Citrus Sinensis ID: 030961

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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-------17
Protein Sequence
MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC
Secondary Structure (PSIPRED)
ccccccEEEEEEEEcccccccEEEEEHHccccccccccccccccEEEEEEEccEEEEEEEEEcccccccccccccccccccEEEEEEEcccccHHHHHccccHHHHHHccccccEEEEEEcccccccHHHHHHccccccccHHHHHHHHHHHcccEEEEccccccccc
Secondary Structure Prediction (SSPRO)
ccccccEEEEEEEEEcccccHHHHHHHHHHcccccccccccEEEEEEEEEEccEEEEEEEEEEcccHHHHHHHHHHcccccEEEEEEEcccHHHHHHHHHcHHHHHHHHcccccEEEEEEcHHHHHcHHHHHHHcccccccHHHHHHHHHHHcccEEEEcEccccccc
Coil and Loop (DISEMBL)
massasrfikcvtvgdgavgkTCMLICYtsnkfptdyiptvfdnfsanvvaegttvnlglwdtagqedynrlrplsyrgaDVFVLAFSLVSRASYENVLKKWIpelqhyspgvpvvlvgtkldlredkhyladhpglvpvttAQGEELRKQIGASYYIECssktqqvc
Flexible Loop (DISEMBL)
massasrfikcvtvgdgavgkTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIpelqhyspgVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC
Low Complexity Region (SEG)
MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC
Disordered region (IsUnstruct)
******RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC********
Disordered Region (DISOPRED)
******R***CVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHY*********VTTAQGEELRKQIGASYYIECSSKTQQV*
Disordered Region (DISEMBL)
MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC
Disordered Region (DISPRO)
****ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC
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	168	2.2.26 [Sep-21-2011]
Q6Z808	214	Rac-like GTP-binding prot	yes	no	0.988	0.775	0.933	5e-92
O82481	215	Rac-like GTP-binding prot	yes	no	0.988	0.772	0.939	6e-91
Q67VP4	215	Rac-like GTP-binding prot	no	no	0.988	0.772	0.927	6e-90
Q9SU67	208	Rac-like GTP-binding prot	no	no	0.988	0.798	0.903	2e-89
O04369	197	Rac-like GTP-binding prot	N/A	no	0.970	0.827	0.858	4e-84
Q6ZHA3	197	Rac-like GTP-binding prot	no	no	0.964	0.822	0.864	4e-83
Q6EP31	197	Rac-like GTP-binding prot	no	no	0.970	0.827	0.846	2e-82
P92978	197	Rac-like GTP-binding prot	no	no	0.970	0.827	0.846	3e-82
Q39435	197	Rac-like GTP-binding prot	N/A	no	0.970	0.827	0.852	9e-82
Q40220	196	Rac-like GTP-binding prot	N/A	no	0.970	0.831	0.834	5e-81

>sp|Q6Z808|RAC3_ORYSJ Rac-like GTP-binding protein 3 OS=Oryza sativa subsp. japonica GN=RAC3 PE=2 SV=1

 Score =  336 bits (861), Expect = 5e-92,   Method: Compositional matrix adjust.
 Identities = 155/166 (93%), Positives = 163/166 (98%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV + TTVNLGL
Sbjct: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVVDSTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYEN++KKWIPELQHY+PGVP+VLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENIMKKWIPELQHYAPGVPIVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYL DHPG++PVTTAQGEELRKQIGA+YYIECSSKTQQ
Sbjct: 121 KLDLREDKHYLLDHPGMIPVTTAQGEELRKQIGAAYYIECSSKTQQ 166

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.
Oryza sativa subsp. japonica (taxid: 39947)

>sp|O82481|RAC10_ARATH Rac-like GTP-binding protein ARAC10 OS=Arabidopsis thaliana GN=ARAC10 PE=1 SV=1

 Score =  332 bits (852), Expect = 6e-91,   Method: Compositional matrix adjust.
 Identities = 156/166 (93%), Positives = 162/166 (97%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSAS+FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV EGTTVNLGL
Sbjct: 1   MASSASKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVVEGTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVL+FSLVSRASYENV KKWIPELQH++PGVP+VLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLSFSLVSRASYENVFKKWIPELQHFAPGVPLVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYLADHPGL PVTTAQGEELRK IGA+YYIECSSKTQQ
Sbjct: 121 KLDLREDKHYLADHPGLSPVTTAQGEELRKLIGATYYIECSSKTQQ 166

Arabidopsis thaliana (taxid: 3702)

>sp|Q67VP4|RAC4_ORYSJ Rac-like GTP-binding protein 4 OS=Oryza sativa subsp. japonica GN=RAC4 PE=2 SV=1

 Score =  329 bits (843), Expect = 6e-90,   Method: Compositional matrix adjust.
 Identities = 154/166 (92%), Positives = 161/166 (96%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDY+PTVFDNFSANVV +GTTVNLGL
Sbjct: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYVPTVFDNFSANVVVDGTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENV+KKW+PELQHY+PGVP+VLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVMKKWLPELQHYAPGVPIVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYL DHP LVPVTTAQGEELRK IGA+ YIECSSKTQQ
Sbjct: 121 KLDLREDKHYLLDHPSLVPVTTAQGEELRKHIGATCYIECSSKTQQ 166

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9SU67|RAC8_ARATH Rac-like GTP-binding protein ARAC8 OS=Arabidopsis thaliana GN=ARAC8 PE=1 SV=2

 Score =  327 bits (838), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 150/166 (90%), Positives = 160/166 (96%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSAS+FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS NVV EG TVNLGL
Sbjct: 1   MASSASKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSVNVVVEGITVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVLAFSL+SRASYENV KKWIPELQH++PGVP+VLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYENVFKKWIPELQHFAPGVPIVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           K+DLRED+HYL+DHPGL PVTT+QGEELRK IGA+YYIECSSKTQQ
Sbjct: 121 KMDLREDRHYLSDHPGLSPVTTSQGEELRKHIGATYYIECSSKTQQ 166

Acts as a negative regulator of abscisic acid (ABA) responses.

Arabidopsis thaliana (taxid: 3702)

>sp|O04369|RAC1_LOTJA Rac-like GTP-binding protein RAC1 OS=Lotus japonicus GN=RAC1 PE=2 SV=1

 Score =  310 bits (793), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 140/163 (85%), Positives = 155/163 (95%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           SASRFIKCVTVGDGAVGKTC+LI YTSN FPTDY+PTVFDNFSANVV +G+TVNLGLWDT
Sbjct: 2   SASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVDGSTVNLGLWDT 61

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYEN+ KKWIPEL+HY+PGVP++LVGTKLD
Sbjct: 62  AGQEDYNRLRPLSYRGADVFILAFSLISKASYENIAKKWIPELRHYAPGVPIILVGTKLD 121

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+DKH+LADHPG VP+TTAQGEELRK IGA  YIECSSKTQQ
Sbjct: 122 LRDDKHFLADHPGAVPITTAQGEELRKLIGAPAYIECSSKTQQ 164

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Lotus japonicus (taxid: 34305)

>sp|Q6ZHA3|RAC6_ORYSJ Rac-like GTP-binding protein 6 OS=Oryza sativa subsp. japonica GN=RAC6 PE=2 SV=1

 Score =  306 bits (784), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 140/162 (86%), Positives = 152/162 (93%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           SASRFIKCVTVGDGAVGKTCMLI YTSN FPTDY+PTVFDNFSANVV +G TVNLGLWDT
Sbjct: 2   SASRFIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVVDGNTVNLGLWDT 61

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP++LVGTKLD
Sbjct: 62  AGQEDYNRLRPLSYRGADVFLLAFSLISKASYENVSKKWIPELKHYAPGVPIILVGTKLD 121

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           LR+DK +  DHPG VP+TTAQGEELRKQIGA YYIECSSKTQ
Sbjct: 122 LRDDKQFFVDHPGAVPITTAQGEELRKQIGAPYYIECSSKTQ 163

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6EP31|RAC5_ORYSJ Rac-like GTP-binding protein 5 OS=Oryza sativa subsp. japonica GN=RAC5 PE=2 SV=2

 Score =  303 bits (777), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 138/163 (84%), Positives = 153/163 (93%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           SASRFIKCVTVGDGAVGKTCMLI YTSN FPTDY+PTVFDNFSANVV +G+TVNLGLWDT
Sbjct: 2   SASRFIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVVDGSTVNLGLWDT 61

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP++LVGTKLD
Sbjct: 62  AGQEDYNRLRPLSYRGADVFLLAFSLISKASYENVSKKWIPELRHYAPGVPIILVGTKLD 121

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+DK +  DHPG VP++TAQGEELRK IGA+ YIECSSKTQQ
Sbjct: 122 LRDDKQFFVDHPGAVPISTAQGEELRKLIGAAAYIECSSKTQQ 164

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|P92978|RAC11_ARATH Rac-like GTP-binding protein ARAC11 OS=Arabidopsis thaliana GN=ARAC11 PE=1 SV=2

 Score =  303 bits (776), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 138/163 (84%), Positives = 152/163 (93%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           SASRF+KCVTVGDGAVGKTC+LI YTSN FPTDY+PTVFDNFSANVV  G+TVNLGLWDT
Sbjct: 2   SASRFVKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVNGSTVNLGLWDT 61

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP+VLVGTKLD
Sbjct: 62  AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLD 121

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+DK +  DHPG VP+TTAQGEELRKQIGA  YIECSSKTQ+
Sbjct: 122 LRDDKQFFIDHPGAVPITTAQGEELRKQIGAPTYIECSSKTQE 164

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Arabidopsis thaliana (taxid: 3702)

>sp|Q39435|RAC1_BETVU Rac-like GTP-binding protein RHO1 OS=Beta vulgaris GN=RHO1 PE=2 SV=1

 Score =  301 bits (772), Expect = 9e-82,   Method: Compositional matrix adjust.
 Identities = 139/163 (85%), Positives = 150/163 (92%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           SASRFIKCVTVGDGAVGKTC+LI YTSN FPTDY+PTVFDNFSANVV  G TVNLGLWDT
Sbjct: 2   SASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVNGATVNLGLWDT 61

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP+VLVGTKLD
Sbjct: 62  AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLD 121

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+DK +  DHPG VP+TTAQGEELRK IGA  YIECSSKTQQ
Sbjct: 122 LRDDKQFFIDHPGAVPITTAQGEELRKLIGAPAYIECSSKTQQ 164

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Beta vulgaris (taxid: 161934)

>sp|Q40220|RAC2_LOTJA Rac-like GTP-binding protein RAC2 OS=Lotus japonicus GN=RAC2 PE=2 SV=1

 Score =  299 bits (766), Expect = 5e-81,   Method: Compositional matrix adjust.
 Identities = 136/163 (83%), Positives = 151/163 (92%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           S +RFIKCVTVGDGAVGKTCMLI YTSN FPTDY+PTVFDNFSANVV +G+TVNLGLWDT
Sbjct: 2   STARFIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVVDGSTVNLGLWDT 61

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDYNRLRPLSYRGADVF+LAFSL+SRASYEN+ KKWIPEL+HY+P VP+VLVGTKLD
Sbjct: 62  AGQEDYNRLRPLSYRGADVFLLAFSLLSRASYENISKKWIPELRHYAPTVPIVLVGTKLD 121

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LRED+ YL DHPG  P+TTAQGEEL+K IGA+ Y+ECSSKTQQ
Sbjct: 122 LREDRQYLIDHPGATPITTAQGEELKKAIGAAVYLECSSKTQQ 164

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Lotus japonicus (taxid: 34305)

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	168
345104379	211	small GTPase RacA [Gossypium thurberi] g	0.988	0.786	0.969	8e-92
224121658	211	predicted protein [Populus trichocarpa]	0.988	0.786	0.957	9e-92
224135767	211	predicted protein [Populus trichocarpa]	0.988	0.786	0.969	1e-91
352740726	210	Rac/Rop GTPase 1 [Aquilaria microcarpa]	0.988	0.790	0.963	1e-91
27527523	210	putative rac protein [Nicotiana tabacum]	0.988	0.790	0.951	1e-91
324984199	211	small GTPase [Gossypium barbadense]	0.988	0.786	0.963	2e-91
62240096	211	Rac2 [Gossypium hirsutum] gi|315307481|g	0.988	0.786	0.963	2e-91
225457107	210	PREDICTED: rac-like GTP-binding protein	0.988	0.790	0.945	3e-91
147817647	198	hypothetical protein VITISV_021505 [Viti	0.988	0.838	0.945	3e-91
345104383	211	small GTPase RacA [Gossypium schwendiman	0.988	0.786	0.963	4e-91

>gi|345104379|gb|AEN71011.1| small GTPase RacA [Gossypium thurberi] gi|345104381|gb|AEN71012.1| small GTPase RacA [Gossypium laxum] gi|345104385|gb|AEN71014.1| small GTPase RacA [Gossypium turneri] gi|345104389|gb|AEN71016.1| small GTPase RacA [Gossypium mustelinum] gi|345104393|gb|AEN71018.1| small GTPase RacA [Gossypium darwinii] gi|345104401|gb|AEN71022.1| small GTPase RacA [Gossypium barbadense var. brasiliense] gi|345104405|gb|AEN71024.1| small GTPase RacA [Gossypium barbadense var. peruvianum] gi|345104411|gb|AEN71027.1| small GTPase RacA [Gossypium armourianum] gi|345104413|gb|AEN71028.1| small GTPase RacA [Gossypium harknessii] gi|345104415|gb|AEN71029.1| small GTPase RacA [Gossypium davidsonii] gi|345104417|gb|AEN71030.1| small GTPase RacA [Gossypium klotzschianum] gi|345104419|gb|AEN71031.1| small GTPase RacA [Gossypium aridum] gi|345104421|gb|AEN71032.1| small GTPase RacA [Gossypium gossypioides] gi|345104423|gb|AEN71033.1| small GTPase RacA [Gossypium lobatum] gi|345104425|gb|AEN71034.1| small GTPase RacA [Gossypium trilobum]

 Score =  341 bits (874), Expect = 8e-92,   Method: Compositional matrix adjust.
 Identities = 161/166 (96%), Positives = 165/166 (99%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV EGTTVNLGL
Sbjct: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVVEGTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY+PGVPVVLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYAPGVPVVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYLADHPGL+PV+TAQGEELRKQIGA+YYIECSSKTQQ
Sbjct: 121 KLDLREDKHYLADHPGLLPVSTAQGEELRKQIGAAYYIECSSKTQQ 166

Source: Gossypium thurberi

Species: Gossypium thurberi

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224121658|ref|XP_002318640.1| predicted protein [Populus trichocarpa] gi|222859313|gb|EEE96860.1| predicted protein [Populus trichocarpa]

 Score =  340 bits (873), Expect = 9e-92,   Method: Compositional matrix adjust.
 Identities = 159/166 (95%), Positives = 164/166 (98%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV EGTTVNLGL
Sbjct: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVVEGTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY+PG+P+VLVG 
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYAPGIPIVLVGA 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA+YY+ECSSKTQQ
Sbjct: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAAYYVECSSKTQQ 166

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135767|ref|XP_002322155.1| predicted protein [Populus trichocarpa] gi|222869151|gb|EEF06282.1| predicted protein [Populus trichocarpa]

 Score =  340 bits (873), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 161/166 (96%), Positives = 163/166 (98%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV  EGTTVNLGL
Sbjct: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVAVEGTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY+PGVPVVLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYAPGVPVVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYLADHPGLVPVT AQGEELRKQIGA+YYIECSSKTQQ
Sbjct: 121 KLDLREDKHYLADHPGLVPVTMAQGEELRKQIGAAYYIECSSKTQQ 166

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|352740726|gb|AEQ62558.1| Rac/Rop GTPase 1 [Aquilaria microcarpa]

 Score =  340 bits (871), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 160/166 (96%), Positives = 164/166 (98%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDY+PTVFDNFSANV+ EGTTVNLGL
Sbjct: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYVPTVFDNFSANVIVEGTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY+PGVPVVLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYAPGVPVVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYLADHPG VPVTTAQGEELRKQIGA+YYIECSSKTQQ
Sbjct: 121 KLDLREDKHYLADHPGSVPVTTAQGEELRKQIGAAYYIECSSKTQQ 166

Source: Aquilaria microcarpa

Species: Aquilaria microcarpa

Genus: Aquilaria

Family: Thymelaeaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|27527523|emb|CAD42725.1| putative rac protein [Nicotiana tabacum]

 Score =  340 bits (871), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 158/166 (95%), Positives = 164/166 (98%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDY+PTVFDNFSANVV EGTTVNLGL
Sbjct: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYVPTVFDNFSANVVVEGTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYEN+LKKWIPELQHY+PG+PVVL GT
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENILKKWIPELQHYAPGIPVVLAGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKH+LADHPGLVPVTTAQGEELRKQIGA+YYIECSSKTQQ
Sbjct: 121 KLDLREDKHFLADHPGLVPVTTAQGEELRKQIGAAYYIECSSKTQQ 166

