhhhhccccchhhhhhhhhccccccccc-ccccccccc---ccCcceechhhccccCHHHHHHHHHHHHHHhcccCCCC
Confidence               11123456799999999986543222 334444443   45899999999998765333333333322   246678


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHH
Q psy549          188 FVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       188 ~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ++++||++|.|+++++++|.+.+
T Consensus       171 ~~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         171 LILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHh
Confidence            99999999999999999998876

>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=99.80  E-value=2.9e-19  Score=138.13  Aligned_cols=163  Identities=13%  Similarity=0.100  Sum_probs=104.7

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCCC---CCcc--ccce-eeeeeeEEc---------------------C--CCc
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRFI---SRYK--ETVE-ELHRGEYEL---------------------P--DGA   96 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~---~~~~--~t~~-~~~~~~~~~---------------------~--~~~   96 (253)
                      .++.++|+|+|+.++|||||+++|++..-.   ....  .+.. ......+..                     .  ...
T Consensus         5 ~~p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (205)
T d2qn6a3           5 VQPEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKF   84 (205)
T ss_dssp             CCCCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEE
T ss_pred             CCCCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccc
Confidence            467799999999999999999999863210   0000  0000 000000000                     0  011


Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHH
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIA  176 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~  176 (253)
                      ...+.++|+||+..|.......+..+|++|+|.|+.++.........+..+...  ...|+++++||+|+.+........
T Consensus        85 ~r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~--~i~~iIV~vNK~Dl~~~~~~~~~~  162 (205)
T d2qn6a3          85 LRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII--GVKNLIIVQNKVDVVSKEEALSQY  162 (205)
T ss_dssp             EEEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT--TCCCEEEEEECGGGSCHHHHHHHH
T ss_pred             eEEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc--CCceeeeccccCCCccchHHHHHH
Confidence            236889999999999888888889999999999998863222222222222222  224889999999998763333332


Q ss_pred             HHHHHh-----cCCCcEEEeccCCCCCHHHHHHHHHHHH
Q psy549          177 ETIALY-----DWQCGFVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       177 ~~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ......     ...++++++||++|.||+++++.|...+
T Consensus       163 ~~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~i  201 (205)
T d2qn6a3         163 RQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  201 (205)
T ss_dssp             HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhC
Confidence            322221     1247899999999999999999887764

>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=99.78  E-value=6.1e-19  Score=134.83  Aligned_cols=157  Identities=17%  Similarity=0.143  Sum_probs=103.3

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC-------C---------CCC-ccccceeeeeeeEEcCCCcEEEEEEEeCCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR-------F---------ISR-YKETVEELHRGEYELPDGAQLTLDILDTSGAY  109 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~-------~---------~~~-~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~  109 (253)
                      ++.++|+++|+.++|||||+++|+...       .         ..+ ....  ......+.+ +.....+.++|+||+.
T Consensus         1 kp~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgi--Ti~~~~~~~-~~~~~~~~~iDtPGh~   77 (196)
T d1d2ea3           1 KPHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGI--TINAAHVEY-STAARHYAHTDCPGHA   77 (196)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTE--EEECEEEEE-ECSSCEEEEEECSSHH
T ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCc--cCCcceEEE-EeceeeEEeecCcchH
Confidence            356899999999999999999998410       0         000 0011  112222233 3333578899999999


Q ss_pred             CChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcc-----ccHHHHHHHHHhcC
Q psy549          110 QFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKD-----VRREIAETIALYDW  184 (253)
Q Consensus       110 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-----~~~~~~~~~~~~~~  184 (253)
                      .|.......+..+|++++|+|+.++..-+..+.|.. +...  ...|+++++||+|+..+.     +..+....+.....
T Consensus        78 ~f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~-a~~~--~~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~  154 (196)
T d1d2ea3          78 DYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLL-ARQI--GVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGY  154 (196)
T ss_dssp             HHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHH-HHHT--TCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHH-HHHh--cCCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCC
Confidence            998888888999999999999998755444333332 2222  225889999999987541     11223333333222


Q ss_pred             ---CCcEEEeccCCC----------CCHHHHHHHHHHH
Q psy549          185 ---QCGFVECSAKEN----------YNIVQVFKELLAQ  209 (253)
Q Consensus       185 ---~~~~~~~Sa~~~----------~~i~~l~~~l~~~  209 (253)
                         .+|++++|+++|          .++.++++.+.+.
T Consensus       155 ~~~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~~  192 (196)
T d1d2ea3         155 KGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTY  192 (196)
T ss_dssp             CTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHH
T ss_pred             CcccCEEEEEEccccccccCcccccCCHHHHHHHHHhh
Confidence               378999999988          4788888777554

>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=99.77  E-value=1e-18  Score=136.51  Aligned_cols=158  Identities=17%  Similarity=0.227  Sum_probs=111.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEE
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELSISTADAFVL  127 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~  127 (253)
                      ..+||+++|+.|||||||++++..+.+.    +|.+ .....+.+ +  .+.+++||++|++.++..+..++++++++++
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~~~~~----pTiG-~~~~~~~~-~--~~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~   76 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRILHVV----LTSG-IFETKFQV-D--KVNFHMFDVGGQRDERRKWIQCFNDVTAIIF   76 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHHHHCC----CCCS-CEEEEEEE-T--TEEEEEEECCCSTTTTTGGGGGCTTCSEEEE
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhcCCcC----CCCC-eEEEEEEE-C--cEEEEEEecCccceeccchhhhcccccceEE
Confidence            4689999999999999999999876654    2333 23334445 3  3788999999999999999999999999999


Q ss_pred             EEECCChh-----------hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc-------------------------
Q psy549          128 VYAVDDAS-----------TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV-------------------------  171 (253)
Q Consensus       128 v~d~~~~~-----------s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-------------------------  171 (253)
                      |+|.++..           ..+....|...+......++|++|++||+|+....+                         
T Consensus        77 v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~  156 (221)
T d1azta2          77 VVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATP  156 (221)
T ss_dssp             EEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCC
T ss_pred             EEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccc
Confidence            99998642           222333344433333446799999999999754310                         


Q ss_pred             ------cHH-----HHHHHHHhc-------CCCcEEEeccCCCCCHHHHHHHHHHHHHHh
Q psy549          172 ------RRE-----IAETIALYD-------WQCGFVECSAKENYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       172 ------~~~-----~~~~~~~~~-------~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  213 (253)
                            ...     +...+....       ..+.+++|||.++.+|..+|+.+.+.+...
T Consensus       157 ~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         157 EPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             cCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHHH
Confidence                  011     112222111       123457899999999999999988877654

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.73  E-value=5e-17  Score=122.42  Aligned_cols=153  Identities=16%  Similarity=0.112  Sum_probs=100.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH--HH-------h
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR--EL-------S  118 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~--~~-------~  118 (253)
                      -.|+|+|.+|||||||+|+|++...  ......++.......... +.  ..+..||+++........  ..       .
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~-~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTE-GA--YQAIYVDTPGLHMEEKRAINRLMNKAASSS   82 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEE-TT--EEEEEESSSSCCHHHHHHHHHHHTCCTTSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeec-CC--ceeEeecCCCceecchhhhhhhhhhccccc
Confidence            3589999999999999999998764  333444444444444444 33  245678888865432111  11       2


Q ss_pred             cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-cccHHHHHHHHHhcCCCcEEEeccCCCC
Q psy549          119 ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-DVRREIAETIALYDWQCGFVECSAKENY  197 (253)
Q Consensus       119 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  197 (253)
                      ...+++++++.|..+..  .....+...+..   ...|+++|+||.|+... .......+.+.......+++++||++|.
T Consensus        83 ~~~~~~~l~~~d~~~~~--~~~~~~~~~l~~---~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~  157 (179)
T d1egaa1          83 IGDVELVIFVVEGTRWT--PDDEMVLNKLRE---GKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGL  157 (179)
T ss_dssp             CCCEEEEEEEEETTCCC--HHHHHHHHHHHS---SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTT
T ss_pred             hhhcceeEEEEecCccc--hhHHHHHHHhhh---ccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCCC
Confidence            23466777777766533  222333333332   45789999999997765 3334445555554566789999999999


Q ss_pred             CHHHHHHHHHHHH
Q psy549          198 NIVQVFKELLAQA  210 (253)
Q Consensus       198 ~i~~l~~~l~~~~  210 (253)
                      |+++++++|++.+
T Consensus       158 gi~~L~~~i~~~l  170 (179)
T d1egaa1         158 NVDTIAAIVRKHL  170 (179)
T ss_dssp             THHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHhC
Confidence            9999999988765

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.72  E-value=2.1e-17  Score=127.11  Aligned_cols=142  Identities=19%  Similarity=0.197  Sum_probs=94.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC-----C--CC-----Cc------cccceeeeeeeEEcCCCcEEEEEEEeCCCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR-----F--IS-----RY------KETVEELHRGEYELPDGAQLTLDILDTSGA  108 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~-----~--~~-----~~------~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~  108 (253)
                      ++.++|+++|++++|||||+++|+...     .  ..     +.      ...+.+.....+.. ++  ..+.|+||||+
T Consensus         1 k~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~-~~--~~i~iiDtPGh   77 (204)
T d2c78a3           1 KPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYET-AK--RHYSHVDCPGH   77 (204)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEEC-SS--CEEEEEECCCS
T ss_pred             CCCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEe-CC--eEEEEEeCCCc
Confidence            356899999999999999999997310     0  00     00      02222333444455 43  46789999999


Q ss_pred             CCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCcc-----ccHHHHHHHHHh
Q psy549          109 YQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFKD-----VRREIAETIALY  182 (253)
Q Consensus       109 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~-----~~~~~~~~~~~~  182 (253)
                      ..|.......+..+|++|+|+|+.++...+..+.|... ..   .++| +++++||+|+.+..     ...++...+...
T Consensus        78 ~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~-~~---~gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~  153 (204)
T d2c78a3          78 ADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLA-RQ---VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQY  153 (204)
T ss_dssp             GGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHH-HH---TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHT
T ss_pred             hhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHH-HH---cCCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhc
Confidence            99999998899999999999999998776654544433 33   3455 77789999986542     112222333322


Q ss_pred             c---CCCcEEEeccCC
Q psy549          183 D---WQCGFVECSAKE  195 (253)
Q Consensus       183 ~---~~~~~~~~Sa~~  195 (253)
                      .   ...+++..|+..
T Consensus       154 ~~~~~~i~~i~~sa~~  169 (204)
T d2c78a3         154 EFPGDEVPVIRGSALL  169 (204)
T ss_dssp             TSCTTTSCEEECCHHH
T ss_pred             CCCcccceeeeeechh
Confidence            2   236788888753

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.71  E-value=5e-17  Score=125.39  Aligned_cols=118  Identities=11%  Similarity=0.102  Sum_probs=83.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCCCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhHHHh----cccCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMRELS----ISTAD  123 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~----~~~~d  123 (253)
                      ..++|+|+|++|||||||+|+|+++.+..   .++.......+..   ....+.+||+||++.+...+..+    ...++
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~~---~tt~~~~~~~~~~---~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~   75 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVRP---TVVSQEPLSAADY---DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVK   75 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCC---BCCCSSCEEETTG---GGSSCEEEECCCCGGGTHHHHHHHHHHGGGEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCC---eEEecceEEEEEe---CCeEEEEEecccccchhhHHHHHHHHHhhhcc
Confidence            35699999999999999999999988643   2333444444433   33467899999999876665543    44568


Q ss_pred             EEEEEEECCC-hhhHHHHHHHHH----HHHHhcCCCCCEEEEEecCCCCCccc
Q psy549          124 AFVLVYAVDD-ASTWDVVKDLRE----QIVNKRGLMVPIVVVGNKCELEFKDV  171 (253)
Q Consensus       124 ~~i~v~d~~~-~~s~~~~~~~~~----~~~~~~~~~~piilv~nK~Dl~~~~~  171 (253)
                      .+++++|+.+ ..++.....|+.    .+......++|+++|+||+|+.+...
T Consensus        76 ~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~  128 (209)
T d1nrjb_          76 GLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  128 (209)
T ss_dssp             EEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             ccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccCc
Confidence            8888888664 555555555443    33344556799999999999987633

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.68  E-value=1.1e-16  Score=121.15  Aligned_cols=161  Identities=12%  Similarity=0.056  Sum_probs=86.6

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHhCCCC--CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh-------hh
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLYDRFI--SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP-------AM  114 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-------~~  114 (253)
                      .+....++|+|+|.+|||||||+|+|++.+..  .....++.......... .+ ...+..++..+.....       ..
T Consensus        11 ~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~   88 (188)
T d1puia_          11 LPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVA-DG-KRLVDLPGYGYAEVPEEMKRKWQRA   88 (188)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEE-TT-EEEEECCCCC------CCHHHHHHH
T ss_pred             CCCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecc-cc-cceeeeecccccchhhhhhhhhhhh
Confidence            34567899999999999999999999987642  11222222222222222 22 1222222222211111       11