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|324984199|gb|ADY68833.1| small GTPase [Gossypium barbadense]

 Score =  339 bits (870), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 160/166 (96%), Positives = 164/166 (98%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV EGTT NLGL
Sbjct: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVVEGTTANLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY+PGVPVVLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYAPGVPVVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYLADHPGL+PV+TAQGEELRKQIGA+YYIECSSKTQQ
Sbjct: 121 KLDLREDKHYLADHPGLLPVSTAQGEELRKQIGAAYYIECSSKTQQ 166

Source: Gossypium barbadense

Species: Gossypium barbadense

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|62240096|gb|AAX77218.1| Rac2 [Gossypium hirsutum] gi|315307481|gb|ADU04142.1| small GTPase [Gossypium hirsutum] gi|345104397|gb|AEN71020.1| small GTPase RacA [Gossypium tomentosum] gi|345104409|gb|AEN71026.1| small GTPase RacA [Gossypium hirsutum subsp. latifolium]

 Score =  339 bits (869), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 160/166 (96%), Positives = 165/166 (99%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV EGTTVNLGL
Sbjct: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVVEGTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRAS+ENVLKKWIPELQHY+PGVPVVLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASHENVLKKWIPELQHYAPGVPVVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYLADHPGL+PV+TAQGEELRKQIGA+YYIECSSKTQQ
Sbjct: 121 KLDLREDKHYLADHPGLLPVSTAQGEELRKQIGAAYYIECSSKTQQ 166

Source: Gossypium hirsutum

Species: Gossypium hirsutum

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225457107|ref|XP_002283394.1| PREDICTED: rac-like GTP-binding protein 3 [Vitis vinifera] gi|297733824|emb|CBI15071.3| unnamed protein product [Vitis vinifera]

 Score =  338 bits (868), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 157/166 (94%), Positives = 166/166 (100%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSAS+FIKCVTVGDGAVGKTCMLICYTSNKFP+DYIPTVFDNFSANVVAEGTTVNLGL
Sbjct: 1   MASSASKFIKCVTVGDGAVGKTCMLICYTSNKFPSDYIPTVFDNFSANVVAEGTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSY+GADVF+LAFSLVSRASYENVLKKWIPELQH++PG+P+VLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYQGADVFILAFSLVSRASYENVLKKWIPELQHFAPGIPIVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA+YYIECSSKTQQ
Sbjct: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAAYYIECSSKTQQ 166

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147817647|emb|CAN60154.1| hypothetical protein VITISV_021505 [Vitis vinifera]

 Score =  338 bits (868), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 157/166 (94%), Positives = 166/166 (100%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSAS+FIKCVTVGDGAVGKTCMLICYTSNKFP+DYIPTVFDNFSANVVAEGTTVNLGL
Sbjct: 1   MASSASKFIKCVTVGDGAVGKTCMLICYTSNKFPSDYIPTVFDNFSANVVAEGTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSY+GADVF+LAFSLVSRASYENVLKKWIPELQH++PG+P+VLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYQGADVFILAFSLVSRASYENVLKKWIPELQHFAPGIPIVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA+YYIECSSKTQQ
Sbjct: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAAYYIECSSKTQQ 166

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|345104383|gb|AEN71013.1| small GTPase RacA [Gossypium schwendimanii]

 Score =  338 bits (867), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 160/166 (96%), Positives = 164/166 (98%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MASSAS FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV EGTTVNLGL
Sbjct: 1   MASSASSFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVVEGTTVNLGL 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY+PGVPVVLVGT
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYAPGVPVVLVGT 120

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLREDKHYLADHPGL+PV+TAQGEELRKQIGA+YYIECSSKTQQ
Sbjct: 121 KLDLREDKHYLADHPGLLPVSTAQGEELRKQIGAAYYIECSSKTQQ 166

Source: Gossypium schwendimanii

Species: Gossypium schwendimanii

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

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	168
UNIPROTKB|Q6Z808	214	RAC3 "Rac-like GTP-binding pro	0.988	0.775	0.933	7.2e-84
TAIR|locus:2170778	215	RAC10 "RAC-like 10" [Arabidops	0.988	0.772	0.939	6.4e-83
TAIR|locus:2097905	208	ROP10 "RHO-related protein fro	0.988	0.798	0.903	2.5e-81
UNIPROTKB|Q6ZHA3	197	RAC6 "Rac-like GTP-binding pro	0.964	0.822	0.864	3.1e-76
TAIR|locus:2080878	197	ROP1 "RHO-related protein from	0.970	0.827	0.846	3.5e-75
TAIR|locus:2204380	196	ARAC5 "RAC-like GTP binding pr	0.970	0.831	0.834	4e-74
TAIR|locus:2827916	197	ARAC1 "Arabidopsis RAC-like 1"	0.970	0.827	0.840	4e-74
TAIR|locus:2198566	195	ROP2 "RHO-related protein from	0.964	0.830	0.827	8.4e-74
TAIR|locus:2131606	198	RAC3 "RAC-like 3" [Arabidopsis	0.970	0.823	0.815	1.7e-73
TAIR|locus:2125399	197	RAC6 "RAC-like 6" [Arabidopsis	0.970	0.827	0.828	2.8e-73

UNIPROTKB|Q6Z808 RAC3 "Rac-like GTP-binding protein 3" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 840 (300.8 bits), Expect = 7.2e-84, P = 7.2e-84
 Identities = 155/166 (93%), Positives = 163/166 (98%)

Query:     1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
             MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV + TTVNLGL
Sbjct:     1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVVDSTTVNLGL 60

Query:    61 WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
             WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYEN++KKWIPELQHY+PGVP+VLVGT
Sbjct:    61 WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENIMKKWIPELQHYAPGVPIVLVGT 120

Query:   121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             KLDLREDKHYL DHPG++PVTTAQGEELRKQIGA+YYIECSSKTQQ
Sbjct:   121 KLDLREDKHYLLDHPGMIPVTTAQGEELRKQIGAAYYIECSSKTQQ 166

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2170778 RAC10 "RAC-like 10" [Arabidopsis thaliana (taxid:3702)]

 Score = 831 (297.6 bits), Expect = 6.4e-83, P = 6.4e-83
 Identities = 156/166 (93%), Positives = 162/166 (97%)

Query:     1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
             MASSAS+FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV EGTTVNLGL
Sbjct:     1 MASSASKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVVEGTTVNLGL 60

Query:    61 WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
             WDTAGQEDYNRLRPLSYRGADVFVL+FSLVSRASYENV KKWIPELQH++PGVP+VLVGT
Sbjct:    61 WDTAGQEDYNRLRPLSYRGADVFVLSFSLVSRASYENVFKKWIPELQHFAPGVPLVLVGT 120

Query:   121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             KLDLREDKHYLADHPGL PVTTAQGEELRK IGA+YYIECSSKTQQ
Sbjct:   121 KLDLREDKHYLADHPGLSPVTTAQGEELRKLIGATYYIECSSKTQQ 166

GO:0005576 "extracellular region" evidence=ISM

GO:0005886 "plasma membrane" evidence=IDA

GO:0019901 "protein kinase binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0009788 "negative regulation of abscisic acid mediated signaling pathway" evidence=IDA

GO:0019903 "protein phosphatase binding" evidence=IPI

GO:0007015 "actin filament organization" evidence=RCA

GO:0009531 "secondary cell wall" evidence=IDA

GO:0009664 "plant-type cell wall organization" evidence=IMP

GO:0005525 "GTP binding" evidence=TAS

TAIR|locus:2097905 ROP10 "RHO-related protein from plants 10" [Arabidopsis thaliana (taxid:3702)]

 Score = 816 (292.3 bits), Expect = 2.5e-81, P = 2.5e-81
 Identities = 150/166 (90%), Positives = 160/166 (96%)

Query:     1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
             MASSAS+FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS NVV EG TVNLGL
Sbjct:     1 MASSASKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSVNVVVEGITVNLGL 60

Query:    61 WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
             WDTAGQEDYNRLRPLSYRGADVFVLAFSL+SRASYENV KKWIPELQH++PGVP+VLVGT
Sbjct:    61 WDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYENVFKKWIPELQHFAPGVPIVLVGT 120

Query:   121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             K+DLRED+HYL+DHPGL PVTT+QGEELRK IGA+YYIECSSKTQQ
Sbjct:   121 KMDLREDRHYLSDHPGLSPVTTSQGEELRKHIGATYYIECSSKTQQ 166

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=IDA;TAS

GO:0009738 "abscisic acid mediated signaling pathway" evidence=TAS

GO:0009788 "negative regulation of abscisic acid mediated signaling pathway" evidence=TAS

GO:0003924 "GTPase activity" evidence=ISS

GO:0007015 "actin filament organization" evidence=RCA

GO:0009740 "gibberellic acid mediated signaling pathway" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

UNIPROTKB|Q6ZHA3 RAC6 "Rac-like GTP-binding protein 6" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 768 (275.4 bits), Expect = 3.1e-76, P = 3.1e-76
 Identities = 140/162 (86%), Positives = 152/162 (93%)

Query:     4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
             SASRFIKCVTVGDGAVGKTCMLI YTSN FPTDY+PTVFDNFSANVV +G TVNLGLWDT
Sbjct:     2 SASRFIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVVDGNTVNLGLWDT 61

Query:    64 AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
             AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP++LVGTKLD
Sbjct:    62 AGQEDYNRLRPLSYRGADVFLLAFSLISKASYENVSKKWIPELKHYAPGVPIILVGTKLD 121

Query:   124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
             LR+DK +  DHPG VP+TTAQGEELRKQIGA YYIECSSKTQ
Sbjct:   122 LRDDKQFFVDHPGAVPITTAQGEELRKQIGAPYYIECSSKTQ 163

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2080878 ROP1 "RHO-related protein from plants 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 758 (271.9 bits), Expect = 3.5e-75, P = 3.5e-75
 Identities = 138/163 (84%), Positives = 152/163 (93%)

Query:     4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
             SASRF+KCVTVGDGAVGKTC+LI YTSN FPTDY+PTVFDNFSANVV  G+TVNLGLWDT
Sbjct:     2 SASRFVKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVNGSTVNLGLWDT 61

Query:    64 AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
             AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP+VLVGTKLD
Sbjct:    62 AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLD 121

Query:   124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             LR+DK +  DHPG VP+TTAQGEELRKQIGA  YIECSSKTQ+
Sbjct:   122 LRDDKQFFIDHPGAVPITTAQGEELRKQIGAPTYIECSSKTQE 164

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

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

GO:0009860 "pollen tube growth" evidence=RCA;IMP

GO:0005886 "plasma membrane" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005819 "spindle" evidence=IDA

GO:0009524 "phragmoplast" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0030833 "regulation of actin filament polymerization" evidence=IGI

GO:0030834 "regulation of actin filament depolymerization" evidence=IGI

GO:0017157 "regulation of exocytosis" evidence=IDA

GO:0051650 "establishment of vesicle localization" evidence=IDA

GO:0032794 "GTPase activating protein binding" evidence=IPI

GO:0045177 "apical part of cell" evidence=IDA

GO:0007015 "actin filament organization" evidence=RCA

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0030036 "actin cytoskeleton organization" evidence=RCA

GO:0030048 "actin filament-based movement" evidence=RCA

GO:0003924 "GTPase activity" evidence=ISS

TAIR|locus:2204380 ARAC5 "RAC-like GTP binding protein 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 748 (268.4 bits), Expect = 4.0e-74, P = 4.0e-74
 Identities = 136/163 (83%), Positives = 150/163 (92%)

Query:     4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
             SASRFIKCVTVGDGAVGKTCMLI YTSN FPTDY+PTVFDNFSANVV +G TVNLGLWDT
Sbjct:     2 SASRFIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVVDGNTVNLGLWDT 61

Query:    64 AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
             AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP++LVGTKLD
Sbjct:    62 AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLD 121

Query:   124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             LR+DK +  DHPG VP+TT QGEEL+K IG+  YIECSSKTQQ
Sbjct:   122 LRDDKQFFIDHPGAVPITTNQGEELKKLIGSPIYIECSSKTQQ 164

GO:0005525 "GTP binding" evidence=IEA;IDA;TAS

GO:0005622 "intracellular" evidence=IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0003924 "GTPase activity" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0009524 "phragmoplast" evidence=IDA

GO:0019901 "protein kinase binding" evidence=IPI

GO:0000271 "polysaccharide biosynthetic process" evidence=RCA

GO:0007015 "actin filament organization" evidence=RCA

GO:0009825 "multidimensional cell growth" evidence=RCA

GO:0009932 "cell tip growth" evidence=RCA

GO:0010817 "regulation of hormone levels" evidence=RCA

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

GO:0071555 "cell wall organization" evidence=RCA

TAIR|locus:2827916 ARAC1 "Arabidopsis RAC-like 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 748 (268.4 bits), Expect = 4.0e-74, P = 4.0e-74
 Identities = 137/163 (84%), Positives = 150/163 (92%)

Query:     4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
             SASRFIKCVTVGDGAVGKTC+LI YTSN FPTDY+PTVFDNFSANVV  G TVNLGLWDT
Sbjct:     2 SASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVNGATVNLGLWDT 61

Query:    64 AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
             AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP+VLVGTKLD
Sbjct:    62 AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLD 121

Query:   124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             LR+DK +  DHPG VP+TTAQGEEL+K IGA  YIECSSKTQ+
Sbjct:   122 LRDDKQFFIDHPGAVPITTAQGEELKKLIGAPAYIECSSKTQE 164

GO:0005525 "GTP binding" evidence=IEA;ISS

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

GO:0009738 "abscisic acid mediated signaling pathway" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005819 "spindle" evidence=IDA

GO:0009524 "phragmoplast" evidence=IDA

GO:0009734 "auxin mediated signaling pathway" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

GO:0007015 "actin filament organization" evidence=RCA

TAIR|locus:2198566 ROP2 "RHO-related protein from plants 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 745 (267.3 bits), Expect = 8.4e-74, P = 8.4e-74
 Identities = 134/162 (82%), Positives = 150/162 (92%)

Query:     5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTA 64
             ASRFIKCVTVGDGAVGKTCMLI YTSN FPTDY+PTVFDNFSANVV +G TVNLGLWDTA
Sbjct:     2 ASRFIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVVDGNTVNLGLWDTA 61

Query:    65 GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDL 124
             GQEDYNRLRPLSYRGADVF+LAFSL+S+ASYEN+ KKWIPEL+HY+PGVP++LVGTKLDL
Sbjct:    62 GQEDYNRLRPLSYRGADVFILAFSLISKASYENIAKKWIPELRHYAPGVPIILVGTKLDL 121

Query:   125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             R+DK +  DHPG VP+TT QGEEL+K IG++ YIECSSKTQQ
Sbjct:   122 RDDKQFFIDHPGAVPITTNQGEELKKLIGSAVYIECSSKTQQ 163

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0009860 "pollen tube growth" evidence=RCA;IMP

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0000226 "microtubule cytoskeleton organization" evidence=RCA;IMP

GO:0000902 "cell morphogenesis" evidence=IGI

GO:0005886 "plasma membrane" evidence=IDA

GO:0009416 "response to light stimulus" evidence=IDA

GO:0010119 "regulation of stomatal movement" evidence=IMP

GO:0000271 "polysaccharide biosynthetic process" evidence=RCA

GO:0007015 "actin filament organization" evidence=RCA

GO:0009825 "multidimensional cell growth" evidence=RCA

GO:0009932 "cell tip growth" evidence=RCA

GO:0010817 "regulation of hormone levels" evidence=RCA

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

GO:0071555 "cell wall organization" evidence=RCA

TAIR|locus:2131606 RAC3 "RAC-like 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 742 (266.3 bits), Expect = 1.7e-73, P = 1.7e-73
 Identities = 133/163 (81%), Positives = 152/163 (93%)

Query:     4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
             SASRFIKCVTVGDGAVGKTC+LI YTSN FPTDY+PTVFDNFSANV+ +G T+NLGLWDT
Sbjct:     2 SASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVIVDGNTINLGLWDT 61

Query:    64 AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
             AGQEDYNRLRPLSYRGADVF+LAFSLVS+ASYENV KKW+PEL+HY+PGVP++LVGTKLD
Sbjct:    62 AGQEDYNRLRPLSYRGADVFLLAFSLVSKASYENVSKKWVPELRHYAPGVPIILVGTKLD 121

Query:   124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             LR+DK + A+HPG VP++TAQGEEL+K IGA  YIECS+KTQQ
Sbjct:   122 LRDDKQFFAEHPGAVPISTAQGEELKKLIGAPAYIECSAKTQQ 164

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

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0030427 "site of polarized growth" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005819 "spindle" evidence=IDA

GO:0000226 "microtubule cytoskeleton organization" evidence=RCA

GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA

GO:0007015 "actin filament organization" evidence=RCA

GO:0009086 "methionine biosynthetic process" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

TAIR|locus:2125399 RAC6 "RAC-like 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 740 (265.6 bits), Expect = 2.8e-73, P = 2.8e-73
 Identities = 135/163 (82%), Positives = 149/163 (91%)

Query:     4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
             SASRFIKCVTVGDGAVGKTC+LI YTSN FPTDY+PTVFDNFSANVV  G TVNLGLWDT
Sbjct:     2 SASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVNGATVNLGLWDT 61

Query:    64 AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
             AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP+VLVGTKLD
Sbjct:    62 AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLD 121

Query:   124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             LR+DK +  DHPG VP+TT QGEEL+K IGA  YIECSSK+Q+
Sbjct:   122 LRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQE 164

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

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

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0007015 "actin filament organization" evidence=RCA

---

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)
P34145	RAC1B_DICDI	No assigned EC number	0.6125	0.9404	0.8144	yes	no
Q6Z7L8	RAC7_ORYSJ	No assigned EC number	0.8220	0.9702	0.8274	no	no
Q6RUV5	RAC1_RAT	No assigned EC number	0.6312	0.9404	0.8229	yes	no
Q67VP4	RAC4_ORYSJ	No assigned EC number	0.9277	0.9880	0.7720	no	no
P63000	RAC1_HUMAN	No assigned EC number	0.6312	0.9404	0.8229	yes	no
Q9SU67	RAC8_ARATH	No assigned EC number	0.9036	0.9880	0.7980	no	no
Q6ZHA3	RAC6_ORYSJ	No assigned EC number	0.8641	0.9642	0.8223	no	no
C4YDI6	CDC42_CANAW	No assigned EC number	0.5687	0.9404	0.8272	N/A	no
Q9SBJ6	RAC6_ARATH	No assigned EC number	0.8282	0.9702	0.8274	no	no
P40792	RAC1_DROME	No assigned EC number	0.6125	0.9404	0.8229	yes	no
P62998	RAC1_BOVIN	No assigned EC number	0.6312	0.9404	0.8229	yes	no
P62999	RAC1_CANFA	No assigned EC number	0.6312	0.9404	0.8229	yes	no
O82481	RAC10_ARATH	No assigned EC number	0.9397	0.9880	0.7720	yes	no
Q41253	RAC13_GOSHI	No assigned EC number	0.8159	0.9702	0.8316	N/A	no
Q38903	RAC2_ARATH	No assigned EC number	0.8159	0.9702	0.8109	no	no
Q38902	RAC1_ARATH	No assigned EC number	0.8404	0.9702	0.8274	no	no
Q41254	RAC9_GOSHI	No assigned EC number	0.8220	0.9702	0.8316	N/A	no
Q24814	RACA_ENTHI	No assigned EC number	0.6062	0.9404	0.8061	N/A	no
Q24816	RACC_ENTHI	No assigned EC number	0.5562	0.9404	0.8144	N/A	no
O04369	RAC1_LOTJA	No assigned EC number	0.8588	0.9702	0.8274	N/A	no
Q40220	RAC2_LOTJA	No assigned EC number	0.8343	0.9702	0.8316	N/A	no
Q38919	RAC4_ARATH	No assigned EC number	0.8271	0.9642	0.8307	no	no
Q35638	RHO1_PEA	No assigned EC number	0.8343	0.9702	0.8274	N/A	no
Q6Z808	RAC3_ORYSJ	No assigned EC number	0.9337	0.9880	0.7757	yes	no
P0CY33	CDC42_CANAL	No assigned EC number	0.5687	0.9404	0.8272	N/A	no
P63001	RAC1_MOUSE	No assigned EC number	0.6312	0.9404	0.8229	yes	no
P92978	RAC11_ARATH	No assigned EC number	0.8466	0.9702	0.8274	no	no
Q38937	RAC5_ARATH	No assigned EC number	0.8343	0.9702	0.8316	no	no
Q38912	RAC3_ARATH	No assigned EC number	0.8159	0.9702	0.8232	no	no
Q39435	RAC1_BETVU	No assigned EC number	0.8527	0.9702	0.8274	N/A	no
Q6EP31	RAC5_ORYSJ	No assigned EC number	0.8466	0.9702	0.8274	no	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pm.C_LG_XV0185 hypothetical protein (211 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	168
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	1e-121
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	3e-97
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	6e-97
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	2e-82
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	7e-74
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	1e-70
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	2e-70
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	5e-67
pfam00071	162	pfam00071, Ras, Ras family	2e-64
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	4e-64
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	4e-62
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	6e-53
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	1e-52
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	2e-48
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	2e-46
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	3e-39
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	3e-38
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	3e-38
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	4e-38
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	2e-35
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	5e-35
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	1e-33
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	8e-32
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	3e-31
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	3e-31
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	2e-29
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	2e-29
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	1e-28
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	5e-28
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	9e-28
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	3e-27
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	3e-27
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	4e-27
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	4e-24
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	1e-23
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	3e-23
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	6e-23
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	6e-23
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	7e-23
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	1e-22
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	3e-22
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	4e-22
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	7e-22
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	1e-21
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	1e-21
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	2e-21
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	4e-21
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	7e-21
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	9e-21
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	3e-20
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	4e-20
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	6e-20
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	6e-20
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	1e-19
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	2e-19
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	2e-19
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	2e-19
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	4e-19
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	6e-19
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	7e-19
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	8e-19
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	2e-18
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	4e-18
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	5e-18
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	7e-18
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	1e-17
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	4e-17
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	5e-17
pfam08477	116	pfam08477, Miro, Miro-like protein	7e-17
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	8e-17
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	6e-16
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	1e-15
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	2e-15
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	3e-14
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	4e-14
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	1e-13
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	2e-13
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	9e-13
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	1e-12
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	1e-11
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	2e-11
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	4e-11
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	1e-10
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	8e-10
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	3e-09
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	5e-07
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	1e-06
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	2e-05
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	1e-04
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	0.004

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

 Score =  339 bits (870), Expect = e-121
 Identities = 139/159 (87%), Positives = 151/159 (94%)

Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQE 67
           FIKCVTVGDGAVGKTCMLI YTSN FPTDY+PTVFDNFSANVV +G TVNLGLWDTAGQE
Sbjct: 1   FIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVVDGNTVNLGLWDTAGQE 60

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           DYNRLRPLSYRGADVF+LAFSL+S+ASYENVLKKWIPEL+HY+PGVP+VLVGTKLDLR+D
Sbjct: 61  DYNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPELRHYAPGVPIVLVGTKLDLRDD 120

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           K + ADHPG VP+TTAQGEELRKQIGA+ YIECSSKTQQ
Sbjct: 121 KQFFADHPGAVPITTAQGEELRKQIGAAAYIECSSKTQQ 159

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

 Score =  277 bits (712), Expect = 3e-97
 Identities = 96/158 (60%), Positives = 120/158 (75%), Gaps = 2/158 (1%)

Query: 11  CVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYN 70
            V VGDGAVGKTC+LI YT+N FP DY+PTVF+N+SA+V  +G  V LGLWDTAGQEDY+
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTVFENYSADVEVDGKPVELGLWDTAGQEDYD 60

Query: 71  RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHY 130
           RLRPLSY   DVF++ FS+ S AS+ENV +KW PE++H+ P VP++LVGTKLDLR DK  
Sbjct: 61  RLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNVPIILVGTKLDLRNDKST 120

Query: 131 LAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           L +       PVT  QG+ L K+IGA  Y+ECS+ TQ+
Sbjct: 121 LEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQE 158

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

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

 Score =  277 bits (710), Expect = 6e-97
 Identities = 99/159 (62%), Positives = 125/159 (78%), Gaps = 1/159 (0%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IK V VGDGAVGKTC+LI YT+NKFPT+Y+PTVFDN+SANV  +G  VNLGLWDTAGQE+
Sbjct: 1   IKIVVVGDGAVGKTCLLISYTTNKFPTEYVPTVFDNYSANVTVDGKQVNLGLWDTAGQEE 60

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF+L FS+ S +S+ENV  KW PE++HY P VP++LVGTK+DLR+D 
Sbjct: 61  YDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYCPNVPIILVGTKIDLRDDG 120

Query: 129 HYLADH-PGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           + L        P+T  +GE+L K+IGA  Y+ECS+ TQ+
Sbjct: 121 NTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQE 159

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|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 =  240 bits (613), Expect = 2e-82
 Identities = 101/160 (63%), Positives = 124/160 (77%), Gaps = 2/160 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 2   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 61

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 62  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 121

Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 122 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 161

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

 Score =  219 bits (560), Expect = 7e-74
 Identities = 82/160 (51%), Positives = 107/160 (66%), Gaps = 3/160 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV-VAEGTTVNLGLWDTAGQE 67
           +K V VGDG  GKTC+L+ Y    FP +Y+PTVF+N+   + V  G  + L LWDTAGQE
Sbjct: 4   VKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTVFENYVTTLQVPNGKIIELALWDTAGQE 63

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           DY+RLRPLSY   DV ++ +S+ +  S +NV  KW PE+ H+ PG P+VLVG K DLR+D
Sbjct: 64  DYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEVNHFCPGTPIVLVGLKTDLRKD 123

Query: 128 KHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           K+ ++     GL PVT  QGE + K IGA  YIECS+K  
Sbjct: 124 KNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLM 163

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

 Score =  211 bits (538), Expect = 1e-70
 Identities = 94/160 (58%), Positives = 114/160 (71%), Gaps = 2/160 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LICYT+N FP +YIPTVFDN+SA    +G TV+L LWDTAGQE+
Sbjct: 4   IKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQEE 63

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLR LSY   +VF++ FS+ S +SYENV  KW PE+ H+ P VP++LVGTK DLR D 
Sbjct: 64  YDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDA 123

Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             L      G  P+T  QG  L KQI A  Y+ECS+  Q 
Sbjct: 124 DTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQD 163

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

 Score =  210 bits (536), Expect = 2e-70
 Identities = 87/160 (54%), Positives = 118/160 (73%), Gaps = 2/160 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 2   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 61

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 62  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 121

Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +         P+T   GE+L + + A  Y+ECS+ TQ+
Sbjct: 122 STIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQK 161

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

 Score =  201 bits (513), Expect = 5e-67
 Identities = 79/159 (49%), Positives = 117/159 (73%), Gaps = 2/159 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           +KCV VGDGAVGKT +++ YT+N +PT+Y+PT FDNFS  V+ +G  V L L DTAGQ++
Sbjct: 1   LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQDE 60

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           +++LRPL Y   DVF+L FS+V+ +S++N+ +KWIPE++ ++P  P++LVGT+ DLR D 
Sbjct: 61  FDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRTDV 120

Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           + L      G  PV+ ++ + L ++IGA  YIECS+ TQ
Sbjct: 121 NVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQ 159

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|215692 pfam00071, Ras, Ras family

 Score =  194 bits (496), Expect = 2e-64
 Identities = 72/158 (45%), Positives = 101/158 (63%), Gaps = 14/158 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQED 68
           K V VGDG VGK+ +LI +T NKFP +YIPT+  D ++  +  +G TV L +WDTAGQE 
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQER 60

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSP-GVPVVLVGTKLDLRED 127
           +  LRPL YRGA  F+L + + SR S+ENV KKW+ E+  ++   VP+VLVG K DL + 
Sbjct: 61  FRALRPLYYRGAQGFLLVYDITSRDSFENV-KKWLEEILRHADENVPIVLVGNKCDLEDQ 119

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           +           V+T +GE L K++G   ++E S+KT 
Sbjct: 120 R----------VVSTEEGEALAKELGL-PFMETSAKTN 146

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

 Score =  194 bits (494), Expect = 4e-64
 Identities = 79/159 (49%), Positives = 112/159 (70%), Gaps = 2/159 (1%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 3   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 62

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 63  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 122

Query: 130 YLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            + +       PV   +G  + ++IGA  Y+ECS+KT++
Sbjct: 123 TIRELAKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKE 161

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

 Score =  189 bits (480), Expect = 4e-62
 Identities = 85/160 (53%), Positives = 122/160 (76%), Gaps = 2/160 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           +KCV VGDGAVGKTC+L+ Y ++ FP +Y+PTVFD+++ +V   G    LGL+DTAGQED
Sbjct: 1   LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQED 60

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+V+ AS++NV ++W+PEL+ Y+P VP +L+GT++DLR+D 
Sbjct: 61  YDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPYLLIGTQIDLRDDP 120

Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             LA  +     P+T  QG++L K+IGA  Y+ECS+ TQ+
Sbjct: 121 KTLARLNDMKEKPITVEQGQKLAKEIGACCYVECSALTQK 160

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

 Score =  165 bits (420), Expect = 6e-53
 Identities = 66/158 (41%), Positives = 98/158 (62%), Gaps = 2/158 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
            K V VGD   GKT +L  +  + FP +Y+PTVF+N++A+   +   + L LWDT+G   
Sbjct: 2   CKIVLVGDSQCGKTALLQVFAKDSFPENYVPTVFENYTASFEVDKQRIELSLWDTSGSPY 61

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+ +RPLSY  +D  ++ F +    + ++VLKKW  E++ + P  PV+LVG K DLR D 
Sbjct: 62  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREFCPNTPVLLVGCKSDLRTDL 121

Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
             L +  +   +PV+  QG  L KQIGA+ Y+ECS+KT
Sbjct: 122 STLTELSNKRQIPVSHEQGRNLAKQIGAAAYVECSAKT 159

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

 Score =  165 bits (419), Expect = 1e-52
 Identities = 72/157 (45%), Positives = 99/157 (63%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKT +L  +T  +FP +Y PTVF+N+  +   +G  V L LWDTAGQE+Y
Sbjct: 3   KLVIVGDGACGKTSLLYVFTLGEFPEEYHPTVFENYVTDCRVDGKPVQLALWDTAGQEEY 62

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
            RLRPLSY  A V ++ F++ +  S ENV  KWI E++ Y P VPV+LVG K DLR++  
Sbjct: 63  ERLRPLSYSKAHVILIGFAIDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQEAV 122

Query: 130 YLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
              ++     V   Q + + + IGA  Y+ECS+ T +
Sbjct: 123 AKGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGE 159

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

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

 Score =  154 bits (390), Expect = 2e-48
 Identities = 68/154 (44%), Positives = 96/154 (62%), Gaps = 2/154 (1%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V +GDGA GKT +L  +T   FP  Y PTVF+N+  ++  +G  V L LWDTAGQE++
Sbjct: 2   KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYIHDIFVDGLAVELSLWDTAGQEEF 61

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLR LSY    V +L FS+ +  S ENV  KW+ E++H+ PGV +VLV  K DLRE ++
Sbjct: 62  DRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIRHHCPGVKLVLVALKCDLREPRN 121

Query: 130 YLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
                     ++  +G  + K+I A  Y+ECS+K
Sbjct: 122 ERDRGTHT--ISYEEGLAVAKRINACRYLECSAK 153

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

 Score =  148 bits (377), Expect = 2e-46
 Identities = 56/158 (35%), Positives = 90/158 (56%), Gaps = 14/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +GD  VGKT +L+ +  NKF  +Y  T+  +F S  +  +G  V L +WDTAGQE
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQE 60

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            +  +    YRGA   +L + + +R S+EN+  KW+ EL+ Y  P +P++LVG K DL +
Sbjct: 61  RFRSITSSYYRGAHGAILVYDVTNRESFENL-DKWLNELKEYAPPNIPIILVGNKSDLED 119

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           ++           V+T + ++  K+ G  ++ E S+KT
Sbjct: 120 ERQ----------VSTEEAQQFAKENGLLFF-ETSAKT 146

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|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score =  132 bits (333), Expect = 3e-39
 Identities = 62/157 (39%), Positives = 94/157 (59%), Gaps = 2/157 (1%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGD   GKT +L  +  + +P  Y+PTVF+N++A+   +   + L +WDT+G   Y
Sbjct: 3   KIVVVGDTQCGKTALLHVFAKDNYPESYVPTVFENYTASFEIDKHRIELNMWDTSGSSYY 62

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           + +RPL+Y  +D  ++ F +    + ++VLKKW  E Q + P   +VLVG KLD+R D  
Sbjct: 63  DNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKLVLVGCKLDMRTDLS 122

Query: 130 YLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            L +     L+PVT  QG  L +Q+GA  Y+ECSS+ 
Sbjct: 123 TLRELSKQRLIPVTHEQGSLLARQLGAVAYVECSSRM 159

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

 Score =  129 bits (326), Expect = 3e-38
 Identities = 51/168 (30%), Positives = 85/168 (50%), Gaps = 6/168 (3%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWD 62
              +  K V +GDG VGKT +L     ++FP  Y PT+ +   A  +      + L LWD
Sbjct: 1   LFMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWD 60

Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTK 121
           TAGQE+Y  LRP  YRGA+  ++ +    R S + + ++W+ EL+      VP++LVG K
Sbjct: 61  TAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNK 120

Query: 122 LDLRED----KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           +DL ++    +  L      V +     + +  ++     +E S+K+ 
Sbjct: 121 IDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSL 168

Length = 219

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

 Score =  127 bits (322), Expect = 3e-38
 Identities = 52/158 (32%), Positives = 83/158 (52%), Gaps = 14/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQE 67
            K + +GD  VGK+ +L  +T  KF   Y  T+  +F    +  +G  V L +WDTAGQE
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQE 60

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLRE 126
            +  +    YRGA   +L + + +R S+EN+ + W+ EL+ Y+ P V ++LVG K DL E
Sbjct: 61  RFRSITSSYYRGAVGALLVYDITNRESFENL-ENWLKELREYASPNVVIMLVGNKSDLEE 119

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            +           V+  + E   ++ G   + E S+KT
Sbjct: 120 QRQ----------VSREEAEAFAEEHGLP-FFETSAKT 146

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  128 bits (322), Expect = 4e-38
 Identities = 63/159 (39%), Positives = 94/159 (59%), Gaps = 2/159 (1%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGD   GKT +L  +  + FP +Y+PTVF+N++A+   +   + L LWDT+G   Y
Sbjct: 7   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYY 66

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           + +RPLSY  +D  ++ F +    + ++VLKKW  E+Q + P   ++LVG K DLR D  
Sbjct: 67  DNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVS 126

Query: 130 YLADHPG--LVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            L +       PV+  QG  + KQIGA+ YIECS+   +
Sbjct: 127 TLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSE 165

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|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score =  122 bits (308), Expect = 2e-35
 Identities = 61/159 (38%), Positives = 90/159 (56%), Gaps = 2/159 (1%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGD   GKT ML     + +P  Y+PTVF+N++A +  E   V L LWDT+G   Y
Sbjct: 15  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSPYY 74

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           + +RPL Y  +D  +L F +     +++ LKKW  E+  Y P   ++L+G K DLR D  
Sbjct: 75  DNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDYCPSTRILLIGCKTDLRTDLS 134

Query: 130 YLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            L +  +    P++  QG  + KQ+GA  Y+ECS+ T +
Sbjct: 135 TLMELSNQKQAPISYEQGCAMAKQLGAEAYLECSAFTSE 173

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

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

 Score =  119 bits (301), Expect = 5e-35
 Identities = 55/162 (33%), Positives = 89/162 (54%), Gaps = 20/162 (12%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V +G G VGK+ + I + S +F  +Y PT+ D++   +V +G T  L + DTAGQE++
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIEDSYRKQIVVDGETYTLDILDTAGQEEF 60

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDL--- 124
           + +R    R  D F+L +S+ SR S+E +  +++ I  +      VP+VLVG K DL   
Sbjct: 61  SAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRV-KDKEDVPIVLVGNKCDLENE 119

Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           R+             V+T +GE L ++ G   ++E S+KT  
Sbjct: 120 RQ-------------VSTEEGEALAEEWGCP-FLETSAKTNI 147

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

 Score =  116 bits (292), Expect = 1e-33
 Identities = 56/158 (35%), Positives = 86/158 (54%), Gaps = 14/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+G VGKT +++ Y  NKF   +  T   +F    V   G  ++L +WDTAGQE
Sbjct: 1   FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE 60

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLRE 126
            Y+ L P+ YR AD  +L + +    S++ V KKWI EL+      + +V+VG K+DL  
Sbjct: 61  RYHALGPIYYRDADGAILVYDITDADSFQKV-KKWIKELKQMRGNNISLVIVGNKIDLER 119

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            +           V+ ++ EE  K +GA ++ E S+KT
Sbjct: 120 QRV----------VSKSEAEEYAKSVGAKHF-ETSAKT 146

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

 Score =  111 bits (279), Expect = 8e-32
 Identities = 51/129 (39%), Positives = 69/129 (53%), Gaps = 7/129 (5%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNK-FPTDYIPTVFDNFSANVVAE-GTTVNLGLWDTAGQ 66
           IK V VGD  VGK+ +L     NK   T+Y P    N+   V+ E G T    L DTAGQ
Sbjct: 2   IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ 61

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSP-GVPVVLVGTKLDL 124
           EDY+ +R L YR  +  +  F +V      E +L+K   E+ H++  GVP++LVG K+DL
Sbjct: 62  EDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDL 121

Query: 125 R---EDKHY 130
           R      H 
Sbjct: 122 RDAKLKTHV 130

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

 Score =  109 bits (276), Expect = 3e-31
 Identities = 50/159 (31%), Positives = 84/159 (52%), Gaps = 14/159 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V +G G VGK+ + I +    F  DY PT+ D++   +  +G    L + DTAGQE++
Sbjct: 2   KLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEF 61

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYE--NVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           + +R    R  + F+L +S+  R S+E     ++ I  ++     VP+VLVG K DL  +
Sbjct: 62  SAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRD-DVPIVLVGNKCDLESE 120

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +           V+T +G+EL +Q G   ++E S+K + 
Sbjct: 121 RV----------VSTEEGKELARQWGCP-FLETSAKERV 148

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

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

 Score =  109 bits (276), Expect = 3e-31
 Identities = 49/159 (30%), Positives = 85/159 (53%), Gaps = 14/159 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V +G G VGK+ + I +    F  +Y PT+ D++   +  +G    L + DTAGQE++
Sbjct: 4   KLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEF 63

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           + +R    R  + F+L +S+  R S+E +   ++ I  ++     VP+VLVG K DL  +
Sbjct: 64  SAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDD-VPIVLVGNKCDLENE 122

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +           V+T +G+EL +Q G   ++E S+K + 
Sbjct: 123 RV----------VSTEEGKELARQWGCP-FLETSAKERI 150

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

 Score =  105 bits (264), Expect = 2e-29
 Identities = 50/161 (31%), Positives = 84/161 (52%), Gaps = 20/161 (12%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQE 67
            K + +GD  VGK+C+L+ ++ + F   +I T+  +F    +  +G  + L +WDTAGQE
Sbjct: 4   FKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQE 63

Query: 68  DYNRLRPLS---YRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLD 123
              R R ++   YRGA   +L + +    S+EN+ K W+  + +H S  V  +LVG K D
Sbjct: 64  ---RFRTITTSYYRGAMGIILVYDITDEKSFENI-KNWMRNIDEHASEDVERMLVGNKCD 119

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           + E +           V+  +GE L ++ G  +  E S+K 
Sbjct: 120 MEEKRV----------VSKEEGEALAREYGIKFL-ETSAKA 149

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

 Score =  105 bits (263), Expect = 2e-29
 Identities = 47/147 (31%), Positives = 74/147 (50%), Gaps = 14/147 (9%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF---SANVVAEGTTVNLGLWDTAG 65
           IK + VG+G VGK+ M+  +    F  DY  T+  +F      +      V L LWDTAG
Sbjct: 1   IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAG 60

Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR 125
           QE+++ +    YRGA   +L FS   R S+E + + W  +++     +P+VLV TK+DL 
Sbjct: 61  QEEFDAITKAYYRGAQACILVFSTTDRESFEAI-ESWKEKVEAECGDIPMVLVQTKIDLL 119

Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQI 152
           +             +T  + E L K++
Sbjct: 120 DQ----------AVITNEEAEALAKRL 136

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

 Score =  103 bits (258), Expect = 1e-28
 Identities = 55/158 (34%), Positives = 84/158 (53%), Gaps = 16/158 (10%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQED 68
           K V +GD +VGKT ++  +  + F   Y  T+  D  S  +  +  TV L LWDTAGQE 
Sbjct: 2   KLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQER 61

Query: 69  YNRLRPLSY-RGADVFVLAFSLVSRASYENVLKKWIPELQH-YSPGVPVVLVGTKLDLRE 126
           +  L P SY R + V V+ + + +R S++N   KWI +++      V +VLVG K DL +
Sbjct: 62  FRSLIP-SYIRDSSVAVVVYDITNRQSFDNT-DKWIDDVRDERGNDVIIVLVGNKTDLSD 119

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            +           V+T +GE+  K+  A  +IE S+K 
Sbjct: 120 KRQ----------VSTEEGEKKAKENNA-MFIETSAKA 146

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

 Score =  101 bits (254), Expect = 5e-28
 Identities = 60/159 (37%), Positives = 88/159 (55%), Gaps = 15/159 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VG G VGK+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y
Sbjct: 3   KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY 62

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           + +R    R  + F+  F++ SR S+E++   ++ I  ++  S  VP+VLVG K DL   
Sbjct: 63  SAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKD-SDDVPMVLVGNKCDLAAR 121

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                       V+T QG++L K  G   YIE S+KT+Q
Sbjct: 122 T-----------VSTRQGQDLAKSYGIP-YIETSAKTRQ 148

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

 Score =  101 bits (253), Expect = 9e-28
 Identities = 51/161 (31%), Positives = 81/161 (50%), Gaps = 16/161 (9%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
           +K + +GD  VGK+ +L+ +T + F  D   T+  +F    V  +G  V L +WDTAGQE
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQE 60

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLR 125
            +  L    YRGA   +L + +  R +++N L  W+ EL  YS  P    +LVG K+D  
Sbjct: 61  RFRTLTSSYYRGAQGVILVYDVTRRDTFDN-LDTWLNELDTYSTNPDAVKMLVGNKIDKE 119

Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                         VT  +G++  ++     +IE S+KT+ 
Sbjct: 120 N-----------REVTREEGQKFARKHNM-LFIETSAKTRI 148

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

 Score =  100 bits (250), Expect = 3e-27
 Identities = 49/157 (31%), Positives = 82/157 (52%), Gaps = 14/157 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQED 68
           K + +GD  VGK+C+L+ +  + +   YI T+  +F    +  +G TV L +WDTAGQE 
Sbjct: 4   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAGQER 63

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           +  +    YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  +LVG K DL + 
Sbjct: 64  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTDK 122

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           K           V   + +E   ++G   ++E S+K 
Sbjct: 123 K----------VVDYTEAKEFADELGIP-FLETSAKN 148

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

 Score = 99.5 bits (249), Expect = 3e-27
 Identities = 52/157 (33%), Positives = 81/157 (51%), Gaps = 14/157 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQED 68
           K V +GD +VGK+ +++ +  N+F  +   T+   F    V  + TTV   +WDTAGQE 
Sbjct: 3   KLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQER 62

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLRED 127
           Y  L P+ YRGA   ++ + + S  S+E   K W+ ELQ H  P + + L G K DL   
Sbjct: 63  YRSLAPMYYRGAAAAIVVYDITSEESFEK-AKSWVKELQEHGPPNIVIALAGNKADLESK 121

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +           V+T + +E   + G   ++E S+KT
Sbjct: 122 RQ----------VSTEEAQEYADENGL-LFMETSAKT 147

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

 Score =  100 bits (250), Expect = 4e-27
 Identities = 71/182 (39%), Positives = 95/182 (52%), Gaps = 28/182 (15%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYI------PTVF--DNF--------SANVVAE 52
           IKCV VGD AVGKT ++     NK  T Y       PTV+  D +         +  V +
Sbjct: 3   IKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVD 62

Query: 53  GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPG 112
           G +V+L LWDT G  D+++ R  +Y  +DV +L FS+ S  S  NV   W PE++H+ P 
Sbjct: 63  GVSVSLRLWDTFG--DHDKDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPR 120

Query: 113 VPVVLVGTKLDLRE---DKHYLADHPGLVPVTTA------QGEELRKQIGASYYIECSSK 163
           VPV+LVG KLDLR    D+   A  P   P+  A       G  + K++G  YY E S  
Sbjct: 121 VPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYY-ETSVV 179

Query: 164 TQ 165
           TQ
Sbjct: 180 TQ 181

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

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

 Score = 92.2 bits (229), Expect = 4e-24
 Identities = 59/171 (34%), Positives = 79/171 (46%), Gaps = 25/171 (14%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-----------SANVVAEGTTVN 57
           IK + +GD  VGKT  L  YT NKF   +I TV  +F                 +   V+
Sbjct: 5   IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAFRVH 64

Query: 58  LGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQH--YSPGVPV 115
           L LWDTAGQE +  L    +R A  F+L F L S  S+ NV + W+ +LQ   Y     +
Sbjct: 65  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNV-RNWMSQLQAHAYCENPDI 123

Query: 116 VLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           VL+G K DL + +           V+  Q  EL  + G   Y E S+ T Q
Sbjct: 124 VLIGNKADLPDQRE----------VSERQARELADKYGIP-YFETSAATGQ 163

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

 Score = 90.5 bits (225), Expect = 1e-23
 Identities = 53/159 (33%), Positives = 82/159 (51%), Gaps = 14/159 (8%)

Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
              K V VG G VGK+ + I +  + F TDY PT+ D+++     +G    L + DTAGQ
Sbjct: 1   PTYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCEIDGQWARLDILDTAGQ 60

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLK--KWIPELQHYSPGVPVVLVGTKLDL 124
           E+++ +R    R  + F+L FS+  R S+E V K    I  ++      P++LVG K DL
Sbjct: 61  EEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDE-FPMILVGNKADL 119

Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
              +           V+  +G+EL +Q+    YIE S+K
Sbjct: 120 EHQRQ----------VSREEGQELARQLKIP-YIETSAK 147

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

 Score = 90.3 bits (224), Expect = 3e-23
 Identities = 54/161 (33%), Positives = 87/161 (54%), Gaps = 16/161 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V +GDG VGKT + I    N F   Y PT+ D++   VV +G    L + DTAGQE+Y
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQEEY 60

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ----HYSPGVPVVLVGTKLDLR 125
             LR    R  + F+L +S+ SR+++E V +++  ++Q      +  VP+++VG K D  
Sbjct: 61  TALRDQWIREGEGFILVYSITSRSTFERV-ERFREQIQRVKDESAADVPIMIVGNKCDKV 119

Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            ++           V+T +G  L +++G   +IE S+KT  
Sbjct: 120 YERE----------VSTEEGAALARRLG-CEFIEASAKTNV 149

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

 Score = 89.5 bits (222), Expect = 6e-23
 Identities = 54/163 (33%), Positives = 86/163 (52%), Gaps = 14/163 (8%)

Query: 5   ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTA 64
           AS   K V VG G VGK+ + I +  N F  +Y PT+ D++    V +  T  L + DTA
Sbjct: 2   ASTEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYRKQCVIDEETCLLDILDTA 61

Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYE--NVLKKWIPELQHYSPGVPVVLVGTKL 122
           GQE+Y+ +R    R    F+  +S+ SR+S+E     ++ I  ++     VP++LVG K 
Sbjct: 62  GQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKD-KDRVPMILVGNKC 120

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           DL  ++           V+T +G+EL K  G   ++E S+K +
Sbjct: 121 DLDSERQ----------VSTGEGQELAKSFGIP-FLETSAKQR 152

Length = 189

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

 Score = 88.8 bits (221), Expect = 6e-23
 Identities = 49/154 (31%), Positives = 83/154 (53%), Gaps = 14/154 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQED 68
           K V +GD  VGK+ +L  +T N+F  D   T+   F+   +  +G T+   +WDTAGQE 
Sbjct: 5   KIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTAGQER 64

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPG-VPVVLVGTKLDLRED 127
           Y  +    YRGA   +L + +  ++++ENV ++W+ EL+ ++   + ++LVG K DLR  
Sbjct: 65  YRAITSAYYRGAVGALLVYDITKKSTFENV-ERWLKELRDHADSNIVIMLVGNKSDLRHL 123

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECS 161
           +           V T + +   ++ G S +IE S
Sbjct: 124 RA----------VPTEEAKAFAEKNGLS-FIETS 146

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

 Score = 89.8 bits (223), Expect = 7e-23
 Identities = 53/159 (33%), Positives = 81/159 (50%), Gaps = 16/159 (10%)

Query: 12  VTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV--AEGTTVNLGLWDTAGQEDY 69
           + +GD  VGK+ +L  +T  +F     PTV  +F + ++    G  + L LWDTAGQE +
Sbjct: 6   IVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERF 65

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPV-VLVGTKLDLRED 127
             +    YR +   +L F + +R S+E+V   W+ E + H  P  PV +LVG K DL   
Sbjct: 66  RSITRSYYRNSVGVLLVFDITNRESFEHV-HDWLEEARSHIQPHRPVFILVGHKCDLESQ 124

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +           VT  + E+L K +G   YIE S++T  
Sbjct: 125 RQ----------VTREEAEKLAKDLGMK-YIETSARTGD 152