Q ss_pred             HHH---hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcccc----HHHHHHHHHhcCCCc
Q psy549          115 REL---SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR----REIAETIALYDWQCG  187 (253)
Q Consensus       115 ~~~---~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~  187 (253)
                      ...   .....+.++.+.+......... ..+...+..   ...++++++||+|+.+....    ....+.+.......+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~---~~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (188)
T d1puia_          89 LGEYLEKRQSLQGLVVLMDIRHPLKDLD-QQMIEWAVD---SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQ  164 (188)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHHH---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEE
T ss_pred             hhhhhhhhhheeEEEEeecccccchhHH-HHHHHHhhh---ccccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCCCc
Confidence            111   1223445556666655443322 233333333   45799999999998776222    222333333344568


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHH
Q psy549          188 FVECSAKENYNIVQVFKELLAQA  210 (253)
Q Consensus       188 ~~~~Sa~~~~~i~~l~~~l~~~~  210 (253)
                      ++++||++|.||+++++.|.+.+
T Consensus       165 ~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         165 VETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHh
Confidence            99999999999999999987653

>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=99.67  E-value=3.6e-16  Score=121.44  Aligned_cols=151  Identities=23%  Similarity=0.172  Sum_probs=95.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhC--CCCC----------Cccccce--------------------eeeeeeEEcC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYD--RFIS----------RYKETVE--------------------ELHRGEYELP   93 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~--~~~~----------~~~~t~~--------------------~~~~~~~~~~   93 (253)
                      .++.++|+++|+.++|||||+++|+..  .+..          ....++.                    ........+ 
T Consensus         6 ~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~-   84 (222)
T d1zunb3           6 RKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYF-   84 (222)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEE-
T ss_pred             cCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEE-
Confidence            567889999999999999999999731  1100          0000000                    111111111 


Q ss_pred             CCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCCCc--c
Q psy549           94 DGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELEFK--D  170 (253)
Q Consensus        94 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~--~  170 (253)
                      ......+.++|+||+..|.......+..+|++++|+|+.++..-+..+.+. .+..   .+++ +++++||+|+.+.  .
T Consensus        85 ~~~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~-~~~~---~gv~~iiv~vNK~D~~~~~~~  160 (222)
T d1zunb3          85 STAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSY-IASL---LGIKHIVVAINKMDLNGFDER  160 (222)
T ss_dssp             ECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHH-HHHH---TTCCEEEEEEECTTTTTSCHH
T ss_pred             eccceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHHH-HHHH---cCCCEEEEEEEccccccccce
Confidence            122356889999999999998888899999999999999875544433332 2222   3444 7889999999864  1


Q ss_pred             ccHHH---HHHHHHhc----CCCcEEEeccCCCCCHHH
Q psy549          171 VRREI---AETIALYD----WQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       171 ~~~~~---~~~~~~~~----~~~~~~~~Sa~~~~~i~~  201 (253)
                      ...+.   ...+....    ..++++++||++|.||.+
T Consensus       161 ~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         161 VFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             HHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             ehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            11222   22222211    224789999999998843

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.60  E-value=6.3e-15  Score=117.34  Aligned_cols=112  Identities=17%  Similarity=0.220  Sum_probs=80.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh--CCCC-----------CCcc------ccceeeeeeeEEcCCCcEEEEEEEeCCCCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLY--DRFI-----------SRYK------ETVEELHRGEYELPDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~--~~~~-----------~~~~------~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~  110 (253)
                      .+|+|+|+.++|||||+.+++.  +...           .++.      ..+.......+.+   ...++.|+||||+..
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~---~~~~~n~iDtPG~~d   83 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFW---KDHRINIIDAPGHVD   83 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEE---TTEEEEEECCCSSSS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeecc---CCeEEEEecCCchhh
Confidence            4799999999999999999983  1110           0000      0011122223333   346789999999999


Q ss_pred             ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549          111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      |.......++-+|++|+|+|+.++..-.....|.. ...   .++|.++++||.|...
T Consensus        84 F~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~-a~~---~~lP~i~fINKmDr~~  137 (276)
T d2bv3a2          84 FTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMDKTG  137 (276)
T ss_dssp             CSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHH-HHT---TTCCEEEEEECTTSTT
T ss_pred             hHHHHHHHHHhhhheEEeccccCCcchhHHHHHHH-HHH---cCCCEEEEEecccccc
Confidence            99999999999999999999999876555444433 333   5689999999999754

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=99.59  E-value=1.4e-14  Score=115.09  Aligned_cols=111  Identities=20%  Similarity=0.226  Sum_probs=79.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC--CC-----------CCcc------ccceeeeeeeEEcCCCcEEEEEEEeCCCCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR--FI-----------SRYK------ETVEELHRGEYELPDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~--~~-----------~~~~------~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~  110 (253)
                      -+|+|+|+.++|||||+.+++...  ..           .++.      ..+.......+.+   ...++.++||||+.+
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~---~~~~~n~iDtPGh~d   79 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLF---RGHRVFLLDAPGYGD   79 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEE---TTEEEEEEECCCSGG
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccc---cccceeEEccCchhh
Confidence            379999999999999999997311  10           0000      0011122223333   335789999999999


Q ss_pred             ChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCC
Q psy549          111 FPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELE  167 (253)
Q Consensus       111 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  167 (253)
                      |.......++-+|++|+|+|+.++........|.. ...   .++|.++++||.|..
T Consensus        80 F~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~-~~~---~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          80 FVGEIRGALEAADAALVAVSAEAGVQVGTERAWTV-AER---LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             GHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECGGGC
T ss_pred             hhhhhhhhhcccCceEEEeeccCCccchhHHHHHh-hhh---ccccccccccccccc
Confidence            99999999999999999999998877665555543 333   458999999999964

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.57  E-value=6.3e-15  Score=115.60  Aligned_cols=149  Identities=21%  Similarity=0.236  Sum_probs=96.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHh--CCCC------------------C------------CccccceeeeeeeEEcC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLY--DRFI------------------S------------RYKETVEELHRGEYELP   93 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~--~~~~------------------~------------~~~~t~~~~~~~~~~~~   93 (253)
                      .++.++|+++|+.++|||||+.+|+.  +.+.                  .            .....+.+.....+.+ 
T Consensus         3 ~k~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~-   81 (239)
T d1f60a3           3 EKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFET-   81 (239)
T ss_dssp             CCEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEEC-
T ss_pred             CCCccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEecc-
Confidence            35578999999999999999999973  1110                  0            0001112223333334 


Q ss_pred             CCcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhH-------HHHHHHHHHHHHhcCCCCC-EEEEEecCC
Q psy549           94 DGAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTW-------DVVKDLREQIVNKRGLMVP-IVVVGNKCE  165 (253)
Q Consensus        94 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~-------~~~~~~~~~~~~~~~~~~p-iilv~nK~D  165 (253)
                        ...++.|+|+||+..|...+...+..+|++|+|.|+.+..-.       +...+|+. ...   .++| +++++||+|
T Consensus        82 --~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~-~~~---~gv~~iiv~iNKmD  155 (239)
T d1f60a3          82 --PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALL-AFT---LGVRQLIVAVNKMD  155 (239)
T ss_dssp             --SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHH-HHH---TTCCEEEEEEECGG
T ss_pred             --CCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHH-HHH---cCCCeEEEEEECCC
Confidence              336889999999999999999999999999999999875321       22233322 222   3455 788999999


Q ss_pred             CCCcc------ccHHHHHHHHHhcC---CCcEEEeccCCCCCHHH
Q psy549          166 LEFKD------VRREIAETIALYDW---QCGFVECSAKENYNIVQ  201 (253)
Q Consensus       166 l~~~~------~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~i~~  201 (253)
                      +.+..      ...+....+.....   .++++++|+..|.|+.+
T Consensus       156 ~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         156 SVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             GGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            87641      11222222222222   36789999999988754

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.56  E-value=4.4e-15  Score=117.07  Aligned_cols=152  Identities=20%  Similarity=0.184  Sum_probs=83.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC--CCC------------------------------CccccceeeeeeeEEcCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR--FIS------------------------------RYKETVEELHRGEYELPD   94 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~------------------------------~~~~t~~~~~~~~~~~~~   94 (253)
                      ++.++|+|+|+.++|||||+.+|+...  +..                              .....+.+.....+.+  
T Consensus        22 k~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~--   99 (245)
T d1r5ba3          22 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFET--   99 (245)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEEC--
T ss_pred             CCceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccccc--
Confidence            567899999999999999999996311  100                              0000011111112222  


Q ss_pred             CcEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHH------HHHHHHHHHHHhcCCCC-CEEEEEecCCCC
Q psy549           95 GAQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWD------VVKDLREQIVNKRGLMV-PIVVVGNKCELE  167 (253)
Q Consensus        95 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~------~~~~~~~~~~~~~~~~~-piilv~nK~Dl~  167 (253)
                       ....+.+.|+||+..|..........+|++++|.|+.++..-.      .....+..+..   .++ ++++++||+|+.
T Consensus       100 -~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~---~~i~~iiv~iNKmD~~  175 (245)
T d1r5ba3         100 -EHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLART---QGINHLVVVINKMDEP  175 (245)
T ss_dssp             -SSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHH---TTCSSEEEEEECTTST
T ss_pred             -ccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHH---cCCCeEEEEEEcCCCC
Confidence             2356899999999999999988899999999999998853211      11111222222   334 478999999987


Q ss_pred             CccccHH----HHHHHH----HhcC-----CCcEEEeccCCCCCHHHHHH
Q psy549          168 FKDVRRE----IAETIA----LYDW-----QCGFVECSAKENYNIVQVFK  204 (253)
Q Consensus       168 ~~~~~~~----~~~~~~----~~~~-----~~~~~~~Sa~~~~~i~~l~~  204 (253)
                      .....++    +.+.+.    ....     .++++++||++|.||.++++
T Consensus       176 ~~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         176 SVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             TCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            5432222    222222    2111     35799999999999977543

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.56  E-value=1e-14  Score=113.64  Aligned_cols=151  Identities=23%  Similarity=0.273  Sum_probs=92.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CC------------------------------CCccccceeeeeeeEEcCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FI------------------------------SRYKETVEELHRGEYELPDG   95 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~------------------------------~~~~~t~~~~~~~~~~~~~~   95 (253)
                      +.++|+++|+.++|||||+.+|+...  +.                              ......+.+.....+..   
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~---   78 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFET---   78 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEEC---
T ss_pred             CccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEec---
Confidence            57899999999999999999986311  10                              00001111222222233   


Q ss_pred             cEEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHH---HHHHHHHHHH-hcCCCCCEEEEEecCCCCCccc
Q psy549           96 AQLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDV---VKDLREQIVN-KRGLMVPIVVVGNKCELEFKDV  171 (253)
Q Consensus        96 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~---~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~  171 (253)
                      ....+.|+||||+..|...+...++-+|++|+|+|+.++..-..   ..+..+.+.. ......++++++||+|+.....
T Consensus        79 ~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~~~~~~  158 (224)
T d1jnya3          79 KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPY  158 (224)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTT
T ss_pred             CCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEcccCCCccc
Confidence            23578999999999999999999999999999999998632111   1111111111 1112246888999999875422


Q ss_pred             c--------HHHHHHHHHh---cCCCcEEEeccCCCCCHHH
Q psy549          172 R--------REIAETIALY---DWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       172 ~--------~~~~~~~~~~---~~~~~~~~~Sa~~~~~i~~  201 (253)
                      .        ......+...   ...++++++||..|.|+.+
T Consensus       159 ~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         159 DEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             cHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            2        1112222221   2346789999999998753

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.44  E-value=3.2e-13  Score=113.69  Aligned_cols=155  Identities=18%  Similarity=0.179  Sum_probs=91.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC------CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCChhhH-----H
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF------ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFPAMR-----E  116 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~------~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~-----~  116 (253)
                      ..++|+|+|.+|||||||+|+|++...      ......|+.+...  +..++..  .+.||||||........     .
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~--~~~~~~~--~~~l~DtPG~~~~~~~~~~~~~~  130 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHP--YKHPNIP--NVVFWDLPGIGSTNFPPDTYLEK  130 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEE--EECSSCT--TEEEEECCCGGGSSCCHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeee--eeccCCC--eEEEEeCCCcccccccHHHHHHH
Confidence            458999999999999999999998442      1222233433322  3333333  36799999965432222     2


Q ss_pred             HhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc-------------cccH----HHHHHH
Q psy549          117 LSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK-------------DVRR----EIAETI  179 (253)
Q Consensus       117 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~----~~~~~~  179 (253)
                      ..+..+|++|++.|..-..  .+ ..++..+..   .++|+++|.||+|....             ....    .....+
T Consensus       131 ~~~~~~d~~l~~~~~~~~~--~d-~~l~~~l~~---~~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l  204 (400)
T d1tq4a_         131 MKFYEYDFFIIISATRFKK--ND-IDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTF  204 (400)
T ss_dssp             TTGGGCSEEEEEESSCCCH--HH-HHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHH
T ss_pred             hhhhcceEEEEecCCCCCH--HH-HHHHHHHHH---cCCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHH
Confidence            2356788888887654322  12 233333333   45899999999995311             1111    122333


Q ss_pred             HHhc-CCCcEEEeccCC--CCCHHHHHHHHHHHHHH
Q psy549          180 ALYD-WQCGFVECSAKE--NYNIVQVFKELLAQAKV  212 (253)
Q Consensus       180 ~~~~-~~~~~~~~Sa~~--~~~i~~l~~~l~~~~~~  212 (253)
                      .... ...++|.+|..+  ..++.++.+.+.+.+..
T Consensus       205 ~~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~  240 (400)
T d1tq4a_         205 RENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  240 (400)
T ss_dssp             HHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             HHcCCCCCCEEEecCCcccccCHHHHHHHHHHHhHH
Confidence            3322 234688888765  34889999888777643

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.42  E-value=4.8e-13  Score=109.55  Aligned_cols=117  Identities=15%  Similarity=0.205  Sum_probs=81.8

Q ss_pred             Ccc-eEEEECCCCCCHHHHHHHHHh--CCCCCC------cc---------ccceeeeeeeEEc-------------CCCc
Q psy549           48 DKR-RVVVMGGARVGKSSIISQFLY--DRFISR------YK---------ETVEELHRGEYEL-------------PDGA   96 (253)
Q Consensus        48 ~~~-~I~iiG~~~~GKSsLi~~l~~--~~~~~~------~~---------~t~~~~~~~~~~~-------------~~~~   96 (253)
                      ..+ +|+|+|+.++|||||+.+|+.  +.....      +.         ..+.......+.+             .++.
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~   94 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGN   94 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSS
T ss_pred             ccCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhcccccc
Confidence            345 699999999999999999972  111100      00         0000011111111             1345


Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCC
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEF  168 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  168 (253)
                      .+.+.|+||||+..|.......++.+|++|+|+|+.++...+....|.....    .++|+++|+||+|...
T Consensus        95 ~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~----~~~p~i~viNKiDr~~  162 (341)
T d1n0ua2          95 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRAL  162 (341)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHHH
T ss_pred             ceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHH----cCCCeEEEEECccccc
Confidence            6789999999999999999999999999999999999877766555555433    4589999999999643

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=99.42  E-value=2.6e-13  Score=110.89  Aligned_cols=108  Identities=16%  Similarity=0.176  Sum_probs=64.0

Q ss_pred             EEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHH
Q psy549           99 TLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAET  178 (253)
Q Consensus        99 ~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~  178 (253)
                      .+.|++|.|...-.   ..+...+|.+++|.++...+..+....   .+...     +-++|+||+|+............
T Consensus       148 d~iliEtvG~gq~e---~~i~~~aD~~l~v~~P~~Gd~iq~~k~---gi~e~-----aDi~VvNKaD~~~~~~~~~~~~~  216 (327)
T d2p67a1         148 DVVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIKK---GLMEV-----ADLIVINKDDGDNHTNVAIARHM  216 (327)
T ss_dssp             SEEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCCH---HHHHH-----CSEEEECCCCTTCHHHHHHHHHH
T ss_pred             CeEEEeeccccccc---hhhhhccceEEEEecCCCchhhhhhch---hhhcc-----ccEEEEEeecccchHHHHHHHHH
Confidence            44566666542211   234566999999998776644333222   23332     44889999998875222211121


Q ss_pred             H----H-----HhcCCCcEEEeccCCCCCHHHHHHHHHHHHHHhcccC
Q psy549          179 I----A-----LYDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLS  217 (253)
Q Consensus       179 ~----~-----~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~~~  217 (253)
                      +    .     ...|..+++.|||.+|.|++++++.|.+.........
T Consensus       217 ~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~~l~~sG  264 (327)
T d2p67a1         217 YESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKTALTASG  264 (327)
T ss_dssp             HHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHHHHHhCC
Confidence            1    1     1246678999999999999999999988665544433

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=99.41  E-value=6.3e-13  Score=108.43  Aligned_cols=111  Identities=13%  Similarity=0.127  Sum_probs=69.3

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCcccc-HHHH
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVR-REIA  176 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~-~~~~  176 (253)
                      +.+.|++|.|.-.-...   ....+|.+++|..+..++..+...   .-+..     ++=++|+||+|+.+.... ....
T Consensus       144 ~d~iiiETVG~gq~e~~---~~~~~D~~v~v~~p~~GD~iQ~~k---~gilE-----~aDi~vvNKaD~~~~~~~~~~~~  212 (323)
T d2qm8a1         144 FDVILVETVGVGQSETA---VADLTDFFLVLMLPGAGDELQGIK---KGIFE-----LADMIAVNKADDGDGERRASAAA  212 (323)
T ss_dssp             CCEEEEEECSSSSCHHH---HHTTSSEEEEEECSCC------CC---TTHHH-----HCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEeehhhhhhhhh---hhcccceEEEEeeccchhhhhhhh---hhHhh-----hhheeeEeccccccchHHHHHHH
Confidence            46678888775443222   344599999999998875443322   22222     244999999998765222 2222


Q ss_pred             HHHHH---------hcCCCcEEEeccCCCCCHHHHHHHHHHHHHHhcccChh
Q psy549          177 ETIAL---------YDWQCGFVECSAKENYNIVQVFKELLAQAKVQYNLSPA  219 (253)
Q Consensus       177 ~~~~~---------~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~~~~~~  219 (253)
                      ..+..         ..|..+++.+||+++.|+++++++|.+...........
T Consensus       213 ~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~~~~~G~l  264 (323)
T d2qm8a1         213 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSKLTATGEI  264 (323)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHHHHHTTHH
T ss_pred             HHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHHHHHCChH
Confidence            22221         13678899999999999999999998877655444443

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.40  E-value=1.1e-12  Score=103.88  Aligned_cols=120  Identities=22%  Similarity=0.228  Sum_probs=78.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCCCh----h---hHHH
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQFP----A---MREL  117 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~----~---~~~~  117 (253)
                      ...++|+++|.+|+|||||+|++++...  +....+++.......... ++  ..+.++||||.....    .   ....
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~-~g--~~i~viDTPGl~~~~~~~~~~~~~i~~  106 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSR-AG--FTLNIIDTPGLIEGGYINDMALNIIKS  106 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEE-TT--EEEEEEECCCSEETTEECHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEe-cc--EEEEEEeeecccCCcchHHHHHHHHHH
Confidence            4679999999999999999999999763  345567777777777777 55  467899999964321    1   1111


Q ss_pred             --hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCC--CCCEEEEEecCCCCCc
Q psy549          118 --SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGL--MVPIVVVGNKCELEFK  169 (253)
Q Consensus       118 --~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~piilv~nK~Dl~~~  169 (253)
                        .....+++++|.+++...--......+..+....+.  ..++++|+||+|....
T Consensus       107 ~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~  162 (257)
T d1h65a_         107 FLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPP  162 (257)
T ss_dssp             HTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCG
T ss_pred             HHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCc
Confidence              234578999999887542111112222222222222  2478999999997653

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.36  E-value=8.8e-12  Score=100.76  Aligned_cols=86  Identities=17%  Similarity=0.182  Sum_probs=68.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC--CCCCccccceeeeeeeEEcCCCc--------------EEEEEEEeCCCCCCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR--FISRYKETVEELHRGEYELPDGA--------------QLTLDILDTSGAYQF  111 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~--------------~~~~~l~D~~g~~~~  111 (253)
                      ..++|+|||.|+||||||+|++++..  -+.+|+.||.+...+.+.++|.+              ...++++|+||...-
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~g   88 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKG   88 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccc
Confidence            45899999999999999999999865  36899999998888888876521              356889999984432


Q ss_pred             -------hhhHHHhcccCCEEEEEEECCC
Q psy549          112 -------PAMRELSISTADAFVLVYAVDD  133 (253)
Q Consensus       112 -------~~~~~~~~~~~d~~i~v~d~~~  133 (253)
                             ......-++.+|+++.|+|+.+
T Consensus        89 A~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          89 ASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cccccccHHHHHHHhhccceeEEEEeccC
Confidence                   2234446789999999999865

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=99.33  E-value=2.1e-12  Score=101.22  Aligned_cols=110  Identities=13%  Similarity=0.016  Sum_probs=67.4

Q ss_pred             EEEEEEeCCCCCCChhhHHH---h--cccCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549           98 LTLDILDTSGAYQFPAMREL---S--ISTADAFVLVYAVDD---ASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~---~--~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      ..+.+.|+||+..+......   .  ....+.++++.|+..   +..+...........  .....|.++|+||+|+...
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~--~~~~~~~ivvinK~D~~~~  172 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLID--LRLGATTIPALNKVDLLSE  172 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHH--HHHTSCEEEEECCGGGCCH
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHH--HHhCCCceeeeeccccccH
Confidence            35789999998775433322   1  224568889998754   333222111111111  1135799999999998764


Q ss_pred             ccc----------------------------HHHHHHHHHhcCCCcEEEeccCCCCCHHHHHHHHHHH
Q psy549          170 DVR----------------------------REIAETIALYDWQCGFVECSAKENYNIVQVFKELLAQ  209 (253)
Q Consensus       170 ~~~----------------------------~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~  209 (253)
                      ...                            ...........+.++++++||++|.|++++++.|.+.
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         173 EEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            110                            1111112223467889999999999999999988764

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=99.25  E-value=8.3e-11  Score=94.05  Aligned_cols=84  Identities=20%  Similarity=0.220  Sum_probs=63.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEcCCCc--------------EEEEEEEeCCCCCCChh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYELPDGA--------------QLTLDILDTSGAYQFPA  113 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~--------------~~~~~l~D~~g~~~~~~  113 (253)
                      .++|+|||.|+||||||++++++... ..+|+.||.+...+.+.++|.+              +..++++|+||.-.-.+
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~   81 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGAS   81 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCcc
Confidence            47999999999999999999998775 6789999998888888886532              23588999999766544


Q ss_pred             hH-------HHhcccCCEEEEEEECC
Q psy549          114 MR-------ELSISTADAFVLVYAVD  132 (253)
Q Consensus       114 ~~-------~~~~~~~d~~i~v~d~~  132 (253)
                      ..       ..-++.+|+++.|.|+.
T Consensus        82 ~g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          82 KGEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             cCCCccHHHHHHHHhccceEEEeecc
Confidence            32       23578899999999864

>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=98.98  E-value=5.6e-10  Score=90.86  Aligned_cols=84  Identities=23%  Similarity=0.262  Sum_probs=46.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEE-cCC--------------------CcEEEEEEEeCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYE-LPD--------------------GAQLTLDILDTSG  107 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~-~~~--------------------~~~~~~~l~D~~g  107 (253)
                      ++|+++|.||||||||+|+|++.+. +.+|+.||.+...+... ++|                    .....++++|+||
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            4899999999999999999998664 67888888755544331 111                    1235789999999


Q ss_pred             CCCChh----hHHH---hcccCCEEEEEEECCC
Q psy549          108 AYQFPA----MREL---SISTADAFVLVYAVDD  133 (253)
Q Consensus       108 ~~~~~~----~~~~---~~~~~d~~i~v~d~~~  133 (253)
                      .-...+    +...   .++.+|++++|+|+.+
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTC
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            644322    2222   4568999999999863

>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=98.87  E-value=3e-08  Score=79.57  Aligned_cols=119  Identities=16%  Similarity=0.141  Sum_probs=71.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCC-CCCccccceeeeeeeEEc-----------CC---------------------
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRF-ISRYKETVEELHRGEYEL-----------PD---------------------   94 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~-----------~~---------------------   94 (253)
                      ..++|+|+|..++|||||+|+|++..+ +....++|.......+.-           ++                     
T Consensus        25 ~~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (299)
T d2akab1          25 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  104 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHC
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhh
Confidence            345899999999999999999999885 554444443111111110           00                     


Q ss_pred             -------C----------cEEEEEEEeCCCCCCC-------------hhhHHHhcccCC-EEEEEEECCChhhHHHHHHH
Q psy549           95 -------G----------AQLTLDILDTSGAYQF-------------PAMRELSISTAD-AFVLVYAVDDASTWDVVKDL  143 (253)
Q Consensus        95 -------~----------~~~~~~l~D~~g~~~~-------------~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~  143 (253)
                             .          ....+.|+|+||....             ..+...++...+ ++++|.++.....-.....+
T Consensus       105 ~~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~  184 (299)
T d2akab1         105 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKI  184 (299)
T ss_dssp             SSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHH
T ss_pred             CCCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHH
Confidence                   0          0123689999995321             133344556666 55566766654443333444