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

 Score = 87.9 bits (218), Expect = 1e-22
 Identities = 44/121 (36%), Positives = 67/121 (55%), Gaps = 3/121 (2%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQED 68
           K + +G    GK+C+L  +  NKF  D   T+   F + VV   G +V L +WDTAGQE 
Sbjct: 2   KFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQER 61

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           +  +    YRGA   +L + + SR S+ N L  W+ + +   SP + ++LVG K DL +D
Sbjct: 62  FRSVTRSYYRGAAGALLVYDITSRESF-NALTNWLTDARTLASPDIVIILVGNKKDLEDD 120

Query: 128 K 128
           +
Sbjct: 121 R 121

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

 Score = 88.0 bits (218), Expect = 3e-22
 Identities = 53/160 (33%), Positives = 78/160 (48%), Gaps = 10/160 (6%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNFSAN-VVAEGTTVNLGLWDTAGQ 66
           +K V +G  +VGKT ++  Y  ++F    Y  T+   F A  +V     V LG+WDTAG 
Sbjct: 1   VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGS 60

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE 126
           E Y  +  + YRGA   ++ + L   +S+E   K W+ ELQ+      + L GTK DL E
Sbjct: 61  ERYEAMSRIYYRGAKAAIVCYDLTDSSSFERA-KFWVKELQNLEEHCKIYLCGTKSDLIE 119

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                     L  V     ++   +I A ++ E SSKT Q
Sbjct: 120 QDR------SLRQVDFHDVQDFADEIKAQHF-ETSSKTGQ 152

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

 Score = 86.6 bits (214), Expect = 4e-22
 Identities = 50/154 (32%), Positives = 82/154 (53%), Gaps = 14/154 (9%)

Query: 14  VGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQEDYNRL 72
           +GD  VGKTC+L  +T N+F + +I T+  +F    +  +G  V + +WDTAGQE Y  +
Sbjct: 6   IGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTI 65

Query: 73  RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSP-GVPVVLVGTKLDLREDKHYL 131
               YR A    L + + S  SY++++ KW+ ++  Y+P GV  +L+G K D  + +   
Sbjct: 66  TKQYYRRAQGIFLVYDISSERSYQHIM-KWVSDVDEYAPEGVQKILIGNKADEEQKRQ-- 122

Query: 132 ADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
                   V   QG +L K+ G  ++ E S+ T 
Sbjct: 123 --------VGDEQGNKLAKEYGMDFF-ETSACTN 147

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

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

 Score = 86.3 bits (214), Expect = 7e-22
 Identities = 45/159 (28%), Positives = 82/159 (51%), Gaps = 14/159 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQED 68
           K + +GD  VGK+C+L+ +T  +F   +  T+   F A ++  +G  + L +WDTAGQE 
Sbjct: 6   KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQES 65

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDLRED 127
           +  +    YRGA   +L + +  R ++ + L  W+ +  QH +  + ++L+G K DL   
Sbjct: 66  FRSITRSYYRGAAGALLVYDITRRETFNH-LTSWLEDARQHSNSNMTIMLIGNKCDLESR 124

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +           V+  +GE   ++ G   ++E S+KT  
Sbjct: 125 RE----------VSYEEGEAFAREHGL-IFMETSAKTAS 152

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|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 = 85.7 bits (212), Expect = 1e-21
 Identities = 41/153 (26%), Positives = 76/153 (49%), Gaps = 13/153 (8%)

Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
           R  K V +G G VGK+ + + + S+ FP  + PT+ D +      +     L + DTAGQ
Sbjct: 1   REYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKTQARIDNEPALLDILDTAGQ 60

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDL 124
            ++  +R    R  + F++ +S+  R S++     K+ I  ++  +  +P+VLVG K+DL
Sbjct: 61  AEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKELITRVRL-TEDIPLVLVGNKVDL 119

Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYY 157
            + +           VTT +G  L ++    ++
Sbjct: 120 EQQRQ----------VTTEEGRNLAREFNCPFF 142

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

 Score = 85.3 bits (211), Expect = 1e-21
 Identities = 53/164 (32%), Positives = 84/164 (51%), Gaps = 18/164 (10%)

Query: 6   SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTA 64
           S  +K + +GDG VGK+ ++  Y +NKF T    T+   F + ++  +G  V L +WDTA
Sbjct: 3   SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTA 62

Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-----PGVPVVLVG 119
           GQE +  LR   YRG+D  +L FS+    S++N L  W  E  +Y+        P V++G
Sbjct: 63  GQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQN-LSNWKKEFIYYADVKEPESFPFVILG 121

Query: 120 TKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            K+D+ E +           V+T + +   +  G   Y E S+K
Sbjct: 122 NKIDIPERQ-----------VSTEEAQAWCRDNGDYPYFETSAK 154

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

 Score = 85.4 bits (212), Expect = 2e-21
 Identities = 50/158 (31%), Positives = 83/158 (52%), Gaps = 18/158 (11%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K   +G  +VGK+ + + +    F   Y PT+ + FS  +  +G   +L + DTAGQ++Y
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFSKIITYKGQEYHLEIVDTAGQDEY 62

Query: 70  NRLRPLSYR-GADVFVLAFSLVSRASYENVLKKWIPELQHYSPG---VPVVLVGTKLDLR 125
           + L P  Y  G   ++L +S+ SR S+E V  K I +      G   VP+VLVG K DL 
Sbjct: 63  SIL-PQKYSIGIHGYILVYSVTSRKSFEVV--KVIYDKILDMLGKESVPIVLVGNKSDLH 119

Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            ++           V+  +G++L +  GA+ ++E S+K
Sbjct: 120 MERQ----------VSAEEGKKLAESWGAA-FLESSAK 146

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

 Score = 84.3 bits (209), Expect = 4e-21
 Identities = 55/161 (34%), Positives = 79/161 (49%), Gaps = 17/161 (10%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQED 68
           K + +GD  VGKT ++  Y + KF   Y  T+  D  +  V  +   V L +WDTAGQE 
Sbjct: 2   KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQER 61

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPE-LQHYSP----GVPVVLVGTKLD 123
           +  L    YRGAD  VL + + +  S+E+ L  W  E L   SP      P V++G K+D
Sbjct: 62  FQSLGVAFYRGADCCVLVYDVTNPKSFES-LDSWRDEFLIQASPRDPENFPFVVLGNKID 120

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           L E+K           V+T + ++  K  G   Y E S+K 
Sbjct: 121 L-EEKR---------QVSTKKAQQWCKSKGNIPYFETSAKE 151

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|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score = 83.3 bits (206), Expect = 7e-21
 Identities = 47/159 (29%), Positives = 79/159 (49%), Gaps = 13/159 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQED 68
           K + +GD  VGKTC++  + S  F      T+  +F+   +  +G  V L +WDTAGQE 
Sbjct: 5   KIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTAGQER 64

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           +  +    YR A+  ++A+ +  R+S+E+V   WI E++ Y +  V ++L+G K DL E 
Sbjct: 65  FRTITQSYYRSANGAIIAYDITRRSSFESV-PHWIEEVEKYGASNVVLLLIGNKCDLEEQ 123

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +           V   +   L +  G    +E S+K   
Sbjct: 124 RE----------VLFEEACTLAEHYGILAVLETSAKESS 152

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

 Score = 83.2 bits (206), Expect = 9e-21
 Identities = 51/158 (32%), Positives = 82/158 (51%), Gaps = 12/158 (7%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G  V L + DTAGQEDY
Sbjct: 2   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQLNILDTAGQEDY 61

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLREDK 128
             +R   +R  + F+L FS+    S+  + +     L+      VP++LVG K DL + +
Sbjct: 62  AAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLEDKR 121

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                      V+  +   L +Q G + Y+E S+KT+ 
Sbjct: 122 Q----------VSVEEAANLAEQWGVN-YVETSAKTRA 148

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

 Score = 81.9 bits (203), Expect = 3e-20
 Identities = 47/158 (29%), Positives = 81/158 (51%), Gaps = 19/158 (12%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED- 68
           K   +G   VGK+ + + + + +F  +Y P +   +S  V  +G  V+L + DT GQ+  
Sbjct: 1   KIAVLGASGVGKSALTVRFLTKRFIGEYEPNLESLYSRQVTIDGEQVSLEIQDTPGQQQN 60

Query: 69  ---YNRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLD 123
               +  R L  R AD FVL +S+  R+S++ V  L + I E++     +PV+LVG K D
Sbjct: 61  EDPESLERSL--RWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPVILVGNKAD 118

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS 161
           L   +           V+T +G++L  ++G  ++ E S
Sbjct: 119 LLHSRQ----------VSTEEGQKLALELGCLFF-EVS 145

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 82.7 bits (204), Expect = 4e-20
 Identities = 51/165 (30%), Positives = 87/165 (52%), Gaps = 14/165 (8%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWD 62
           S +   K + +GD  VGK+C+L+ +T  +F   +  T+   F A ++  +   + L +WD
Sbjct: 2   SYAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWD 61

Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTK 121
           TAGQE +  +    YRGA   +L + +  R ++ N L  W+ +  QH +  + ++L+G K
Sbjct: 62  TAGQESFRSITRSYYRGAAGALLVYDITRRETF-NHLASWLEDARQHANANMTIMLIGNK 120

Query: 122 LDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            DL    H  A       V+T +GE+  K+ G   ++E S+KT Q
Sbjct: 121 CDL---AHRRA-------VSTEEGEQFAKEHGL-IFMEASAKTAQ 154

Length = 210

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

 Score = 81.2 bits (201), Expect = 6e-20
 Identities = 47/161 (29%), Positives = 72/161 (44%), Gaps = 23/161 (14%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-----FDNFSANVVAEGTTVNLGLWDT 63
            K V VGDG  GKT  +  + + +F   Y+ T+       +F  N       +   +WDT
Sbjct: 1   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTN----RGKIRFNVWDT 56

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQE +  LR   Y      ++ F + SR +Y+NV   W  +L      +P+VL G K+D
Sbjct: 57  AGQEKFGGLRDGYYIQGQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVD 115

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +++ K           V   Q    RK+     Y E S+K+
Sbjct: 116 IKDRK-----------VKPKQITFHRKKN--LQYYEISAKS 143

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|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score = 81.5 bits (201), Expect = 6e-20
 Identities = 53/158 (33%), Positives = 82/158 (51%), Gaps = 15/158 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQE 67
           K + VGD  VGKTC+L+ +    F    +I TV   F+  VV  +G  V L +WDTAGQE
Sbjct: 2   KVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQE 61

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            +  +    YR A   +L + + +++S++N+ + W+ E+  Y    V ++L+G K     
Sbjct: 62  RFRSVTHAYYRDAHALLLLYDVTNKSSFDNI-RAWLTEILEYAQSDVVIMLLGNK----- 115

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
                AD  G   V    GE L K+ G   ++E S+KT
Sbjct: 116 -----ADMSGERVVKREDGERLAKEYGVP-FMETSAKT 147

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|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score = 80.6 bits (199), Expect = 1e-19
 Identities = 48/158 (30%), Positives = 80/158 (50%), Gaps = 13/158 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V +G G VGK+ + + +  N F   Y PT+ D++   V  +G   +L + DTAG E +
Sbjct: 3   KIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYRKQVEIDGRQCDLEILDTAGTEQF 62

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
             +R L  +    F+L +S+ S AS   +  L++ +  ++  S  VP+VLVG K DL +D
Sbjct: 63  TAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKD-SDNVPMVLVGNKADLEDD 121

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           +           V+   G  L +Q G   + E S++ +
Sbjct: 122 RQ----------VSREDGVSLSQQWGNVPFYETSARKR 149

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

 Score = 80.0 bits (197), Expect = 2e-19
 Identities = 47/156 (30%), Positives = 81/156 (51%), Gaps = 14/156 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTT-VNLGLWDTAGQED 68
           K + +G+ +VGKT  L  Y  + F + ++ TV  +F    V      + L +WDTAGQE 
Sbjct: 3   KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQER 62

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLRED 127
           Y  +    YRGA  F+L + + +  S+ N ++ W  +++ YS     V+LVG K D+ ++
Sbjct: 63  YRTITTAYYRGAMGFILMYDITNEESF-NAVQDWSTQIKTYSWDNAQVILVGNKCDMEDE 121

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           +           V+  +G +L  Q+G  ++ E S+K
Sbjct: 122 R----------VVSAERGRQLADQLGFEFF-EASAK 146

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|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score = 79.9 bits (197), Expect = 2e-19
 Identities = 48/156 (30%), Positives = 77/156 (49%), Gaps = 14/156 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQED 68
           K V +G+  VGKTC++  +T   FP     T+  +F    V  +G  + L +WDTAGQE 
Sbjct: 9   KIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQER 68

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           +  +    YR A+  +L + +    S+   L +W+ E++ Y +  V  +LVG K+DL E 
Sbjct: 69  FRSITQSYYRSANALILTYDITCEESFR-CLPEWLREIEQYANNKVITILVGNKIDLAER 127

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           +           V+  + EE        YY+E S+K
Sbjct: 128 RE----------VSQQRAEEFSDA-QDMYYLETSAK 152

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

 Score = 79.5 bits (196), Expect = 2e-19
 Identities = 43/159 (27%), Positives = 86/159 (54%), Gaps = 14/159 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V +G G VGK+ + + + S  F   Y PT+ D +   +  + +   L + DTAG E +
Sbjct: 3   KVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQF 62

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
             +R L  +    F++ +SLV++ +++++  ++  I  ++ Y   VP++LVG K+DL  +
Sbjct: 63  ASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEK-VPIILVGNKVDLESE 121

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +           V++A+G  L ++ G   ++E S+K++ 
Sbjct: 122 RE----------VSSAEGRALAEEWGCP-FMETSAKSKT 149

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 80.0 bits (197), Expect = 4e-19
 Identities = 47/137 (34%), Positives = 72/137 (52%), Gaps = 10/137 (7%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQED 68
           K V +GD  VGK+ +L  +T N+F  +   T+   F+   +  EG TV   +WDTAGQE 
Sbjct: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQER 73

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLR-- 125
           Y  +    YRGA   +L + +  R +++NV  +W+ EL+ H    + +++ G K DL   
Sbjct: 74  YRAITSAYYRGAVGALLVYDITKRQTFDNVQ-RWLRELRDHADSNIVIMMAGNKSDLNHL 132

Query: 126 -----EDKHYLADHPGL 137
                ED   LA+  GL
Sbjct: 133 RSVAEEDGQALAEKEGL 149

Length = 216

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

 Score = 78.6 bits (194), Expect = 6e-19
 Identities = 43/124 (34%), Positives = 65/124 (52%), Gaps = 5/124 (4%)

Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAG 65
           R  K + +GD  VGKTC+   + + +FP     T+  +F    V  +G  + + LWDTAG
Sbjct: 1   RIFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAG 60

Query: 66  QEDYNR-LRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKL 122
           QE + + +    YR     V  + + + AS+ + L  WI E + +S    VP +LVG K 
Sbjct: 61  QERFRKSMVQHYYRNVHAVVFVYDVTNMASFHS-LPSWIEECEQHSLPNEVPRILVGNKC 119

Query: 123 DLRE 126
           DLRE
Sbjct: 120 DLRE 123

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 79.3 bits (195), Expect = 7e-19
 Identities = 48/160 (30%), Positives = 80/160 (50%), Gaps = 15/160 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQED 68
           K + +GD  VGK+ +L+ + S+    D  PT+  +F    +   G  + L +WDTAGQE 
Sbjct: 16  KILLIGDSGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQER 74

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVV--LVGTKLDLRE 126
           +  L    YR A   +L + +  R ++ N+   W  E++ YS     V  LVG K+D   
Sbjct: 75  FRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRES 134

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           ++           V+  +G  L K+ G   ++ECS+KT++
Sbjct: 135 ER----------DVSREEGMALAKEHGCL-FLECSAKTRE 163

Length = 211

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

 Score = 77.9 bits (192), Expect = 8e-19
 Identities = 44/162 (27%), Positives = 65/162 (40%), Gaps = 19/162 (11%)

Query: 12  VTVGDGAVGKTCML--ICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           V VG G VGK+ +L  +        +D   T  D        +   V L L DT G +++
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDEF 60

Query: 70  NRLRP-----LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDL 124
             L       L  RGAD+ +L      R S E+     +  L     G+P++LVG K+DL
Sbjct: 61  GGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRL--RKEGIPIILVGNKIDL 118

Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            E++           V      E   +I      E S+KT +
Sbjct: 119 LEER----------EVEELLRLEELAKILGVPVFEVSAKTGE 150

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

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

 Score = 77.2 bits (190), Expect = 2e-18
 Identities = 45/158 (28%), Positives = 83/158 (52%), Gaps = 14/158 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V +G G VGK+ + + +    F   Y PT+ D++   V  +G    L + DTAG E +
Sbjct: 3   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQF 62