Q ss_pred             HHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549          144 REQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus       144 ~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      ...+   .....++++|+||+|....
T Consensus       185 ~~~~---~~~~~r~i~Vltk~D~~~~  207 (299)
T d2akab1         185 AKEV---DPQGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHH---CTTCSSEEEEEECGGGSCT
T ss_pred             HHHh---CcCCCceeeEEeccccccc
Confidence            4433   2244689999999998765

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=98.73  E-value=2.3e-08  Score=80.55  Aligned_cols=33  Identities=24%  Similarity=0.328  Sum_probs=24.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC-CCCcccc
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF-ISRYKET   81 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~-~~~~~~t   81 (253)
                      .++|+|+|..++|||||+|+|++..+ +....++
T Consensus        24 lP~ivVvG~~ssGKSSliNaLlG~~~lP~~~~~~   57 (306)
T d1jwyb_          24 LPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIV   57 (306)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHTSCCCCC-----
T ss_pred             CCeEEEEeCCCCCHHHHHHHHhCCCCCCCCCCcc
Confidence            35899999999999999999999775 4433333

>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=98.48  E-value=6.4e-08  Score=76.67  Aligned_cols=59  Identities=20%  Similarity=0.317  Sum_probs=37.0

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCCC--CCCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDRF--ISRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ  110 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~  110 (253)
                      ....++|+|+|-||||||||+|+|.+...  +...+++|.+....  .. +.   .+.++||||.-.
T Consensus       109 ~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~pG~Tr~~~~i--~~-~~---~~~l~DTPGi~~  169 (273)
T d1puja_         109 KPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQWV--KV-GK---ELELLDTPGILW  169 (273)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHTSCCC------------CCE--EE-TT---TEEEEECCCCCC
T ss_pred             CCCceEEEEEecCccchhhhhhhhhccceEEECCcccccccceEE--EC-CC---CeEEecCCCccc
Confidence            34678999999999999999999999764  55666666654432  23 22   378999999643

>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=98.44  E-value=4.7e-07  Score=68.88  Aligned_cols=87  Identities=22%  Similarity=0.197  Sum_probs=64.8

Q ss_pred             hcccCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCCC
Q psy549          118 SISTADAFVLVYAVDDAS-TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKEN  196 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  196 (253)
                      .+.+.|.+++|+++.+|. +...+.+++.....   .++|.++|+||+|+.+..................+++.+|++++
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~---~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~~~~~~v~~vSa~~~   83 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAEK---NELETVMVINKMDLYDEDDLRKVRELEEIYSGLYPIVKTSAKTG   83 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHHHHHHHHHHHHTTTSCEEECCTTTC
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---cCCCEEEEEeCcccCCHHHHHHHHHhhcccccceeEEEeccccc
Confidence            457899999999988754 45557777766555   56899999999999875443334444444345678999999999


Q ss_pred             CCHHHHHHHHH
Q psy549          197 YNIVQVFKELL  207 (253)
Q Consensus       197 ~~i~~l~~~l~  207 (253)
                      .|++++..++.
T Consensus        84 ~g~~~L~~~l~   94 (225)
T d1u0la2          84 MGIEELKEYLK   94 (225)
T ss_dssp             TTHHHHHHHHS
T ss_pred             hhHhhHHHHhc
Confidence            99999887763

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.21  E-value=6.4e-06  Score=62.75  Aligned_cols=95  Identities=8%  Similarity=0.040  Sum_probs=54.0

Q ss_pred             EEEEeCCCCCCChhhHHHh--------cccCCEEEEEEECCChhhHHHHHH-HHHHHHHhcCCCCCEEEEEecCCCCCcc
Q psy549          100 LDILDTSGAYQFPAMRELS--------ISTADAFVLVYAVDDASTWDVVKD-LREQIVNKRGLMVPIVVVGNKCELEFKD  170 (253)
Q Consensus       100 ~~l~D~~g~~~~~~~~~~~--------~~~~d~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~piilv~nK~Dl~~~~  170 (253)
                      ..++++.|..........+        .-..+.++.|.|+........-.. +...+ ..     .=++|+||+|+... 
T Consensus        92 ~iiIE~sG~~~p~~l~~~~~~~~~~~~~~~l~~vi~vVDa~~~~~~~~~~~~~~~Qi-~~-----AD~ivlNK~Dl~~~-  164 (222)
T d1nija1          92 RLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQV-GY-----ADRILLTKTDVAGE-  164 (222)
T ss_dssp             EEEEEEETTCCHHHHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHCHHHHHHH-HT-----CSEEEEECTTTCSC-
T ss_pred             eeEEeecccchhhHHHHHHHhhhcccccccccchhhhhhhhhhhhhhhhhHHHHHHH-Hh-----CCcccccccccccH-
Confidence            3566777765544433221        113578888999876543221111 12222 22     33788999998763 


Q ss_pred             ccHHHHHHHHHhcCCCcEEEeccCCCCCHHHHH
Q psy549          171 VRREIAETIALYDWQCGFVECSAKENYNIVQVF  203 (253)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  203 (253)
                       .+...+.+...+...++++++ ....++..+|
T Consensus       165 -~~~~~~~l~~lNP~a~Ii~~~-~g~v~~~~ll  195 (222)
T d1nija1         165 -AEKLHERLARINARAPVYTVT-HGDIDLGLLF  195 (222)
T ss_dssp             -THHHHHHHHHHCSSSCEEECC-SSCCCGGGGS
T ss_pred             -HHHHHHHHHHHhCCCeEEEee-CCccCHHHhh
Confidence             345566666667788888765 3334565554

>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=98.11  E-value=1.5e-06  Score=65.99  Aligned_cols=60  Identities=18%  Similarity=0.147  Sum_probs=35.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCCC--CC---ccccce--eeeeeeEEcCCCcEEEEEEEeCCCCCCCh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRFI--SR---YKETVE--ELHRGEYELPDGAQLTLDILDTSGAYQFP  112 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~~--~~---~~~t~~--~~~~~~~~~~~~~~~~~~l~D~~g~~~~~  112 (253)
                      .-..+|+|++|||||||+|+|.++...  ..   ......  .....-+.++++ .   .++||||...+.
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~g-g---~iiDTPG~r~~~  161 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFG-G---YVVDTPGFANLE  161 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTS-C---EEESSCSSTTCC
T ss_pred             CCeEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCC-c---EEEeCCcccccc
Confidence            346799999999999999999875431  11   111111  222333444333 2   489999986653

>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=97.95  E-value=1.6e-05  Score=62.48  Aligned_cols=90  Identities=10%  Similarity=0.007  Sum_probs=66.2

Q ss_pred             HHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHHhcCCCcEEEeccCC
Q psy549          116 ELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIALYDWQCGFVECSAKE  195 (253)
Q Consensus       116 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  195 (253)
                      ...+..+|++|+|.|+-++.+..+  .++..+.    .+.|+++|+||+|+.+........+.+..  .+..++.+|+.+
T Consensus        10 ~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~~----~~Kp~IlVlNK~DLv~~~~~~~w~~~f~~--~~~~~i~isa~~   81 (273)
T d1puja_          10 TEKLKLIDIVYELVDARIPMSSRN--PMIEDIL----KNKPRIMLLNKADKADAAVTQQWKEHFEN--QGIRSLSINSVN   81 (273)
T ss_dssp             HHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC----SSSCEEEEEECGGGSCHHHHHHHHHHHHT--TTCCEEECCTTT
T ss_pred             HHHHHhCCEEEEEEECCCCCCCCC--HHHHHHH----cCCCeEEEEECccCCchHHHHHHHHHHHh--cCCccceeeccc
Confidence            446889999999999998866443  1122221    25799999999999876665666666654  456789999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy549          196 NYNIVQVFKELLAQAKVQ  213 (253)
Q Consensus       196 ~~~i~~l~~~l~~~~~~~  213 (253)
                      +.++.++...+.+.+...
T Consensus        82 ~~~~~~~~~~~~~~l~~~   99 (273)
T d1puja_          82 GQGLNQIVPASKEILQEK   99 (273)
T ss_dssp             CTTGGGHHHHHHHHHHHH
T ss_pred             CCCccccchhhhhhhhhh
Confidence            999888888777766543

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=97.94  E-value=2.3e-06  Score=65.18  Aligned_cols=86  Identities=13%  Similarity=0.135  Sum_probs=61.8

Q ss_pred             hcccCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccccHHHHHHHHH--hcCCCcEEEeccC
Q psy549          118 SISTADAFVLVYAVDDAS-TWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDVRREIAETIAL--YDWQCGFVECSAK  194 (253)
Q Consensus       118 ~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~--~~~~~~~~~~Sa~  194 (253)
                      .+.+.|.+++|+++.++. ++..+.+++.....   .+++.+||+||+|+.++....+..+.+..  ...+.+++.+|++
T Consensus         7 ~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~---~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~Sa~   83 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSSK   83 (231)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCHH
T ss_pred             CccccCEEEEEEECCCCCCCHHHHHHHHHHHHH---cCCCEEEEEecccccccHHHHHHHHHHHHHHhhccccceeeecC
Confidence            457899999999987753 45567776665544   56899999999999876433333333222  1357899999999


Q ss_pred             CCCCHHHHHHHH
Q psy549          195 ENYNIVQVFKEL  206 (253)
Q Consensus       195 ~~~~i~~l~~~l  206 (253)
                      ++.|++++..++
T Consensus        84 ~~~gl~~L~~~l   95 (231)
T d1t9ha2          84 DQDSLADIIPHF   95 (231)
T ss_dssp             HHTTCTTTGGGG
T ss_pred             ChhHHHHHHHhh
Confidence            999998877655

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=97.87  E-value=1.8e-06  Score=65.79  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=20.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      -..+|+|++|||||||+|+|.++.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            356799999999999999999754

>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=97.75  E-value=3.3e-05  Score=57.96  Aligned_cols=92  Identities=11%  Similarity=-0.044  Sum_probs=49.9

Q ss_pred             EEEEEEeCCCCCCChh--h-H---HHh--cccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCc
Q psy549           98 LTLDILDTSGAYQFPA--M-R---ELS--ISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFK  169 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~--~-~---~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  169 (253)
                      +.+.|+||+|...+..  . .   ..+  .-..+-+++|.+++....  .+.........   . -+--+++||.|....
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~--~~~~~~~~~~~---~-~~~~lI~TKlDet~~  168 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQK--AYDLASKFNQA---S-KIGTIIITKMDGTAK  168 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGG--HHHHHHHHHHH---C-TTEEEEEECTTSCSC
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcc--hHHHHhhhhcc---c-CcceEEEecccCCCc
Confidence            4678999999654431  1 1   111  223567888888876543  22222222222   1 133577999996542


Q ss_pred             cccHHHHHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          170 DVRREIAETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                        .-.... +.. ..+.|+..++  +|.++++
T Consensus       169 --~G~~l~-~~~-~~~lPi~~it--~Gq~v~D  194 (211)
T d1j8yf2         169 --GGGALS-AVA-ATGATIKFIG--TGEKIDE  194 (211)
T ss_dssp             --HHHHHH-HHH-TTTCCEEEEE--CSSSTTC
T ss_pred             --ccHHHH-HHH-HHCcCEEEEe--CCCCccc
Confidence              122222 233 5778877776  3666654

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.66  E-value=1.2e-05  Score=58.44  Aligned_cols=22  Identities=18%  Similarity=0.585  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +||+|+|++|+|||||++.+++
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHh
Confidence            4899999999999999999986

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.47  E-value=2.5e-05  Score=56.85  Aligned_cols=22  Identities=27%  Similarity=0.634  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -+|+|+|++|||||||+++|..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999886

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.45  E-value=4.4e-05  Score=55.06  Aligned_cols=25  Identities=16%  Similarity=0.280  Sum_probs=22.4

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...++|+|.|++||||||+.+.|..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            4568999999999999999999875

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.41  E-value=3.7e-05  Score=55.30  Aligned_cols=23  Identities=17%  Similarity=0.341  Sum_probs=20.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..+|+|+|+|||||||++++|..
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999874

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.40  E-value=4.2e-05  Score=54.87  Aligned_cols=22  Identities=9%  Similarity=0.252  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .-|+|+|.+|||||||++++..
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3589999999999999999985

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.38  E-value=6.3e-05  Score=55.52  Aligned_cols=27  Identities=22%  Similarity=0.342  Sum_probs=23.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ....++|+|+|+|||||||+...|...
T Consensus         3 ~~r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           3 SARLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             SSCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcceeEEEECCCCCCHHHHHHHHHHH
Confidence            456789999999999999999998853

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.33  E-value=5.4e-05  Score=55.74  Aligned_cols=24  Identities=21%  Similarity=0.299  Sum_probs=21.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++++|+|+|+|||||||+++.|..
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999998864

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.31  E-value=0.00014  Score=54.40  Aligned_cols=85  Identities=13%  Similarity=-0.004  Sum_probs=46.0

Q ss_pred             EEEEEEeCCCCCCChhhHHH------hcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCCCCCccc
Q psy549           98 LTLDILDTSGAYQFPAMREL------SISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCELEFKDV  171 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~------~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  171 (253)
                      +.+.|+||+|...+......      .....+-+++|.++.....  .+. ....+....   -+--++++|.|....  
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~--~~~-~~~~f~~~~---~~~~~I~TKlDe~~~--  164 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQE--ALS-VARAFDEKV---GVTGLVLTKLDGDAR--  164 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHH--HHH-HHHHHHHHT---CCCEEEEECGGGCSS--
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchh--HHH-HHHHHHhhC---CCCeeEEeecCcccc--
Confidence            46789999996655332222      1235688899999877643  222 222222211   123578999996442  


Q ss_pred             cHHHHHHHHHhcCCCcEEEec
Q psy549          172 RREIAETIALYDWQCGFVECS  192 (253)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~S  192 (253)
                      .-.......  ..+.|+..++
T Consensus       165 ~G~~l~~~~--~~~~Pi~~i~  183 (207)
T d1ls1a2         165 GGAALSARH--VTGKPIYFAG  183 (207)
T ss_dssp             CHHHHHHHH--HHCCCEEEEC
T ss_pred             chHHHHHHH--HHCCCEEEEe
Confidence            222233233  3566766654

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.27  E-value=8.6e-05  Score=54.60  Aligned_cols=24  Identities=21%  Similarity=0.338  Sum_probs=21.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..++|+|+|+|||||||+...|..
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998874

>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=97.27  E-value=0.00034  Score=52.36  Aligned_cols=92  Identities=9%  Similarity=-0.072  Sum_probs=49.8

Q ss_pred             EEEEEEeCCCCCCChhhHHH----h---cc-----cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCC
Q psy549           98 LTLDILDTSGAYQFPAMREL----S---IS-----TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE  165 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~----~---~~-----~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  165 (253)
                      +.+.|+||+|...+......    +   ..     ..+-.++|.+++...  ..+..........    -+--+++||.|
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~--~~~~~~~~~~~~~----~~~~lI~TKlD  167 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQ--NGLVQAKIFKEAV----NVTGIILTKLD  167 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHH--HHHHHHHHHHHHS----CCCEEEEECGG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCc--chhhhhhhhcccc----CCceEEEeccc
Confidence            46789999997665433221    1   11     136788899987653  2333333322221    24467899999


Q ss_pred             CCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          166 LEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       166 l~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      .... . -.......  ..+.|+..++  +|.++++
T Consensus       168 e~~~-~-G~~l~~~~--~~~~Pi~~i~--~Gq~v~D  197 (213)
T d1vmaa2         168 GTAK-G-GITLAIAR--ELGIPIKFIG--VGEKAED  197 (213)
T ss_dssp             GCSC-T-THHHHHHH--HHCCCEEEEE--CSSSGGG
T ss_pred             CCCc-c-cHHHHHHH--HHCCCEEEEe--CCCCccc
Confidence            6532 1 12222222  3567777666  3555544

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.25  E-value=0.0002  Score=55.98  Aligned_cols=93  Identities=17%  Similarity=0.126  Sum_probs=55.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCCCC----CCccccceeeeeeeEEcCCCcEEEEEEEeCCCCCC-------ChhhHH
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDRFI----SRYKETVEELHRGEYELPDGAQLTLDILDTSGAYQ-------FPAMRE  116 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~~~----~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~-------~~~~~~  116 (253)
                      +..-|+|+|+.++|||+|+|.|++....    ....++|.........+.++....+-++||.|...       +.....
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~~~~~~~~~~lDteG~~~~~~~~~~~~~~i~  110 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGDVEKGDNQNDSWIF  110 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCCGGGCCCTTHHHHH
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeeccCCCCceEEEEecccccccccccchhHHHHH
Confidence            4568899999999999999999986631    22223333344444444466666788999998543       111111


Q ss_pred             H-hcccCCEEEE-EEECCChhhHHHH
Q psy549          117 L-SISTADAFVL-VYAVDDASTWDVV  140 (253)
Q Consensus       117 ~-~~~~~d~~i~-v~d~~~~~s~~~~  140 (253)
                      . .+.-++++|+ ++...+...++.+
T Consensus       111 ~l~~llSs~~i~N~~~~~~~~~l~~L  136 (277)
T d1f5na2         111 ALAVLLSSTFVYNSIGTINQQAMDQL  136 (277)
T ss_dssp             HHHHHHCSEEEEEEESCSSHHHHHTT
T ss_pred             HHHHHHhCEEEEeccccCcHHHHHHH
Confidence            1 2334676666 4444445444433

>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=97.22  E-value=0.00016  Score=54.01  Aligned_cols=85  Identities=12%  Similarity=-0.016  Sum_probs=44.4

Q ss_pred             EEEEEEeCCCCCCChhhHHH----h---c-----ccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCC
Q psy549           98 LTLDILDTSGAYQFPAMREL----S---I-----STADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE  165 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~----~---~-----~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  165 (253)
                      +.+.|+||+|...+......    +   .     ...+-.++|.|++....  .+..........    -+--+++||.|
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~--~~~~~~~~~~~~----~~~~lI~TKlD  162 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQN--GLEQAKKFHEAV----GLTGVIVTKLD  162 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTH--HHHHHHHHHHHH----CCSEEEEECTT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCch--HHHHHHHhhhcc----CCceEEEeccC
Confidence            46789999996655432111    1   1     13467888888876542  222222222221    13367899999


Q ss_pred             CCCccccHHHHHHHHHhcCCCcEEEec
Q psy549          166 LEFKDVRREIAETIALYDWQCGFVECS  192 (253)
Q Consensus       166 l~~~~~~~~~~~~~~~~~~~~~~~~~S  192 (253)
                      ....--  .......  ..+.|+..++
T Consensus       163 et~~~G--~~l~~~~--~~~~Pi~~i~  185 (207)
T d1okkd2         163 GTAKGG--VLIPIVR--TLKVPIKFVG  185 (207)
T ss_dssp             SSCCCT--THHHHHH--HHCCCEEEEE
T ss_pred             CCCCcc--HHHHHHH--HHCCCEEEEe
Confidence            654311  1122222  3566766655

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.21  E-value=9.4e-05  Score=52.08  Aligned_cols=21  Identities=24%  Similarity=0.490  Sum_probs=18.7

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+|.|+||||||||+++|...
T Consensus         5 Iii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            778999999999999998753

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.20  E-value=9.8e-05  Score=53.72  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++|+|+|+|||||||+++.|..
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.13  E-value=0.00014  Score=52.98  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=20.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .++|+|+|+|||||||+++.|..
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999875

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.13  E-value=0.00013  Score=53.10  Aligned_cols=22  Identities=23%  Similarity=0.377  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++|+|+|+|||||||+.+.|..
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~   22 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAE   22 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999874

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.12  E-value=0.00013  Score=53.21  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ++|+|+|+|||||||++..|...
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999988753

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.11  E-value=0.00013  Score=52.25  Aligned_cols=20  Identities=20%  Similarity=0.429  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHh
Q psy549           52 VVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~   71 (253)
                      |.|+|.+|||||||+++|..
T Consensus         4 i~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            46999999999999999874

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.08  E-value=0.00014  Score=52.00  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=19.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -|+|.|++||||||++++|...
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999998753

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.06  E-value=0.00018  Score=53.01  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=20.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .+..|+|+|+|||||||++++|..
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999999874

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.04  E-value=0.00015  Score=52.62  Aligned_cols=22  Identities=18%  Similarity=0.410  Sum_probs=19.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++|+|+|+|||||||..+.|..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999988863

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.00  E-value=0.00033  Score=50.69  Aligned_cols=25  Identities=32%  Similarity=0.426  Sum_probs=21.3

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....-|+++|.|||||||++.++..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3456889999999999999999864

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.00  E-value=0.00026  Score=50.85  Aligned_cols=26  Identities=15%  Similarity=0.199  Sum_probs=21.8

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHh
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....+-|.|+|.+||||||+.+.|..
T Consensus         3 ~~~g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           3 ATQGFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             TTCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34568899999999999999988763

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.00  E-value=0.00018  Score=50.88  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .|+|+|++||||||+.+.|...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999988753

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.97  E-value=0.00021  Score=51.64  Aligned_cols=21  Identities=29%  Similarity=0.426  Sum_probs=19.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|.|.|++|+|||||+..+..
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            589999999999999999884

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.91  E-value=0.00023  Score=51.02  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=19.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++|+++|.+||||||+.+.+..
T Consensus         2 p~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988763

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.89  E-value=0.00026  Score=52.54  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .-|+++|.||||||||+++|..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999884

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.89  E-value=0.00029  Score=51.72  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=20.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++.|+|+|+|||||||.+..|..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998874

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.85  E-value=0.00029  Score=53.84  Aligned_cols=26  Identities=15%  Similarity=0.167  Sum_probs=22.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=+|+|+|++|+|||||++.+.+-.
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            34579999999999999999888743

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.78  E-value=0.00036  Score=51.04  Aligned_cols=21  Identities=24%  Similarity=0.612  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+|+|++||||+||+++|...
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            899999999999999999764

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.77  E-value=0.00045  Score=50.46  Aligned_cols=24  Identities=21%  Similarity=0.290  Sum_probs=21.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..+-|+|-|++|||||||+++|..
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457799999999999999999874

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.75  E-value=0.00036  Score=51.75  Aligned_cols=24  Identities=17%  Similarity=0.218  Sum_probs=20.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|+.|+|||||++.+.+-.
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhccc
Confidence            368899999999999999988754

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.75  E-value=0.00039  Score=50.22  Aligned_cols=20  Identities=30%  Similarity=0.315  Sum_probs=17.9

Q ss_pred             eEEEECCCCCCHHHHHHHHH
Q psy549           51 RVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~   70 (253)
                      -|+|.|.+||||||+++.|.
T Consensus         3 iI~i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           3 VVVVTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47889999999999999885

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.72  E-value=0.00042  Score=52.96  Aligned_cols=26  Identities=23%  Similarity=0.157  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      +.=.++|+|++|+|||||++.+.+-.
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            34588999999999999999887643

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.71  E-value=0.00042  Score=49.41  Aligned_cols=21  Identities=24%  Similarity=0.349  Sum_probs=18.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +|+++|.+||||||+.+.|..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988763

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.71  E-value=0.00038  Score=53.57  Aligned_cols=24  Identities=29%  Similarity=0.331  Sum_probs=20.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .=.++|+|++|||||||++.+++-
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhcc
Confidence            347999999999999999988764

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.69  E-value=0.00047  Score=52.22  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=20.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      =.++|+|++|||||||++.+.+-
T Consensus        27 ei~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcC
Confidence            46899999999999999988764

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.68  E-value=0.00046  Score=50.17  Aligned_cols=22  Identities=32%  Similarity=0.425  Sum_probs=19.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -|+|+|++|||||||++.|...
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999998754

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.65  E-value=0.00046  Score=52.22  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          32 EFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCcchhhHhccCCC
Confidence            368999999999999999777643

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.65  E-value=0.00049  Score=52.90  Aligned_cols=26  Identities=15%  Similarity=0.147  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.++|+|++|||||||++.+.+-.
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhccc
Confidence            34588999999999999999887643

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.65  E-value=0.0005  Score=49.22  Aligned_cols=22  Identities=23%  Similarity=0.262  Sum_probs=18.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -|+|.|++||||||+.+.|...
T Consensus         6 iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           6 ILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999888653

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.65  E-value=0.0005  Score=50.52  Aligned_cols=23  Identities=22%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|+|+|||||||++..|..
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            34688999999999999999875

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.63  E-value=0.00054  Score=52.07  Aligned_cols=23  Identities=22%  Similarity=0.209  Sum_probs=20.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .++|+|++|||||||++.+.+-.
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            46799999999999999988754

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.62  E-value=0.0014  Score=46.27  Aligned_cols=25  Identities=20%  Similarity=0.272  Sum_probs=21.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      +..-|++-|+-|+|||||++.|...
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhh
Confidence            4467889999999999999999863

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.61  E-value=0.00057  Score=51.93  Aligned_cols=24  Identities=17%  Similarity=0.253  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        33 e~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          33 EFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHHcCC
Confidence            358999999999999999888754

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.60  E-value=0.00059  Score=48.77  Aligned_cols=21  Identities=29%  Similarity=0.517  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+|.|++||||||+++.|...
T Consensus         6 I~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            566699999999999998763