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
             +R L  +    FVL +S+ +++++ ++  L++ I  ++  +  VP++LVG K DL ++
Sbjct: 63  TAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKD-TEDVPMILVGNKCDLEDE 121

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           +           V   QG+ L +Q G   ++E S+K +
Sbjct: 122 R----------VVGKEQGQNLARQWGC-AFLETSAKAK 148

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

 Score = 76.4 bits (188), Expect = 4e-18
 Identities = 37/117 (31%), Positives = 62/117 (52%), Gaps = 2/117 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPT-VFDNFSANVVAEGTTVNLGLWDTAGQE 67
           +K + +GD AVGK+ ++  +  + +    + T     +  N   EG T+ +  WDTAGQE
Sbjct: 1   VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQE 60

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDL 124
            +  +    Y  A   +L F +  + +Y+N L KW  EL+ Y P +P ++V  K+DL
Sbjct: 61  RFQTMHASYYHKAHACILVFDVTRKITYKN-LSKWYEELREYRPEIPCIVVANKIDL 116

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

 Score = 76.8 bits (189), Expect = 5e-18
 Identities = 40/115 (34%), Positives = 61/115 (53%), Gaps = 2/115 (1%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQED 68
           K + +GD  VGK+ +L+ +  N F   YI T+  +F    V   G  V L +WDTAGQE 
Sbjct: 8   KLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQER 67

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           +  +    YRG    ++ + + +  S+ NV K+W+ E++     V  VLVG K D
Sbjct: 68  FRTITSTYYRGTHGVIVVYDVTNGESFVNV-KRWLQEIEQNCDDVCKVLVGNKND 121

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

 Score = 76.7 bits (189), Expect = 7e-18
 Identities = 41/133 (30%), Positives = 64/133 (48%), Gaps = 11/133 (8%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDN-----FSANVVAEGTT 55
                  F K + VGDG VGKT  +  + + +F   YIPT+        F  N       
Sbjct: 3   QMDEVPEF-KLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTN----CGP 57

Query: 56  VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPV 115
           +   +WDTAGQE +  LR   Y      ++ F + SR +Y+NV   W  ++      +P+
Sbjct: 58  ICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNV-PNWHRDIVRVCENIPI 116

Query: 116 VLVGTKLDLREDK 128
           VLVG K+D+++ +
Sbjct: 117 VLVGNKVDVKDRQ 129

Length = 215

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

 Score = 75.3 bits (185), Expect = 1e-17
 Identities = 42/158 (26%), Positives = 81/158 (51%), Gaps = 13/158 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V +G G VGK+ + + +    F   Y PT+ D++   +  +     L + DTAG E +
Sbjct: 3   KLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIEDSYRKQIEVDCQQCMLEILDTAGTEQF 62

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
             +R L  +    F L +S+ ++ S+ ++  L++ I  ++     VP++LVG K DL ++
Sbjct: 63  TAMRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKDTED-VPMILVGNKCDLEDE 121

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           +           V+  +G+ L +Q G   ++E S+K++
Sbjct: 122 RV----------VSKEEGQNLARQWGNCPFLETSAKSK 149

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

 Score = 74.3 bits (183), Expect = 4e-17
 Identities = 45/162 (27%), Positives = 75/162 (46%), Gaps = 17/162 (10%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV--VAEGTTVNLGLWDTAGQE 67
           K + +GD  VGKT ++  Y    F   Y  T+  +F+  V      T V L LWD AGQE
Sbjct: 2   KVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQE 61

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ---HYSPG--VPVVLVGTKL 122
            +  +  + Y+GA   ++ F +   +++E VL KW  +L        G  +P +L+  K 
Sbjct: 62  RFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVL-KWKADLDSKVTLPNGEPIPALLLANKC 120

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           DL++++               Q ++  K+ G   + E S+K 
Sbjct: 121 DLKKERLA---------KDPEQMDQFCKENGFIGWFETSAKE 153

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

 Score = 73.3 bits (180), Expect = 5e-17
 Identities = 46/159 (28%), Positives = 80/159 (50%), Gaps = 14/159 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQED 68
           K + +GD  VGK+C+L  +T  KF  D   T+   F   ++   G  + L +WDTAGQE 
Sbjct: 4   KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQER 63

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           +  +    YRGA   ++ + +  R++Y N L  W+ + ++  +P   + L+G K DL   
Sbjct: 64  FRAVTRSYYRGAAGALMVYDITRRSTY-NHLSSWLTDARNLTNPNTVIFLIGNKADLEAQ 122

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +           VT  + ++   + G   ++ECS+KT +
Sbjct: 123 RD----------VTYEEAKQFADENGL-LFLECSAKTGE 150

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|219856 pfam08477, Miro, Miro-like protein

 Score = 71.7 bits (176), Expect = 7e-17
 Identities = 35/116 (30%), Positives = 56/116 (48%), Gaps = 3/116 (2%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSAN-VVAEGTTVNLGLWDTAGQED 68
           K V +GD   GK+ +L      +FP + +    D  + + +  +G T  L +WD  G+E+
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKL 122
                 +  + AD  +L + L  R S   V  L  W+P L+     +PV+LVG KL
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|206688 cd04101, RabL4, Rab GTPase-like family 4 (Rab-like4)

 Score = 72.9 bits (179), Expect = 8e-17
 Identities = 42/161 (26%), Positives = 71/161 (44%), Gaps = 19/161 (11%)

Query: 10  KCVTVGDGAVGKT--CMLICYTSNKFPTDYIPTVFDNFSANVV---AEGTTVNLGLWDTA 64
           +C  VGD AVGK+    +       F  +Y  T   +     V       +V L ++D+A
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGV--PVVLVGTKL 122
           GQE ++ +    +    V  + + + +  S+ N   +WI  ++ +S G+  P VLVG K 
Sbjct: 62  GQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNC-SRWINRVRTHSHGLHTPGVLVGNKC 120

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           DL + +           V  AQ + L +     +Y E S+K
Sbjct: 121 DLTDRRE----------VDAAQAQALAQANTLKFY-ETSAK 150

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

 Score = 70.7 bits (173), Expect = 6e-16
 Identities = 49/158 (31%), Positives = 77/158 (48%), Gaps = 13/158 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSAN-VVAEGTTVNLGLWDTAGQED 68
           K + VGD +VGKTC++  +  + F  +Y  T+  +F        G   +L LWDTAGQE 
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQER 61

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPE-LQHYSPG-VPVVLVGTKLDLRE 126
           +  +    YRGA   ++ F L   AS E+  ++W+ + L+   P  V + LVGTK DL  
Sbjct: 62  FKCIASTYYRGAQAIIIVFDLTDVASLEHT-RQWLEDALKENDPSSVLLFLVGTKKDLSS 120

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
                   P    +      +L +++ A Y+   S+ T
Sbjct: 121 --------PAQYALMEQDAIKLAREMKAEYW-AVSALT 149

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

 Score = 70.6 bits (173), Expect = 1e-15
 Identities = 38/125 (30%), Positives = 59/125 (47%), Gaps = 10/125 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-----FDNFSANVVAEGTTVNLGLWDT 63
            K V VGDG  GKT  +  + + +F   Y PT+       +F  N       +    WDT
Sbjct: 14  FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNC----GKIRFYCWDT 69

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQE +  LR   Y      ++ F + +R +Y+NV   W  +L      +P+VL G K+D
Sbjct: 70  AGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNV-PTWHRDLCRVCENIPIVLCGNKVD 128

Query: 124 LREDK 128
           ++  +
Sbjct: 129 VKNRQ 133

Length = 219

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

 Score = 70.0 bits (171), Expect = 2e-15
 Identities = 46/154 (29%), Positives = 75/154 (48%), Gaps = 13/154 (8%)

Query: 12  VTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQEDYN 70
           + +G   VGKT ++  +T + F      TV  +F    V   G  + L +WDTAGQE +N
Sbjct: 4   IIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFN 63

Query: 71  RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLREDKH 129
            +    YR A   +L + +  + ++++ L KW+  +  Y S    ++LVG KLD   D+ 
Sbjct: 64  SITSAYYRSAKGIILVYDITKKETFDD-LPKWMKMIDKYASEDAELLLVGNKLDCETDRE 122

Query: 130 YLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
                     +T  QGE+  +QI    + E S+K
Sbjct: 123 ----------ITRQQGEKFAQQITGMRFCEASAK 146

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

 Score = 66.3 bits (162), Expect = 3e-14
 Identities = 33/117 (28%), Positives = 61/117 (52%), Gaps = 2/117 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
           +K   +GD  +GKT +++ Y   +F  +YI T+  NF    +   GT +   +WD  GQ 
Sbjct: 1   LKIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQR 60

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDL 124
           ++  + PL  + A   +  F L  +++  ++ K+W  + + ++     +LVGTK DL
Sbjct: 61  EFINMLPLVCKDAVAILFMFDLTRKSTLNSI-KEWYRQARGFNKTAIPILVGTKYDL 116

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

 Score = 65.8 bits (161), Expect = 4e-14
 Identities = 40/159 (25%), Positives = 63/159 (39%), Gaps = 17/159 (10%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV---FDNFSANVVAEGTTVNLGLWDTAG 65
            K + VG G VGKT +       KF  D   T      ++      E   + L +WD  G
Sbjct: 2   AKLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWK-IPAPERKKIRLNVWDFGG 60

Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR 125
           QE Y+           +++L F L       + +  W+ +++ +    PV+LVGT +D  
Sbjct: 61  QEIYHATHQFFLTSRSLYLLVFDL-RTGDEVSRVPYWLRQIKAFGGVSPVILVGTHIDES 119

Query: 126 ED---------KHYLADHPGLVPVTTAQG---EELRKQI 152
            D         K + A    +  V+   G    EL+K I
Sbjct: 120 CDEDILKKALNKKFPAIINDIHFVSCKNGKGIAELKKAI 158

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

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

 Score = 64.3 bits (157), Expect = 1e-13
 Identities = 39/163 (23%), Positives = 73/163 (44%), Gaps = 19/163 (11%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
           IK +++G+  VGK+C++  Y   +F + Y+PT+  D     V      V +  +D +G  
Sbjct: 1   IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHP 60

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPG------VPVVLVGTK 121
           +Y  +R   Y+     +L + +  R S+E  L  W+ E++           + VV+   K
Sbjct: 61  EYLEVRNEFYKDTQGVLLVYDVTDRQSFEA-LDSWLKEMKQEGGPHGNMENIVVVVCANK 119

Query: 122 LDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +DL + +           V+  +G    +  G  Y+ E S+ T
Sbjct: 120 IDLTKHRA----------VSEDEGRLWAESKGFKYF-ETSACT 151

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

 Score = 65.3 bits (159), Expect = 2e-13
 Identities = 38/144 (26%), Positives = 65/144 (45%), Gaps = 7/144 (4%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           +K V +GD  VGKT +L  Y   +F  D + TV   F    + +    N+ +WDTAG+E 
Sbjct: 1   LKVVLLGDMNVGKTSLLHRYMERRFK-DTVSTVGGAF---YLKQWGPYNISIWDTAGREQ 56

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           ++ L  +  RGA   +L + + +  S E +  +++      +      +VG KLDL E+ 
Sbjct: 57  FHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEG 116

Query: 129 HYLADHPGLVPVTTAQGEELRKQI 152
                             E ++Q+
Sbjct: 117 ALAGQEKDAGDRV---SPEDQRQV 137

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

 Score = 62.6 bits (152), Expect = 9e-13
 Identities = 39/129 (30%), Positives = 66/129 (51%), Gaps = 4/129 (3%)

Query: 8   FIKCVTVGDGAVGKTCMLICYT--SNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG 65
            +K + VGD  VGK  +L      S + P  Y   + D  +  ++ +G  V L LWDT+G
Sbjct: 6   LLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGI-DYKTTTILLDGRRVKLQLWDTSG 64

Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR 125
           Q  +  +     RGA   +L + + +R S++ +  +WI E+  ++PGVP +LVG +L L 
Sbjct: 65  QGRFCTIFRSYSRGAQGIILVYDITNRWSFDGI-DRWIKEIDEHAPGVPKILVGNRLHLA 123

Query: 126 EDKHYLADH 134
             +    + 
Sbjct: 124 FKRQVATEQ 132

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

 Score = 62.7 bits (152), Expect = 1e-12
 Identities = 34/116 (29%), Positives = 57/116 (49%), Gaps = 2/116 (1%)

Query: 14  VGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQEDYNRL 72
           VGDG  GKT  +  + + +F   Y+ T+  +            +   +WDTAGQE +  L
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 73  RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           R   Y      ++ F + +R +Y+NV   W  +L      +P+VL G K+D+++ K
Sbjct: 61  RDGYYIQGQCAIIMFDVTARVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDVKDRK 115

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

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

 Score = 59.7 bits (145), Expect = 1e-11
 Identities = 43/164 (26%), Positives = 73/164 (44%), Gaps = 22/164 (13%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS--ANVVAEGTTVNLGLWDTAGQ 66
           ++ V +GD  VGK+ +++   S +FP + +P V    +  A+V  E     +   DT+ +
Sbjct: 3   VRIVLIGDEGVGKSSLIMSLVSEEFP-ENVPRVLPEITIPADVTPERVPTTI--VDTSSR 59

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE 126
                      R A+V  L +S+   ++ E +  KW+P ++     VP++LVG K DLR+
Sbjct: 60  PQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLRD 119

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASY-----YIECSSKTQ 165
                           A  EE    I   +      +ECS+KT 
Sbjct: 120 GSS------------QAGLEEEMLPIMNEFREIETCVECSAKTL 151

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

 Score = 59.5 bits (144), Expect = 2e-11
 Identities = 35/117 (29%), Positives = 59/117 (50%), Gaps = 3/117 (2%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           + V +G   VGKT ++  +  + F   +  TV +  S      G  V + + DT+G   +
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVEELHSKEYEVAGVKVTIDILDTSGSYSF 60

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDL 124
             +R LS +  D F L +S+    S+E V  L++ I E++     VP+V+VG K+D 
Sbjct: 61  PAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKE-DKFVPIVVVGNKIDS 116

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

 Score = 59.0 bits (143), Expect = 4e-11
 Identities = 45/162 (27%), Positives = 69/162 (42%), Gaps = 19/162 (11%)

Query: 12  VTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR 71
           V +G   VGKT ++  +   +F   Y PT+ D         G    L + DT+G   +  
Sbjct: 4   VVLGASKVGKTAIVSRFLGGRFEEQYTPTIEDFHRKLYSIRGEVYQLDILDTSGNHPFPA 63

Query: 72  LRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQ-------HYSPGVPVVLVGTKL 122
           +R LS    DVF+L FSL +R S+E V  L++ I E +         +  +P+V+ G K 
Sbjct: 64  MRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKA 123

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           D    +           V   + E+L        Y E S+K 
Sbjct: 124 DRDFPRE----------VQRDEVEQLVGGDENCAYFEVSAKK 155

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

 Score = 56.4 bits (136), Expect = 1e-10
 Identities = 41/161 (25%), Positives = 76/161 (47%), Gaps = 20/161 (12%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           + V  G G VGK+ +++ +    F   YIPT+ D +   +    +   L + DT G   +
Sbjct: 3   RVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYRQVISCSKSICTLQITDTTGSHQF 62

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKW--IPELQ-HYSPGVPVVLVGTKLD--- 123
             ++ LS      F+L +S+ S+ S E +   +  I E++ +    +P++LVG K D   
Sbjct: 63  PAMQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDESP 122

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            RE             V++++G  L +    + ++E S+KT
Sbjct: 123 SRE-------------VSSSEGAALARTWNCA-FMETSAKT 149

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

 Score = 55.2 bits (133), Expect = 8e-10
 Identities = 41/131 (31%), Positives = 64/131 (48%), Gaps = 7/131 (5%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGT-TVNLGLWDTAGQ 66
           IK V +GDGA GKT ++  +    F   Y  T+  D FS  +   G+  V L +WD  GQ
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKW---IPELQHYSPGVP-VVLVGTKL 122
           +   ++      GA    L + + +  S+EN L+ W   + ++   S   P +VLVG K 
Sbjct: 61  QIGGKMLDKYIYGAQAVCLVYDITNSQSFEN-LEDWLSVVKKVNEESETKPKMVLVGNKT 119

Query: 123 DLREDKHYLAD 133
           DL  ++   A+
Sbjct: 120 DLEHNRQVTAE 130

Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumably the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 213

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

 Score = 53.2 bits (127), Expect = 3e-09
 Identities = 33/96 (34%), Positives = 48/96 (50%), Gaps = 3/96 (3%)

Query: 31  NKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL 89
           + F  +Y  T+  D  S  +  +   V L LWDTAGQE +  L P   R +   ++ + +
Sbjct: 3   DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDI 62