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.60  E-value=0.00053  Score=53.59  Aligned_cols=26  Identities=19%  Similarity=0.331  Sum_probs=21.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..=.|+|+|++|+|||||++.+.+-.
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            33468999999999999999988643

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.59  E-value=0.00086  Score=47.76  Aligned_cols=23  Identities=30%  Similarity=0.372  Sum_probs=19.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .--|+|+|++||||||+.+.|..
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34567799999999999999875

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.58  E-value=0.00061  Score=50.00  Aligned_cols=20  Identities=30%  Similarity=0.590  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHh
Q psy549           52 VVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~   71 (253)
                      |+|+|++|||||||+++|..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999999874

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.58  E-value=0.00062  Score=49.45  Aligned_cols=21  Identities=24%  Similarity=0.534  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+|+||+|+||+||+++|+..
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            889999999999999999853

>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=96.54  E-value=0.038  Score=40.93  Aligned_cols=78  Identities=15%  Similarity=0.149  Sum_probs=51.5

Q ss_pred             EEEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEE-EEEecCCCCCccccHHH
Q psy549           97 QLTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIV-VVGNKCELEFKDVRREI  175 (253)
Q Consensus        97 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pii-lv~nK~Dl~~~~~~~~~  175 (253)
                      .+.+.++|+++...  ......+..+|.++++...+ ..++....+....+..   .++|++ +|+|+.+..+.......
T Consensus       111 ~~d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~---~~~~~~giv~N~~~~~~~~~~~~~  184 (237)
T d1g3qa_         111 KFDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKK---AGLAILGFVLNRYGRSDRDIPPEA  184 (237)
T ss_dssp             GCSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHH---TTCEEEEEEEEEETSCTTCCCHHH
T ss_pred             cCCEEEEccccccc--ccchhhhhhhhccccccccc-ceecchhhHHHHHHhh---hhhhhhhhhhcccccccchhhhHH
Confidence            36778999987643  34444567799999998765 4455555555554443   456765 78999987766666555


Q ss_pred             HHHHH
Q psy549          176 AETIA  180 (253)
Q Consensus       176 ~~~~~  180 (253)
                      .+.+.
T Consensus       185 ~~~~~  189 (237)
T d1g3qa_         185 AEDVM  189 (237)
T ss_dssp             HHHHH
T ss_pred             HHhhc
Confidence            55443

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.54  E-value=0.00074  Score=51.13  Aligned_cols=23  Identities=17%  Similarity=0.378  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..++|.||||+||||+++.+...
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHhc
Confidence            36999999999999999998753

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.52  E-value=0.0009  Score=51.47  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .-|++.|+||+|||||++.+.+.
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999998864

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.51  E-value=0.00081  Score=50.99  Aligned_cols=23  Identities=13%  Similarity=0.400  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..++|.||||+||||+++.+.+.
T Consensus        36 ~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998764

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.50  E-value=0.0023  Score=50.92  Aligned_cols=24  Identities=29%  Similarity=0.479  Sum_probs=21.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      .+|+|.|+.|+|||||+++|+..-
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCEEEEeeccccchHHHHHHhhhc
Confidence            469999999999999999998644

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.49  E-value=0.00074  Score=50.23  Aligned_cols=22  Identities=32%  Similarity=0.392  Sum_probs=19.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -|+|+||+||||+||+++|+..
T Consensus         4 livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999999864

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.49  E-value=0.0005  Score=51.94  Aligned_cols=23  Identities=17%  Similarity=0.231  Sum_probs=20.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      -++|+|++|||||||++.+.+-.
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            58999999999999999988754

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.47  E-value=0.00077  Score=51.25  Aligned_cols=24  Identities=13%  Similarity=0.246  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++++|++|||||||++.+.+-.
T Consensus        30 e~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhcCC
Confidence            368999999999999999888754

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.47  E-value=0.00042  Score=50.61  Aligned_cols=23  Identities=17%  Similarity=0.146  Sum_probs=20.2

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|.|+|.|||||||+.+.|..
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999999864

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.45  E-value=0.00074  Score=49.55  Aligned_cols=22  Identities=23%  Similarity=0.478  Sum_probs=19.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .-|+|+|+|||||||++.+|..
T Consensus         9 ~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           9 KIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999999875

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.44  E-value=0.00074  Score=51.46  Aligned_cols=24  Identities=21%  Similarity=0.272  Sum_probs=20.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =-++|+|+.|+|||||++.+.+-.
T Consensus        33 ei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            357899999999999999988754

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.44  E-value=0.00067  Score=51.61  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =-++|+|++|||||||++.+.+-.
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCc
Confidence            467999999999999999887743

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.44  E-value=0.00093  Score=49.04  Aligned_cols=25  Identities=28%  Similarity=0.477  Sum_probs=21.2

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..-+++++|+||||||++++.|...
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~r   66 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCeEEEecCCcccHHHHHHHHHH
Confidence            3458999999999999999888753

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.44  E-value=0.00058  Score=51.80  Aligned_cols=23  Identities=17%  Similarity=0.293  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      =-++|+|+.|+|||||++.+.+-
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            36899999999999999998873

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.41  E-value=0.00099  Score=49.55  Aligned_cols=23  Identities=30%  Similarity=0.406  Sum_probs=20.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ++-|+|.|++|||||||.+.|..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            47799999999999999998864

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.40  E-value=0.0009  Score=47.97  Aligned_cols=20  Identities=10%  Similarity=0.336  Sum_probs=17.9

Q ss_pred             eEEEECCCCCCHHHHHHHHH
Q psy549           51 RVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~   70 (253)
                      .|+++|.+||||||+.+.|.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA   23 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELA   23 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHH
Confidence            37889999999999999886

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.39  E-value=0.00086  Score=51.03  Aligned_cols=25  Identities=12%  Similarity=0.044  Sum_probs=21.5

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF   74 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~   74 (253)
                      =-++++|+.|+|||||++.+.+-..
T Consensus        29 ei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          29 EIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4678999999999999999887643

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.37  E-value=0.00054  Score=52.71  Aligned_cols=25  Identities=24%  Similarity=0.224  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..=+|+|+|++|||||||++.+.+-
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhc
Confidence            4458999999999999999877653

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.35  E-value=0.0012  Score=49.31  Aligned_cols=24  Identities=21%  Similarity=0.292  Sum_probs=20.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..+.|+|-|+|||||||+...|..
T Consensus         2 k~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           2 KTIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            347899999999999999998874

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.26  E-value=0.0011  Score=51.02  Aligned_cols=23  Identities=17%  Similarity=0.368  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      =.++|+|++|||||||++.+.+-
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcC
Confidence            46899999999999999998764

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.25  E-value=0.0013  Score=50.88  Aligned_cols=25  Identities=24%  Similarity=0.476  Sum_probs=21.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..-++++||+||||||++++.|...
T Consensus        38 ~k~n~lLVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          38 RKNNPLLVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccCCcEEECCCCCcHHHHHHHHHHH
Confidence            3458999999999999999998753

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.23  E-value=0.0013  Score=47.91  Aligned_cols=25  Identities=16%  Similarity=0.129  Sum_probs=21.7

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .++-|+|.|.+||||||+++.|...
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHC
Confidence            4678999999999999999988653

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.22  E-value=0.0012  Score=50.82  Aligned_cols=23  Identities=22%  Similarity=0.245  Sum_probs=20.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHhCC
Q psy549           51 RVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      -++|+|+.|+|||||++.+.+-.
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHCCC
Confidence            57899999999999999988754

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.20  E-value=0.0012  Score=47.70  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=17.5

Q ss_pred             eE-EEECCCCCCHHHHHHHHHh
Q psy549           51 RV-VVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I-~iiG~~~~GKSsLi~~l~~   71 (253)
                      || +|.|.+||||||+++.|..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            45 5679999999999998863

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.20  E-value=0.0018  Score=49.48  Aligned_cols=25  Identities=16%  Similarity=0.291  Sum_probs=21.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      +...|++.|+||+|||+|++.+.+.
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhc
Confidence            3457999999999999999998763

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.17  E-value=0.0007  Score=51.51  Aligned_cols=24  Identities=17%  Similarity=0.261  Sum_probs=21.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      =.++|+|++|||||||++.+.+-.
T Consensus        32 e~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCc
Confidence            478999999999999999888744

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.13  E-value=0.0028  Score=48.19  Aligned_cols=25  Identities=16%  Similarity=0.250  Sum_probs=21.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ...++|.||||+||||+++.+....
T Consensus        52 ~~~lll~GPpG~GKTt~a~~la~~~   76 (253)
T d1sxja2          52 FRAAMLYGPPGIGKTTAAHLVAQEL   76 (253)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH
Confidence            3578999999999999999998643

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.10  E-value=0.0016  Score=47.61  Aligned_cols=26  Identities=19%  Similarity=0.330  Sum_probs=22.5

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHh
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .+..+-|+|-|..||||||+++.|..
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHH
Confidence            44567899999999999999998875

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.04  E-value=0.0019  Score=48.50  Aligned_cols=22  Identities=18%  Similarity=0.333  Sum_probs=19.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .++|.|++|+||||+++.+...
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5899999999999999998764

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.98  E-value=0.0019  Score=51.05  Aligned_cols=23  Identities=22%  Similarity=0.495  Sum_probs=20.4

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .-.|+++||||||||.|++++..
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHhh
Confidence            35689999999999999999875

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=95.88  E-value=0.003  Score=48.22  Aligned_cols=24  Identities=17%  Similarity=0.275  Sum_probs=21.0

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .-.++|.|++|+|||++++.+...
T Consensus        43 ~~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          43 YPRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999998863

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=95.82  E-value=0.0025  Score=47.28  Aligned_cols=21  Identities=14%  Similarity=0.278  Sum_probs=18.7

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -|+|.|+|||||+|+...|..
T Consensus         5 iI~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            678889999999999998874

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.81  E-value=0.0033  Score=46.64  Aligned_cols=25  Identities=16%  Similarity=0.193  Sum_probs=21.7

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....-|.|.|.||||||||.+.|..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3557899999999999999999874

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=95.76  E-value=0.0028  Score=48.38  Aligned_cols=22  Identities=23%  Similarity=0.389  Sum_probs=20.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .|++.|+||+|||+|++++.+.
T Consensus        44 giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHHH
Confidence            5899999999999999999863

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=95.76  E-value=0.002  Score=49.55  Aligned_cols=21  Identities=14%  Similarity=0.230  Sum_probs=17.7

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      +.|.|+||+|||++++.+...
T Consensus        49 l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHH
Confidence            445699999999999998853

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.76  E-value=0.0036  Score=49.26  Aligned_cols=26  Identities=23%  Similarity=0.256  Sum_probs=22.6

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHh
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .+.++-|+|.|++|||||||.+.|..
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            45679999999999999999988764

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=95.70  E-value=0.0026  Score=48.69  Aligned_cols=21  Identities=43%  Similarity=0.453  Sum_probs=19.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|.|++|+|||||++++..
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            588999999999999999874

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.62  E-value=0.0033  Score=46.95  Aligned_cols=22  Identities=14%  Similarity=0.385  Sum_probs=19.4

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .++|.|++|+||||+++.+...
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHHH
Confidence            5899999999999999988753

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.60  E-value=0.0027  Score=48.14  Aligned_cols=22  Identities=18%  Similarity=0.299  Sum_probs=19.9

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .++|.|++|+||||+++.+...
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999998764

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.59  E-value=0.0035  Score=47.06  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .++|.|++|+||||+++.+...
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHHH
Confidence            4899999999999999998854

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.52  E-value=0.0037  Score=46.68  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=20.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .++|.|++|+||||+++.+...
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            5899999999999999999864

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=95.49  E-value=0.004  Score=47.75  Aligned_cols=23  Identities=17%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -.|++.|+||+|||++++.+...
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~~   68 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAGE   68 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHHH
Confidence            46899999999999999998863

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.44  E-value=0.0046  Score=45.40  Aligned_cols=21  Identities=14%  Similarity=0.300  Sum_probs=18.6

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -|+|-|..||||||+++.|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988764

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.42  E-value=0.006  Score=46.73  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -.|++.|+||+|||+|++++...
T Consensus        39 ~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceeEEecCCCCCchHHHHHHHHH
Confidence            46999999999999999998874

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.23  E-value=0.0047  Score=51.24  Aligned_cols=22  Identities=23%  Similarity=0.526  Sum_probs=20.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -+|+++||+|||||-|+++|..
T Consensus        50 sNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999999874

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.10  E-value=0.0074  Score=44.54  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=21.0

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDRF   74 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~~   74 (253)
                      +-|+|.|.+||||||+++.|....+
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~G~   28 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADLGI   28 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEECCCcCCHHHHHHHHHHCCC
Confidence            5689999999999999998875433

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=95.10  E-value=0.0042  Score=50.58  Aligned_cols=24  Identities=29%  Similarity=0.501  Sum_probs=19.4

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..-++++||+||||||++++.|..
T Consensus        42 ~k~n~llvG~~GvGKtaiv~~la~   65 (387)
T d1qvra2          42 TKNNPVLIGEPGVGKTAIVEGLAQ   65 (387)
T ss_dssp             SCCCCEEEECTTSCHHHHHHHHHH
T ss_pred             CCCCCeEECCCCCCHHHHHHHHHH
Confidence            445679999999999999976553

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.10  E-value=0.0094  Score=46.26  Aligned_cols=25  Identities=24%  Similarity=0.110  Sum_probs=21.2

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHH
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~   70 (253)
                      ...++-|+|-|.+|||||||...+.
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHH
Confidence            3456899999999999999998764

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.02  E-value=0.006  Score=46.95  Aligned_cols=24  Identities=17%  Similarity=0.295  Sum_probs=20.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHhCC
Q psy549           50 RRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      -.|++.|++|+|||+|++++.+.-
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCcchhHHHHHHHHh
Confidence            459999999999999999987643

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.89  E-value=0.007  Score=44.61  Aligned_cols=21  Identities=19%  Similarity=0.245  Sum_probs=18.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      =|+|-|..||||||+++.|..
T Consensus         4 fIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378889999999999998774

>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=94.79  E-value=0.01  Score=43.87  Aligned_cols=92  Identities=12%  Similarity=-0.011  Sum_probs=48.5

Q ss_pred             EEEEEEeCCCCCCChhhHHH-------hcc-----cCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCEEEEEecCC
Q psy549           98 LTLDILDTSGAYQFPAMREL-------SIS-----TADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVPIVVVGNKCE  165 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~-------~~~-----~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  165 (253)
                      +.+.|+||+|..........       ...     ..+-.++|.|+.....  .+..........    -+--+++||.|
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~--~~~~~~~~~~~~----~~~~lIlTKlD  165 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQN--AVSQAKLFHEAV----GLTGITLTKLD  165 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHH--HHHHHHHHHHHS----CCCEEEEECCT
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcc--hHHHHhhhhhcc----CCceEEEeecC
Confidence            45789999996543322111       122     2467888998876532  222222222221    24477899999


Q ss_pred             CCCccccHHHHHHHHHhcCCCcEEEeccCCCCCHHH
Q psy549          166 LEFKDVRREIAETIALYDWQCGFVECSAKENYNIVQ  201 (253)
Q Consensus       166 l~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  201 (253)
                      ....  .-.......  ..+.|+..++  +|.+|++
T Consensus       166 e~~~--~G~~l~~~~--~~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         166 GTAK--GGVIFSVAD--QFGIPIRYIG--VGERIED  195 (211)
T ss_dssp             TCTT--TTHHHHHHH--HHCCCEEEEE--CSSSGGG
T ss_pred             CCCC--ccHHHHHHH--HHCCCEEEEe--CCCCccc
Confidence            6543  112222222  3567777766  4555543

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=94.76  E-value=0.0089  Score=43.94  Aligned_cols=22  Identities=32%  Similarity=0.391  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +-|+|.|..||||||+++.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6789999999999999998864

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.65  E-value=0.0098  Score=43.44  Aligned_cols=26  Identities=19%  Similarity=0.226  Sum_probs=21.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..--+.|.|+||+|||+|+..|....
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34568899999999999999988644

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=94.49  E-value=0.014  Score=46.88  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -.++|.||||+|||+|+..+.+
T Consensus       155 ~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999885

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.41  E-value=0.011  Score=43.75  Aligned_cols=22  Identities=27%  Similarity=0.357  Sum_probs=18.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .=|+|-|..||||||+++.|..
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4488889999999998877653

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=94.41  E-value=0.0052  Score=48.88  Aligned_cols=21  Identities=29%  Similarity=0.450  Sum_probs=19.3

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|+|+||+|||+|++++..
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            799999999999999999863

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.29  E-value=0.0076  Score=45.14  Aligned_cols=22  Identities=18%  Similarity=0.442  Sum_probs=19.2

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -.|+|-|..||||||+++.|..
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999997765

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=94.25  E-value=0.017  Score=41.28  Aligned_cols=26  Identities=23%  Similarity=0.318  Sum_probs=21.9

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF   74 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~   74 (253)
                      ..-|+|.|++|+||||++-.|....+
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~g~   39 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQRGH   39 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHcCC
Confidence            35689999999999999999887543

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=94.20  E-value=0.0028  Score=46.04  Aligned_cols=19  Identities=32%  Similarity=0.658  Sum_probs=16.9

Q ss_pred             EEEECCCCCCHHHHHHHHH
Q psy549           52 VVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~   70 (253)
                      .+|+|+.|+|||||+.++.
T Consensus        27 tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            3577999999999999986

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.15  E-value=0.012  Score=44.02  Aligned_cols=27  Identities=19%  Similarity=0.229  Sum_probs=22.0

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ...--+.|.|+||+|||+|+..|....
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTTT
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344578899999999999999987544

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.06  E-value=0.0075  Score=46.84  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=16.8

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .+-|+|.|.+||||||+.++|..
T Consensus         4 ~pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           4 HPIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             SCEEEEESCC---CCTHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHHH
Confidence            34699999999999999998763

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.03  E-value=0.014  Score=43.91  Aligned_cols=26  Identities=15%  Similarity=0.144  Sum_probs=21.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..--+.|.|+||+|||+|.-.|+..-
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            44568899999999999999988644

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.88  E-value=0.46  Score=34.55  Aligned_cols=64  Identities=16%  Similarity=0.108  Sum_probs=39.7

Q ss_pred             EEEEEEeCCCCCCChhhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC-EEEEEecCCCC
Q psy549           98 LTLDILDTSGAYQFPAMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRGLMVP-IVVVGNKCELE  167 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~  167 (253)
                      +.+.++|+|+...  ......+..+|.+++|.... ..++....+....+....   .+ +-+|+|+.+..
T Consensus       110 ~D~viiD~~~~~~--~~~~~~l~~ad~v~~v~~~~-~~~~~~~~~~~~~~~~~~---~~~~~iv~N~~~~~  174 (232)
T d1hyqa_         110 TDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPE-ISSITDGLKTKIVAERLG---TKVLGVVVNRITTL  174 (232)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSS-HHHHHHHHHHHHHHHHHT---CEEEEEEEEEECTT
T ss_pred             cceeeeccccccc--chhHHHhhhhheeeeecccc-ccchhhhhhhhhhhhhcc---cccccccccccccc
Confidence            4567999987643  34445667799999998764 444444444444333332   33 45788998743

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=93.84  E-value=0.018  Score=44.46  Aligned_cols=24  Identities=38%  Similarity=0.300  Sum_probs=20.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..-|+|.|..|+|||||+..+.+.
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            356889999999999999998753

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=93.78  E-value=0.023  Score=44.67  Aligned_cols=24  Identities=21%  Similarity=0.268  Sum_probs=20.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +.-.++|+|++|+|||.|+..|..
T Consensus        51 p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          51 PVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCcchhHHHHHHHHh
Confidence            334689999999999999999874

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=93.76  E-value=0.019  Score=45.18  Aligned_cols=21  Identities=24%  Similarity=0.420  Sum_probs=17.8

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ++++|+||+|||.|++.+.+.
T Consensus       126 ~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHH
Confidence            455799999999999998863

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=93.75  E-value=0.021  Score=40.83  Aligned_cols=26  Identities=19%  Similarity=0.313  Sum_probs=21.7

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhCCC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYDRF   74 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~~~   74 (253)
                      ..-|+|.|++|+||||++-.|....+
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~G~   40 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINKNH   40 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTTTC
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHcCC
Confidence            45689999999999999999886543

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=93.69  E-value=0.022  Score=45.77  Aligned_cols=24  Identities=17%  Similarity=0.368  Sum_probs=20.8

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +.-+++|+||+|||||-|+++|..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            446799999999999999999863

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=93.55  E-value=0.019  Score=42.88  Aligned_cols=26  Identities=19%  Similarity=0.428  Sum_probs=21.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ...--++|.|+||+|||+|+..+..+
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            34567889999999999999998854

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.47  E-value=0.02  Score=42.79  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=19.4

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      --|+|=|..||||||+++.|..
T Consensus         3 k~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           3 RRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHH
Confidence            3588999999999999998875

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.43  E-value=0.012  Score=45.81  Aligned_cols=18  Identities=33%  Similarity=0.512  Sum_probs=16.3

Q ss_pred             EEECCCCCCHHHHHHHHH
Q psy549           53 VVMGGARVGKSSIISQFL   70 (253)
Q Consensus        53 ~iiG~~~~GKSsLi~~l~   70 (253)
                      +|+|+.|+|||++++++.
T Consensus        28 vlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EEECCTTTCSTHHHHHHH
T ss_pred             EEECCCCCcHHHHHHHHH
Confidence            688999999999999874

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=93.37  E-value=0.019  Score=41.90  Aligned_cols=25  Identities=32%  Similarity=0.300  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..-.++|.|++++|||.|+..|++-
T Consensus        52 Kkn~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          52 KKNCLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             TCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CceEEEEECCCCccHHHHHHHHHHH
Confidence            3457899999999999999988753

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=93.27  E-value=0.026  Score=40.04  Aligned_cols=26  Identities=19%  Similarity=0.290  Sum_probs=21.9

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ...-|+|.|++|+||||+.-.+...-
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHcC
Confidence            44678999999999999998888654

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=93.25  E-value=0.026  Score=42.36  Aligned_cols=21  Identities=29%  Similarity=0.314  Sum_probs=18.5

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .++|.|++|+|||++++.+..
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            378999999999999998764

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=93.16  E-value=0.028  Score=41.23  Aligned_cols=21  Identities=10%  Similarity=0.218  Sum_probs=19.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -++|.|++|+||||++..+..
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            389999999999999998775

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.11  E-value=0.027  Score=42.14  Aligned_cols=28  Identities=14%  Similarity=0.175  Sum_probs=22.9

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ....--+.|.|+||+|||+|...|....
T Consensus        34 ip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          34 IESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             BCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3445678899999999999999998643

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=93.07  E-value=0.015  Score=46.06  Aligned_cols=25  Identities=24%  Similarity=0.414  Sum_probs=22.3

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..++|.|=|..|+||||+++.|...
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999999998764

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=93.06  E-value=0.038  Score=44.95  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=20.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHhC
Q psy549           51 RVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -|+|.|+.|+||||.+..++..
T Consensus       160 liLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         160 IILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEcCCCCCccHHHHHHhhh
Confidence            4899999999999999999874

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.04  E-value=0.026  Score=41.67  Aligned_cols=22  Identities=18%  Similarity=0.332  Sum_probs=18.9

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .=|+|-|..||||||+++.|..
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHH
Confidence            3488999999999999988764

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=92.98  E-value=0.03  Score=44.33  Aligned_cols=25  Identities=20%  Similarity=0.129  Sum_probs=22.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..++|.|=|..|+||||+++.|...
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHH
Confidence            4689999999999999999988763

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=92.97  E-value=0.026  Score=44.62  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=21.0

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ..++|.|=|..|+||||+++.|..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            356899999999999999998864

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=92.93  E-value=0.027  Score=41.91  Aligned_cols=26  Identities=19%  Similarity=0.148  Sum_probs=21.5

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhCC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      ..--+.|.|+||+|||+|+..+...-
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            33567899999999999999998544

>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=92.77  E-value=0.84  Score=34.54  Aligned_cols=112  Identities=11%  Similarity=0.107  Sum_probs=56.8

Q ss_pred             EEEEEEeCCCCCCChhhHHH-hcccCCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCCE-EEEEecCCCCCccccHH
Q psy549           98 LTLDILDTSGAYQFPAMREL-SISTADAFVLVYAVDDASTWDVVKDLREQIVNK-RGLMVPI-VVVGNKCELEFKDVRRE  174 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~~~~~~-~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~pi-ilv~nK~Dl~~~~~~~~  174 (253)
                      +.+.++|+|+.......... ....++.++++... +..++..+......+... ...+.++ .+|.|+.+...   ..+
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~-~~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~---~~~  194 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSG-EMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDR---EDE  194 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECS-SHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTT---HHH
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccch-hHHHHHHHHHHHHHHHhhhhcccccccceeehhhcchh---hHH
Confidence            56779998775432222222 22356777766544 444555555555444432 2244554 37789886432   233