Query: 90  VSRASYENVLKKWIPE-LQHYSPGVPVVLVGTKLDL 124
            +R S+EN   KWI + L      V + LVG K DL
Sbjct: 63  TNRQSFENT-TKWIQDILNERGKDVIIALVGNKTDL 97

Length = 176

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

 Score = 46.5 bits (111), Expect = 5e-07
 Identities = 38/119 (31%), Positives = 54/119 (45%), Gaps = 18/119 (15%)

Query: 14  VGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLR 73
           VG    GKT ++    S +F  D IPTV   F+   V +G  V + +WD  GQ    R R
Sbjct: 5   VGLQNSGKTTLVNVIASGQFSEDTIPTV--GFNMRKVTKG-NVTIKVWDLGGQP---RFR 58

Query: 74  PL--SY-RGADVFVLAFSLVSRASYE---NVLKKWI--PELQHYSPGVPVVLVGTKLDL 124
            +   Y RG +  V       R   E   N L   +  P L+    G+P++++G K DL
Sbjct: 59  SMWERYCRGVNAIVYVVDAADREKLEVAKNELHDLLEKPSLE----GIPLLVLGNKNDL 113

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

 Score = 46.2 bits (110), Expect = 1e-06
 Identities = 32/122 (26%), Positives = 54/122 (44%), Gaps = 12/122 (9%)

Query: 10  KCVTVGDGAVGKTCM-LICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           + V +GD  VGK+ +  I        + Y  +  D +   V  +G    L ++D   QED
Sbjct: 2   RVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQED 61

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ------HYSPGVPVVLVGTKL 122
              L     +  D +V+ +S+  R+S+E        EL+        +  +P++LVG K 
Sbjct: 62  GMWLEDSCMQVGDAYVIVYSVTDRSSFEKA-----SELRIQLRRARQAEDIPIILVGNKS 116

Query: 123 DL 124
           DL
Sbjct: 117 DL 118

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

 Score = 42.5 bits (100), Expect = 2e-05
 Identities = 46/163 (28%), Positives = 74/163 (45%), Gaps = 24/163 (14%)

Query: 14  VGDGAVGKTCMLICYTSNKFPTDYIPTVFDN-FSANVVAEGTTVNLGLWD---------T 63
           +G   VGKT ++  + + +FP +YIPT     +   VV  G   +L + D         T
Sbjct: 6   LGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGT 65

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHY-SPGVPVVLVGT 120
           AGQE +   R    R +  F+L + + S  S+  V  L++ I E +   +   P+V+VG 
Sbjct: 66  AGQE-WMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGN 124

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           K D +  +H  A    L          L ++     Y+ECS+K
Sbjct: 125 KRDQQ--RHRFAPRHVL--------SVLVRKSWKCGYLECSAK 157

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

 Score = 40.2 bits (94), Expect = 1e-04
 Identities = 43/124 (34%), Positives = 55/124 (44%), Gaps = 18/124 (14%)

Query: 12  VTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT--TVNLGLWDTAGQEDY 69
           V +G  + GKT +L     N+F  + +PT   N     V+ G    V    WD  GQE  
Sbjct: 7   VMLGLDSAGKTTVLYRLKFNEF-VNTVPTKGFNTEKIKVSLGNAKGVTFHFWDVGGQE-- 63

Query: 70  NRLRPL--SY-RGAD--VFVLAFSLVSR---ASYENVLKKWIPELQHYSPGVPVVLVGTK 121
            +LRPL  SY R  D  VFV+    V R   A  E        E Q    GVPV+++  K
Sbjct: 64  -KLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITKFSENQ----GVPVLVLANK 118

Query: 122 LDLR 125
            DL 
Sbjct: 119 QDLP 122

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

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

 Score = 36.0 bits (84), Expect = 0.004
 Identities = 34/134 (25%), Positives = 55/134 (41%), Gaps = 21/134 (15%)

Query: 4   SASRFIKCVTVG-DGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWD 62
             ++ ++ + +G D A GKT +L      +  T  IPT+   F+   V     V   +WD
Sbjct: 10  GWNKEMRILILGLDNA-GKTTILYKLKLGEIVT-TIPTI--GFNVETVTYKN-VKFTVWD 64

Query: 63  TAGQEDYNRLRPL---SYRGAD--VFVLAFSLVSR-ASYENVLKKWI--PELQHYSPGVP 114
             GQE    LRPL    +   D  +FV+  +   R    +  L   +   EL       P
Sbjct: 65  VGGQE---SLRPLWRNYFPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELA----DAP 117

Query: 115 VVLVGTKLDLREDK 128
           ++++  K DL    
Sbjct: 118 LLILANKQDLPGAM 131

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	168
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	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
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	100.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	100.0
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	100.0
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
PLN03110	216	Rab GTPase; Provisional	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
PLN03108	210	Rab family protein; Provisional	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	100.0
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	100.0
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	100.0
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	100.0
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	100.0
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	100.0
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
KOG0395	196	consensus Ras-related GTPase [General function pre	100.0
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	100.0
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	100.0
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	100.0
PLN03118	211	Rab family protein; Provisional	99.98
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.98
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.98
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.98
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.97
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.97
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.97
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.97
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.97
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.97
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.97
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.97
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.97
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.97
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.97
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.97
PLN00223	181	ADP-ribosylation factor; Provisional	99.97
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.97
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.97
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.96
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.96
PTZ00133	182	ADP-ribosylation factor; Provisional	99.96
PLN00023	334	GTP-binding protein; Provisional	99.96
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.95
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.95
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.95
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.95
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.95
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.95
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.95
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.94
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.94
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.94
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.94
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.94
PTZ00099	176	rab6; Provisional	99.94
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.93
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.93
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.93
COG1100	219	GTPase SAR1 and related small G proteins [General	99.93
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.93
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.92
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.92
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.92
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.92
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.92
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.92
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.91
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.91
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.91
PRK12299	335	obgE GTPase CgtA; Reviewed	99.91
KOG1673	205	consensus Ras GTPases [General function prediction	99.9
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.9
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.9
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.9
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.9
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.89
PRK15494	339	era GTPase Era; Provisional	99.89
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.89
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.88
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.88
PRK04213	201	GTP-binding protein; Provisional	99.88
PRK03003	472	GTP-binding protein Der; Reviewed	99.88
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.87
PRK03003	472	GTP-binding protein Der; Reviewed	99.87
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.87
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.87
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.87
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.87
COG1159	298	Era GTPase [General function prediction only]	99.87
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.87
PRK00089	292	era GTPase Era; Reviewed	99.87
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.87
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.87
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.87
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.87
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.86
cd00881	189	GTP_translation_factor GTP translation factor fami	99.86
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.86
PRK12297	424	obgE GTPase CgtA; Reviewed	99.86
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.86
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.86
PRK00093	435	GTP-binding protein Der; Reviewed	99.85
PRK11058	426	GTPase HflX; Provisional	99.85
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.85
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.85
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.85
CHL00189	742	infB translation initiation factor 2; Provisional	99.85
PRK05306	787	infB translation initiation factor IF-2; Validated	99.84
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.84
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.84
PRK12317	425	elongation factor 1-alpha; Reviewed	99.84
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.84
PRK12298	390	obgE GTPase CgtA; Reviewed	99.84
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.83
PRK12296	500	obgE GTPase CgtA; Reviewed	99.83
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.83
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.82
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.82
PRK00093	435	GTP-binding protein Der; Reviewed	99.82
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.82
PRK05433	600	GTP-binding protein LepA; Provisional	99.82
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.82
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.82
COG2229	187	Predicted GTPase [General function prediction only	99.82
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.81
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.81
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.81
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.8
COG1160	444	Predicted GTPases [General function prediction onl	99.8
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.8
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.8
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.79
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.78
COG1160	444	Predicted GTPases [General function prediction onl	99.77
PRK04004	586	translation initiation factor IF-2; Validated	99.77
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.77
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.77
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.77
PRK10218	607	GTP-binding protein; Provisional	99.77
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.77
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.76
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.76
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.75
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.75
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.74
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.74
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.74
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.74
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.73
PRK12735	396	elongation factor Tu; Reviewed	99.73
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.73
COG0486	454	ThdF Predicted GTPase [General function prediction	99.73
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.73
CHL00071	409	tufA elongation factor Tu	99.73
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.72
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.72
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.72
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.72
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.71
PRK12736	394	elongation factor Tu; Reviewed	99.71
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.69
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.69
PLN03126	478	Elongation factor Tu; Provisional	99.69
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.69
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.68
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.68
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.68
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.68
PLN00043	447	elongation factor 1-alpha; Provisional	99.66
PRK00049	396	elongation factor Tu; Reviewed	99.66
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.64
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.64
COG0218	200	Predicted GTPase [General function prediction only	99.64
PTZ00141	446	elongation factor 1- alpha; Provisional	99.64
PLN03127	447	Elongation factor Tu; Provisional	99.62
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.62
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.61
COG1084	346	Predicted GTPase [General function prediction only	99.6
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.6
PRK13351	687	elongation factor G; Reviewed	99.6
COG2262	411	HflX GTPases [General function prediction only]	99.59
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.59
KOG1145	683	consensus Mitochondrial translation initiation fac	99.59
COG0536	369	Obg Predicted GTPase [General function prediction	99.59
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.58
PRK00007	693	elongation factor G; Reviewed	99.55
PRK12739	691	elongation factor G; Reviewed	99.55
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.54
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.53
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.53
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.53
PRK09866	741	hypothetical protein; Provisional	99.52
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.52
COG3596	296	Predicted GTPase [General function prediction only	99.52
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.51
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.51
PRK09602	396	translation-associated GTPase; Reviewed	99.49
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.49
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.47
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.46
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.46
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.45
COG1163	365	DRG Predicted GTPase [General function prediction	99.44
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.43
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.41
KOG0090	238	consensus Signal recognition particle receptor, be	99.41
PRK14845	1049	translation initiation factor IF-2; Provisional	99.41
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.4
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.39
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	99.38
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.37
PTZ00416	836	elongation factor 2; Provisional	99.35
PRK12740	668	elongation factor G; Reviewed	99.35
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.34
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.33
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.29
PRK13768	253	GTPase; Provisional	99.29
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.29
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.29
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.28
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.27
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.26
PTZ00258	390	GTP-binding protein; Provisional	99.26
PRK09601	364	GTP-binding protein YchF; Reviewed	99.25
PRK07560	731	elongation factor EF-2; Reviewed	99.22
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.22
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.22
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.2
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.19
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.17
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.16
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.14
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	99.14
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.12
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.08
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.08
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.06
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.05
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	99.01
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.95
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.93
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.89
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	98.88
PRK00098	298	GTPase RsgA; Reviewed	98.87
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.87
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.86
KOG2486	320	consensus Predicted GTPase [General function predi	98.84
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.84
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	98.84
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.81
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	98.81
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.8
KOG0082	354	consensus G-protein alpha subunit (small G protein	98.8
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	98.79
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.79
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.78
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.77
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	98.77
PRK12289	352	GTPase RsgA; Reviewed	98.77
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.77
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.76
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.75
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.74
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.72
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	98.71
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	98.71
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.71
COG0050	394	TufB GTPases - translation elongation factors [Tra	98.69
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.69
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.63
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.6
PRK12288	347	GTPase RsgA; Reviewed	98.59
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.58
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.56
KOG1143	591	consensus Predicted translation elongation factor	98.54
COG1161	322	Predicted GTPases [General function prediction onl	98.53
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.51
KOG0410	410	consensus Predicted GTP binding protein [General f	98.5
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.46
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.45
PRK12288	347	GTPase RsgA; Reviewed	98.44
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.43
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.38
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.38
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.38
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.37
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.37
PRK12289	352	GTPase RsgA; Reviewed	98.35
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.34
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.29
KOG0460	449	consensus Mitochondrial translation elongation fac	98.29
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	98.26
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.26
cd03112	158	CobW_like The function of this protein family is u	98.24
PRK14974	336	cell division protein FtsY; Provisional	98.23
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.22
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.19
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	98.18
PRK10416	318	signal recognition particle-docking protein FtsY;	98.16
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.16
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.16
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	98.14
PRK00098	298	GTPase RsgA; Reviewed	98.13
COG1162	301	Predicted GTPases [General function prediction onl	98.12
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.09
PRK13796	365	GTPase YqeH; Provisional	98.08
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.07
PRK01889	356	GTPase RsgA; Reviewed	98.03
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	98.01
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.01
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	97.98
PRK13796	365	GTPase YqeH; Provisional	97.98
KOG0464	753	consensus Elongation factor G [Translation, riboso	97.95
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.95
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	97.93
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.92
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	97.89
COG3523	1188	IcmF Type VI protein secretion system component Va	97.84
KOG0465	721	consensus Mitochondrial elongation factor [Transla	97.81
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.78
KOG1534	273	consensus Putative transcription factor FET5 [Tran	97.74
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	97.74
PRK08118	167	topology modulation protein; Reviewed	97.71
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.7
KOG3929	363	consensus Uncharacterized conserved protein [Funct	97.69
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.68
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.68
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.67
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	97.64
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.64
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	97.63
PRK07261	171	topology modulation protein; Provisional	97.61
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.6
TIGR00959	428	ffh signal recognition particle protein. This mode	97.59
KOG0780	483	consensus Signal recognition particle, subunit Srp	97.55
PRK14737	186	gmk guanylate kinase; Provisional	97.54
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.52
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	97.5
PRK14738	206	gmk guanylate kinase; Provisional	97.49
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.49
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	97.48
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.47
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.46
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.45
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.45
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	97.45
COG1162	301	Predicted GTPases [General function prediction onl	97.44
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.43
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.42
PRK06217	183	hypothetical protein; Validated	97.42
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.41
KOG4273	418	consensus Uncharacterized conserved protein [Funct	97.39
KOG0466	466	consensus Translation initiation factor 2, gamma s	97.37
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	97.37
COG0523	323	Putative GTPases (G3E family) [General function pr	97.36
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.34
PRK14530	215	adenylate kinase; Provisional	97.34
PRK03839	180	putative kinase; Provisional	97.33
PTZ00088	229	adenylate kinase 1; Provisional	97.32
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.32
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.31
smart00382	148	AAA ATPases associated with a variety of cellular	97.31
PF00004	132	AAA: ATPase family associated with various cellula	97.3
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	97.3
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.29
KOG2484	435	consensus GTPase [General function prediction only	97.28
PRK07429	327	phosphoribulokinase; Provisional	97.28
PRK05480	209	uridine/cytidine kinase; Provisional	97.27
PRK14532	188	adenylate kinase; Provisional	97.27
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.26
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.26
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.25
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.25
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.25
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.24
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.23
PRK01889	356	GTPase RsgA; Reviewed	97.22
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.21
PRK14531	183	adenylate kinase; Provisional	97.2
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	97.19
PRK02496	184	adk adenylate kinase; Provisional	97.18
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.18
PRK13949	169	shikimate kinase; Provisional	97.17
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.16
PRK08233	182	hypothetical protein; Provisional	97.16
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.15
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.15
PLN02674	244	adenylate kinase	97.13
cd03111	106	CpaE_like This protein family consists of proteins	97.13
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.12
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.11
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.1
cd02036	179	MinD Bacterial cell division requires the formatio	97.09
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	97.09
PRK06547	172	hypothetical protein; Provisional	97.07
PRK00625	173	shikimate kinase; Provisional	97.06
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.05
PLN02200	234	adenylate kinase family protein	97.05
PRK05541	176	adenylylsulfate kinase; Provisional	97.04
PRK14527	191	adenylate kinase; Provisional	97.04
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.04
PRK00300	205	gmk guanylate kinase; Provisional	97.03
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.01
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.01
PRK00279	215	adk adenylate kinase; Reviewed	97.0
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	96.98
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.98
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.98
PRK14528	186	adenylate kinase; Provisional	96.97
cd03110	179	Fer4_NifH_child This protein family's function is	96.97
PRK14529	223	adenylate kinase; Provisional	96.97
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.96
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.96
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.96
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.96
PRK06762	166	hypothetical protein; Provisional	96.95
PHA00729	226	NTP-binding motif containing protein	96.95
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.95
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.92
PRK13695	174	putative NTPase; Provisional	96.92
PRK14526	211	adenylate kinase; Provisional	96.9
PRK05057	172	aroK shikimate kinase I; Reviewed	96.89
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.89
COG3638	258	ABC-type phosphate/phosphonate transport system, A	96.88
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	96.88
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.88
PF05729	166	NACHT: NACHT domain	96.88
PRK04040	188	adenylate kinase; Provisional	96.87
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.87

>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.3e-42  Score=230.04  Aligned_cols=157  Identities=34%  Similarity=0.694  Sum_probs=147.8

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG   79 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   79 (168)
                      |...-++.+||+++|++|+|||+|+.||.++.|.+.+..|++.++ .+.+.++++.++++||||+||++|+.+..+++++
T Consensus         2 ~~~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~   81 (205)
T KOG0084|consen    2 MNPEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRG   81 (205)
T ss_pred             CCcccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccC
Confidence            455667899999999999999999999999999999999999999 4688999999999999999999999999999999