Q ss_pred             HHHHHHHhcCCCcEEEe---------ccCCCCCH---------HHHHHHHHHHHHHhc
Q psy549          175 IAETIALYDWQCGFVEC---------SAKENYNI---------VQVFKELLAQAKVQY  214 (253)
Q Consensus       175 ~~~~~~~~~~~~~~~~~---------Sa~~~~~i---------~~l~~~l~~~~~~~~  214 (253)
                      ..+.+.+ ..+.+++.+         +...|..+         .+-|..|++.+.++-
T Consensus       195 ~~~~~~~-~~g~~vl~~IP~~~~v~eA~~~g~pv~~~~p~S~~a~~y~~LA~ei~e~~  251 (289)
T d2afhe1         195 LIIALAN-KLGTQMIHFVPRDNVVQRAEIRRMTVIEYDPKAKQADEYRALARKVVDNK  251 (289)
T ss_dssp             HHHHHHH-HHTSCEEEEECCCHHHHHHHHTTSCHHHHCTTSHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHH-HcCCeEEEEEeccHHHHHHHHcCCceEEECcCCHHHHHHHHHHHHHHcCC
Confidence            3444544 234444432         22223333         345777777776653

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.74  E-value=0.028  Score=45.52  Aligned_cols=21  Identities=19%  Similarity=0.347  Sum_probs=17.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHH
Q psy549           49 KRRVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~   70 (253)
                      .+. +|+|+.|+|||+++.++.
T Consensus        26 ~l~-~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          26 NFT-SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             SEE-EEECSTTSSHHHHHHHHH
T ss_pred             CEE-EEECCCCCCHHHHHHHHH
Confidence            354 578999999999999974

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=92.72  E-value=0.033  Score=41.66  Aligned_cols=21  Identities=19%  Similarity=0.291  Sum_probs=19.1

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      .|+|.|..||||||+++.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999865

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=92.62  E-value=0.036  Score=40.87  Aligned_cols=22  Identities=14%  Similarity=0.348  Sum_probs=19.5

Q ss_pred             EEEECCCCCCHHHHHHHHHhCC
Q psy549           52 VVVMGGARVGKSSIISQFLYDR   73 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~~   73 (253)
                      +.|.|++|+|||-|++++.+.-
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            7899999999999999988643

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=92.25  E-value=0.038  Score=40.76  Aligned_cols=24  Identities=33%  Similarity=0.400  Sum_probs=19.6

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHH
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~   70 (253)
                      ...--+.|.|+||+|||+|+..++
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHH
Confidence            345678889999999999987765

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=91.85  E-value=0.049  Score=41.55  Aligned_cols=21  Identities=29%  Similarity=0.485  Sum_probs=18.0

Q ss_pred             eEEEECCCCCCHHHHHHHHHh
Q psy549           51 RVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -++|.|+||+|||+|+..+..
T Consensus        37 l~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          37 VIMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            477999999999999888763

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=91.10  E-value=0.044  Score=44.72  Aligned_cols=28  Identities=25%  Similarity=0.504  Sum_probs=22.6

Q ss_pred             CCCCCcceEEEECCCCCCHHHHHHHHHh
Q psy549           44 GLQKDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        44 ~~~~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +.....-+++|+|.+|+|||+++..++.
T Consensus        45 ~~~~~~~H~~I~G~tGsGKT~~l~~li~   72 (433)
T d1e9ra_          45 PRDAEPRHLLVNGATGTGKSVLLRELAY   72 (433)
T ss_dssp             CGGGGGGCEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCcccceEEEEeCCCCcHHHHHHHHHH
Confidence            3445567899999999999999887763

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=90.91  E-value=0.082  Score=41.39  Aligned_cols=22  Identities=18%  Similarity=0.362  Sum_probs=19.1

Q ss_pred             ceEEEECCCCCCHHHHHHHHHh
Q psy549           50 RRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      -.++++|++|+|||.+++.|..
T Consensus        54 ~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          54 GSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCcchHHHHHHHHHH
Confidence            3678999999999999998774

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=90.76  E-value=0.073  Score=41.03  Aligned_cols=26  Identities=12%  Similarity=0.308  Sum_probs=21.8

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      -..=|++|+|++|+|||+|+..+..+
T Consensus        41 grGQr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          41 GRGQRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             BTTCEEEEEECSSSSHHHHHHHHHHH
T ss_pred             cCCCeeeEeCCCCCCHHHHHHHHHHH
Confidence            34459999999999999999888753

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=90.30  E-value=0.056  Score=41.60  Aligned_cols=17  Identities=29%  Similarity=0.618  Sum_probs=13.8

Q ss_pred             EEEECCCCCCHHHH-HHH
Q psy549           52 VVVMGGARVGKSSI-ISQ   68 (253)
Q Consensus        52 I~iiG~~~~GKSsL-i~~   68 (253)
                      ++|+|.||+||||. +++
T Consensus        17 ~lI~g~aGTGKTt~l~~r   34 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVITNK   34 (306)
T ss_dssp             EEECCCTTSCHHHHHHHH
T ss_pred             EEEEeeCCccHHHHHHHH
Confidence            68899999999974 444

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=90.25  E-value=0.077  Score=40.23  Aligned_cols=20  Identities=20%  Similarity=0.179  Sum_probs=17.5

Q ss_pred             eEEEECCCCCCHHHHHHHHH
Q psy549           51 RVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~   70 (253)
                      -++|.|++|+|||+|+-.+.
T Consensus        31 ~~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          31 VGALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            46789999999999998776

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=90.24  E-value=0.09  Score=40.12  Aligned_cols=25  Identities=20%  Similarity=0.352  Sum_probs=21.3

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...-.+.+.|++++|||+|++.+..
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHH
Confidence            3456788999999999999999886

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=89.73  E-value=0.07  Score=41.43  Aligned_cols=15  Identities=33%  Similarity=0.789  Sum_probs=12.9

Q ss_pred             EEEECCCCCCHHHHH
Q psy549           52 VVVMGGARVGKSSII   66 (253)
Q Consensus        52 I~iiG~~~~GKSsLi   66 (253)
                      ++|.|.+|+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            789999999999643

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.55  E-value=0.11  Score=34.40  Aligned_cols=25  Identities=16%  Similarity=0.186  Sum_probs=22.1

Q ss_pred             CCcceEEEECCCCCCHHHHHHHHHh
Q psy549           47 KDKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        47 ~~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      +..+.|.+-|.+|+||++|.+.|..
T Consensus         4 kqgf~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           4 KQGFSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHHH
T ss_pred             ccceEEEEeCCCCCCHHHHHHHHHH
Confidence            3468999999999999999999875

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=87.97  E-value=0.15  Score=40.55  Aligned_cols=20  Identities=30%  Similarity=0.647  Sum_probs=16.3

Q ss_pred             ceEEEECCCCCCHHHHHHHH
Q psy549           50 RRVVVMGGARVGKSSIISQF   69 (253)
Q Consensus        50 ~~I~iiG~~~~GKSsLi~~l   69 (253)
                      --++|.|+||+|||+++..+
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHH
T ss_pred             CeEEEEcCCCCCceehHHHH
Confidence            35778899999999988554

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=87.00  E-value=0.19  Score=37.72  Aligned_cols=23  Identities=22%  Similarity=0.315  Sum_probs=19.6

Q ss_pred             cceEEEECCCCCCHHHHHHHHHh
Q psy549           49 KRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ...|+|.|++|+||+.+++.+-.
T Consensus        23 ~~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          23 ECPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CSCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCcCHHHHHHHHHH
Confidence            34689999999999999988764

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=86.77  E-value=0.2  Score=38.16  Aligned_cols=24  Identities=29%  Similarity=0.623  Sum_probs=20.5

Q ss_pred             cceEEEECCCCCCHHHHHHHHHhC
Q psy549           49 KRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        49 ~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      .=|++|+|++|+|||+|+..+..+
T Consensus        68 GQr~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          68 GGKIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEeeCCCCCCHHHHHHHHHHH
Confidence            348999999999999998888754

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=85.74  E-value=0.25  Score=37.40  Aligned_cols=27  Identities=22%  Similarity=0.251  Sum_probs=21.4

Q ss_pred             CCCcceEEEECCCCCCHHHHHHHHHhC
Q psy549           46 QKDKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        46 ~~~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ....--+.|.|++++|||+|+-.++..
T Consensus        51 i~~g~itei~G~~gsGKTtl~l~~~~~   77 (263)
T d1u94a1          51 LPMGRIVEIYGPESSGKTTLTLQVIAA   77 (263)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccCceEEEEecCCCcHHHHHHHHHHHH
Confidence            344456789999999999999887754

>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=84.94  E-value=0.26  Score=37.05  Aligned_cols=87  Identities=11%  Similarity=0.065  Sum_probs=48.8

Q ss_pred             EEEEEEeCCCCCCCh-hhHHHhcccCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCC-EEEEEecCCCCCccccHH
Q psy549           98 LTLDILDTSGAYQFP-AMRELSISTADAFVLVYAVDDASTWDVVKDLREQIVNKRG-LMVP-IVVVGNKCELEFKDVRRE  174 (253)
Q Consensus        98 ~~~~l~D~~g~~~~~-~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p-iilv~nK~Dl~~~~~~~~  174 (253)
                      +.+.++|+|+.-... .........+|.++++... +..++.........+..... .+++ ..+|.|+.+....   .+
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~~---~~  191 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVANE---YE  191 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSCC---HH
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHHHHHHHHHhhccccceeccceEEeeecCCCc---cc
Confidence            567899998644322 2223334568888888876 45566665565555554322 3333 3477899876543   33


Q ss_pred             HHHHHHHhcCCCcEE
Q psy549          175 IAETIALYDWQCGFV  189 (253)
Q Consensus       175 ~~~~~~~~~~~~~~~  189 (253)
                      ..+.+.+ ..+.+++
T Consensus       192 ~~~~~~~-~~~~~~~  205 (269)
T d1cp2a_         192 LLDAFAK-ELGSQLI  205 (269)
T ss_dssp             HHHHHHH-HHTCCEE
T ss_pred             hhhhhHh-hcCCeEE
Confidence            4454554 2344443

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=83.29  E-value=0.37  Score=35.73  Aligned_cols=20  Identities=25%  Similarity=0.331  Sum_probs=17.7

Q ss_pred             eEEEECCCCCCHHHHHHHHH
Q psy549           51 RVVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        51 ~I~iiG~~~~GKSsLi~~l~   70 (253)
                      -++|.|+..+||||+++.+.
T Consensus        43 ~~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          43 MLIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEeccCchhhHHHHHHHH
Confidence            36788999999999999876

>d1y7ta1 c.2.1.5 (A:0-153) Malate dehydrogenase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Thermus thermophilus [TaxId: 274]

Probab=82.77  E-value=1.1  Score=30.52  Aligned_cols=27  Identities=26%  Similarity=0.363  Sum_probs=18.6

Q ss_pred             CCcceEEEECC-CCCCHHHHHHHHHhCCC
Q psy549           47 KDKRRVVVMGG-ARVGKSSIISQFLYDRF   74 (253)
Q Consensus        47 ~~~~~I~iiG~-~~~GKSsLi~~l~~~~~   74 (253)
                      +..+||+|+|. .++|-+. +..|..+..
T Consensus         2 ~~p~KV~IiGA~G~VG~~~-a~~l~~~~l   29 (154)
T d1y7ta1           2 KAPVRVAVTGAAGQIGYSL-LFRIAAGEM   29 (154)
T ss_dssp             CCCEEEEESSTTSHHHHHH-HHHHHTTTT
T ss_pred             CCCCEEEEECCCCHHHHHH-HHHHHhccc
Confidence            35679999996 7888655 445555543

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=82.61  E-value=0.41  Score=35.25  Aligned_cols=19  Identities=32%  Similarity=0.478  Sum_probs=17.4

Q ss_pred             EEEECCCCCCHHHHHHHHH
Q psy549           52 VVVMGGARVGKSSIISQFL   70 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~   70 (253)
                      ++|.|+..+||||+++.+.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            6899999999999999866

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=82.06  E-value=0.39  Score=34.08  Aligned_cols=21  Identities=43%  Similarity=0.656  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHhC
Q psy549           52 VVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        52 I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      |+|+|...||||.++..+...
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            689999999999999998754

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=81.55  E-value=0.35  Score=36.99  Aligned_cols=25  Identities=24%  Similarity=0.478  Sum_probs=20.6

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHhC
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLYD   72 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~~   72 (253)
                      ..=|++|+|++|+|||+|+..+..+
T Consensus        67 ~GQr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          67 RGQRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             TTCBCEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHh
Confidence            4458899999999999998776643

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=80.12  E-value=0.65  Score=33.32  Aligned_cols=24  Identities=4%  Similarity=0.008  Sum_probs=21.1

Q ss_pred             CcceEEEECCCCCCHHHHHHHHHh
Q psy549           48 DKRRVVVMGGARVGKSSIISQFLY   71 (253)
Q Consensus        48 ~~~~I~iiG~~~~GKSsLi~~l~~   71 (253)
                      ....+++.|++|+|||+++..+..
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999988775