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      ||++|+|||+++++||..+ ..|+.++.++. +++|.++||||+|+...+.          ++.++++.++.+++...|+
T Consensus        82 ahGii~vyDiT~~~SF~~v-~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~----------v~~~~a~~fa~~~~~~~f~  150 (205)
T KOG0084|consen   82 AHGIIFVYDITKQESFNNV-KRWIQEIDRYASENVPKLLVGNKCDLTEKRV----------VSTEEAQEFADELGIPIFL  150 (205)
T ss_pred             CCeEEEEEEcccHHHhhhH-HHHHHHhhhhccCCCCeEEEeeccccHhhee----------cCHHHHHHHHHhcCCccee
Confidence            9999999999999999999 99999999998 6789999999999999887          9999999999999994499


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      |+||+++.||
T Consensus       151 ETSAK~~~NV  160 (205)
T KOG0084|consen  151 ETSAKDSTNV  160 (205)
T ss_pred             ecccCCccCH
Confidence            9999998875

>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=7.2e-40  Score=218.36  Aligned_cols=152  Identities=36%  Similarity=0.582  Sum_probs=143.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      +-+.+|++++|..++||||||+||..+.|...|++|++.+| .+++.+.+..+.|++|||.|||+|+.+.+.+++++.++
T Consensus        19 ~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~va   98 (221)
T KOG0094|consen   19 PLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   98 (221)
T ss_pred             cceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEE
Confidence            44679999999999999999999999999999999999999 67899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-C-CCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-P-GVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~-~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      |+|||++|..||+.. ..|++.+.+.+ + ++-+++||||.||.+.++          +..+++...+++++. .|+++|
T Consensus        99 viVyDit~~~Sfe~t-~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrq----------vs~eEg~~kAkel~a-~f~ets  166 (221)
T KOG0094|consen   99 VIVYDITDRNSFENT-SKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQ----------VSIEEGERKAKELNA-EFIETS  166 (221)
T ss_pred             EEEEeccccchHHHH-HHHHHHHHhccCCCceEEEEEcccccccchhh----------hhHHHHHHHHHHhCc-EEEEec
Confidence            999999999999998 89999988877 4 477789999999999988          999999999999999 999999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |+.|+||
T Consensus       167 ak~g~NV  173 (221)
T KOG0094|consen  167 AKAGENV  173 (221)
T ss_pred             ccCCCCH
Confidence            9999996

>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.3e-39  Score=216.90  Aligned_cols=151  Identities=32%  Similarity=0.647  Sum_probs=142.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ...+|++++|..++|||||+.||..++|++...+|++--| .+.+.+++..+++.||||.|+++|.++.+.++++|+++|
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAi   82 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAI   82 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEE
Confidence            4589999999999999999999999999998889998777 778999999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||+++.+||..+ +.|+++|++.. +++-+.|+|||+|+...+.          +..+++..+++..++ .|||+||+
T Consensus        83 vvYDit~~~SF~~a-K~WvkeL~~~~~~~~vialvGNK~DL~~~R~----------V~~~ea~~yAe~~gl-l~~ETSAK  150 (200)
T KOG0092|consen   83 VVYDITDEESFEKA-KNWVKELQRQASPNIVIALVGNKADLLERRE----------VEFEEAQAYAESQGL-LFFETSAK  150 (200)
T ss_pred             EEEecccHHHHHHH-HHHHHHHHhhCCCCeEEEEecchhhhhhccc----------ccHHHHHHHHHhcCC-EEEEEecc
Confidence            99999999999998 99999999988 5677779999999999776          999999999999999 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.||
T Consensus       151 Tg~Nv  155 (200)
T KOG0092|consen  151 TGENV  155 (200)
T ss_pred             cccCH
Confidence            99986

>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.6e-39  Score=219.89  Aligned_cols=153  Identities=33%  Similarity=0.647  Sum_probs=145.8

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      +.++.+||+++|+++||||+++.||..+.|...+..|++.+|. +++.+++..+.+++|||.||++|+.+...+++.|.+
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~g   87 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMG   87 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCe
Confidence            5578999999999999999999999999999999999999995 578999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      +++|||+++..||+.+ ..|+..+.++. +++|.++||||+|+...+.          +..+.++++|.++|. .|+|+|
T Consensus        88 i~LvyDitne~Sfeni-~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~----------V~~e~ge~lA~e~G~-~F~EtS  155 (207)
T KOG0078|consen   88 ILLVYDITNEKSFENI-RNWIKNIDEHASDDVVKILVGNKCDLEEKRQ----------VSKERGEALAREYGI-KFFETS  155 (207)
T ss_pred             eEEEEEccchHHHHHH-HHHHHHHHhhCCCCCcEEEeecccccccccc----------ccHHHHHHHHHHhCC-eEEEcc
Confidence            9999999999999999 67999999998 5899999999999999877          999999999999998 999999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|.||
T Consensus       156 Ak~~~NI  162 (207)
T KOG0078|consen  156 AKTNFNI  162 (207)
T ss_pred             ccCCCCH
Confidence            9999986

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=1.8e-38  Score=217.03  Aligned_cols=160  Identities=88%  Similarity=1.411  Sum_probs=142.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|++++|||||+.+|..+.|...+.+|++..+.+.+.+++..+.+.+|||+|+++|..+++.++++++++++|||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd   81 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   81 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeeeEEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEEE
Confidence            68999999999999999999999999899999988887778889999999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      +++++||+.+.+.|+..+.+..++.|++|||||+|+.+.+.....++..+.+..++++++++.++...|+||||++|.||
T Consensus        82 ~~~~~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~nV  161 (176)
T cd04133          82 LISRASYENVLKKWVPELRHYAPNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQNV  161 (176)
T ss_pred             cCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCcccCH
Confidence            99999999975689999987777899999999999976543222334445688999999999999756999999999986

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=2.3e-38  Score=217.75  Aligned_cols=164  Identities=38%  Similarity=0.716  Sum_probs=143.0

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +...+||+++|++++|||||+++|..+.|...+.||.+..+.+.+.+++..+.+.+|||+|++.|..+++.+++++|+++
T Consensus         2 ~~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~i   81 (182)
T cd04172           2 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVL   81 (182)
T ss_pred             CcceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeEEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEE
Confidence            45688999999999999999999999999999999998888878889999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc--CCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++.||+.+...|+..+.+..++.|++|||||+|+.........  .....+++.+++++++++.++.+|+||||
T Consensus        82 lvyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SA  161 (182)
T cd04172          82 ICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA  161 (182)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECCc
Confidence            9999999999999757899999887788999999999999643111000  11123588999999999999668999999


Q ss_pred             cCccC-C
Q 030961          163 KTQQV-C  168 (168)
Q Consensus       163 ~~~~~-i  168 (168)
                      ++|+| |
T Consensus       162 k~~~n~v  168 (182)
T cd04172         162 LQSENSV  168 (182)
T ss_pred             CCCCCCH
Confidence            99997 5

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

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=7.1e-39  Score=212.07  Aligned_cols=153  Identities=29%  Similarity=0.587  Sum_probs=145.0

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      ...+.+|++++|+.|+|||+|+.||...+|...++.|++.+| ...+.+++..+++++|||.|++.|++....+++.+-+
T Consensus         2 ~~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~G   81 (216)
T KOG0098|consen    2 SYAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAG   81 (216)
T ss_pred             CccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcc
Confidence            345789999999999999999999999999999999999999 5678999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      +++|||+++++||..+ ..|+..+.++. ++..++++|||+||...+.          ++.+++++||++.++ .|+|+|
T Consensus        82 alLVydit~r~sF~hL-~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~----------Vs~EEGeaFA~ehgL-ifmETS  149 (216)
T KOG0098|consen   82 ALLVYDITRRESFNHL-TSWLEDARQHSNENMVIMLIGNKSDLEARRE----------VSKEEGEAFAREHGL-IFMETS  149 (216)
T ss_pred             eEEEEEccchhhHHHH-HHHHHHHHHhcCCCcEEEEEcchhhhhcccc----------ccHHHHHHHHHHcCc-eeehhh
Confidence            9999999999999998 89999999986 8999999999999999887          999999999999998 889999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++++||
T Consensus       150 akt~~~V  156 (216)
T KOG0098|consen  150 AKTAENV  156 (216)
T ss_pred             hhhhhhH
Confidence            9999986

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=1e-37  Score=213.97  Aligned_cols=161  Identities=39%  Similarity=0.715  Sum_probs=140.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .+||+++|++|+|||||+++|.++.|...+.+|.+..+.+.+.+++..+.+++|||+|++.|..+.+.++++++++++||
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvf   80 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYTASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICF   80 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEEEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEE
Confidence            37999999999999999999999999989999998888778888999999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |+++++||+.+...|+..+.+..++.|+++||||+|+........  .+....++..++++++++++++.+|+|+||++|
T Consensus        81 dit~~~Sf~~~~~~w~~~i~~~~~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~~~  160 (178)
T cd04131          81 DISRPETLDSVLKKWRGEIQEFCPNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAFTS  160 (178)
T ss_pred             ECCChhhHHHHHHHHHHHHHHHCCCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccCcC
Confidence            999999999965789999988878899999999999964311110  011124588999999999999768999999999


Q ss_pred             cC-C
Q 030961          166 QV-C  168 (168)
Q Consensus       166 ~~-i  168 (168)
                      +| |
T Consensus       161 ~~~v  164 (178)
T cd04131         161 EKSV  164 (178)
T ss_pred             CcCH
Confidence            85 5

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.

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=4.8e-37  Score=213.03  Aligned_cols=161  Identities=58%  Similarity=1.008  Sum_probs=139.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .+||+++|++++|||||+.+|..+.|...+.+|.+..+.+.+.+++..+.+.+|||+|++.|+.+++.+++++|++++||
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvy   82 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICF   82 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEEE
Confidence            58999999999999999999999999889999998888777788999999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |++++.||+.+...|...+.+..++.|++|||||+|+.+......  .......+..++++.+++..+..+|+|+||++|
T Consensus        83 dit~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk~g  162 (191)
T cd01875          83 SIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQ  162 (191)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCCCC
Confidence            999999999985479888877667899999999999975432110  111234477889999999998658999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +||
T Consensus       163 ~~v  165 (191)
T cd01875         163 DGV  165 (191)
T ss_pred             CCH
Confidence            986

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

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=100.00  E-value=6.6e-38  Score=207.07  Aligned_cols=159  Identities=33%  Similarity=0.576  Sum_probs=145.6

Q ss_pred             CCC-CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCcccccccccccc
Q 030961            1 MAS-SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYR   78 (168)
Q Consensus         1 m~~-~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~   78 (168)
                      |++ .+...+||+++|++|+|||||.++|.+.+|...+..|++.+| .+.+.+++..+.++||||+|+++|.++.-.+++
T Consensus         1 M~~~~K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYR   80 (210)
T KOG0394|consen    1 MSSLRKRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYR   80 (210)
T ss_pred             CCCcCcccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceec
Confidence            776 467889999999999999999999999999999999999998 789999999999999999999999999999999


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-C----CCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYS-P----GVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~----~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      ++|-+++|||++++.||+.+ +.|.+++.... +    .-|.||+|||+|+.....        +.++.+.++.+|...|
T Consensus        81 gaDcCvlvydv~~~~Sfe~L-~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~--------r~VS~~~Aq~WC~s~g  151 (210)
T KOG0394|consen   81 GADCCVLVYDVNNPKSFENL-ENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKS--------RQVSEKKAQTWCKSKG  151 (210)
T ss_pred             CCceEEEEeecCChhhhccH-HHHHHHHHHhcCCCCCCcccEEEEcccccCCCCcc--------ceeeHHHHHHHHHhcC
Confidence            99999999999999999998 99999988776 2    468999999999976421        3399999999999999


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      ..+|||+|||.+.||
T Consensus       152 nipyfEtSAK~~~NV  166 (210)
T KOG0394|consen  152 NIPYFETSAKEATNV  166 (210)
T ss_pred             CceeEEecccccccH
Confidence            999999999999885

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=3.3e-37  Score=212.97  Aligned_cols=151  Identities=28%  Similarity=0.511  Sum_probs=138.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      .+.+||+++|.+|+|||||+.+|.++.+...+.++.+.++ .+.+.+++..+.+.+|||+|++.|..+++.+++++|+++
T Consensus         4 ~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~il   83 (189)
T cd04121           4 DYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGII   83 (189)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEE
Confidence            4679999999999999999999999988888778877776 456778899999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      +|||+++++||+.+ ..|++++.+..++.|++|||||+|+...+.          +..++++.+++..++ +|+|+||++
T Consensus        84 lVfD~t~~~Sf~~~-~~w~~~i~~~~~~~piilVGNK~DL~~~~~----------v~~~~~~~~a~~~~~-~~~e~SAk~  151 (189)
T cd04121          84 LVYDITNRWSFDGI-DRWIKEIDEHAPGVPKILVGNRLHLAFKRQ----------VATEQAQAYAERNGM-TFFEVSPLC  151 (189)
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHHhCCCCCEEEEEECccchhccC----------CCHHHHHHHHHHcCC-EEEEecCCC
Confidence            99999999999999 899999988778999999999999976655          889999999999998 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       152 g~~V  155 (189)
T cd04121         152 NFNI  155 (189)
T ss_pred             CCCH
Confidence            9986

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=1.3e-36  Score=208.13  Aligned_cols=160  Identities=54%  Similarity=0.984  Sum_probs=138.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|++|+|||||+++|.++.|...+.||.+..+.+.+.+++..+.+.+|||+|++.+..++..++++++++++|||
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d   81 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFS   81 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeEEEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEEE
Confidence            79999999999999999999999998889999988887777888889999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ++++++|+.+...|+..+....++.|+++++||+|+........  .....+.+..++++++++.++...|+|+||++|+
T Consensus        82 ~~~~~s~~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg~  161 (175)
T cd01874          82 VVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQK  161 (175)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCCCC
Confidence            99999999985569988887667899999999999865422111  1122356888999999999885589999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       162 ~v  163 (175)
T cd01874         162 GL  163 (175)
T ss_pred             CH
Confidence            86

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=9.7e-37  Score=215.93  Aligned_cols=163  Identities=38%  Similarity=0.688  Sum_probs=140.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      ...+||+++|++|||||+|+++|..+.|...+.+|++..+.+.+.+++..+.+.+|||+|++.|..+++.++++++++++
T Consensus        11 ~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIl   90 (232)
T cd04174          11 VMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTAGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLL   90 (232)
T ss_pred             eeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeEEEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEE
Confidence            35789999999999999999999999999999999988887788889999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc--CCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||+++++||+.+...|+..+.+..++.|+++||||+|+.........  .....++..++++++++..++..|+||||+
T Consensus        91 VyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~EtSAk  170 (232)
T cd04174          91 CFDISRPETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLECSAF  170 (232)
T ss_pred             EEECCChHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEccCC
Confidence            999999999998547899999887778999999999998643111100  111245889999999999998679999999


Q ss_pred             Ccc-CC
Q 030961          164 TQQ-VC  168 (168)
Q Consensus       164 ~~~-~i  168 (168)
                      +|+ ||
T Consensus       171 tg~~~V  176 (232)
T cd04174         171 TSEKSI  176 (232)
T ss_pred             cCCcCH
Confidence            997 54

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.

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=9.9e-37  Score=212.47  Aligned_cols=148  Identities=29%  Similarity=0.590  Sum_probs=134.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +.|+++|.+|||||||+++|..+.|...+.+|.+..+ .+.+.+++..+.+++|||+|++.|+.++..+++++|++++||
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVf   80 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVY   80 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEE
Confidence            4689999999999999999999999888889988776 457888999999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh-CCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI-GASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~  165 (168)
                      |+++++||+.+ ..|+..+.+.. .+.|+++||||+|+...+.          +..+++++++.+. ++ .|+++||++|
T Consensus        81 Dvtd~~Sf~~l-~~w~~~i~~~~~~~~piilVgNK~DL~~~~~----------v~~~~~~~~a~~~~~~-~~~etSAktg  148 (202)
T cd04120          81 DITKKETFDDL-PKWMKMIDKYASEDAELLLVGNKLDCETDRE----------ISRQQGEKFAQQITGM-RFCEASAKDN  148 (202)
T ss_pred             ECcCHHHHHHH-HHHHHHHHHhCCCCCcEEEEEECcccccccc----------cCHHHHHHHHHhcCCC-EEEEecCCCC
Confidence            99999999998 88999888765 5799999999999976555          8888999999886 66 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +||
T Consensus       149 ~gV  151 (202)
T cd04120         149 FNV  151 (202)
T ss_pred             CCH
Confidence            986

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

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=3e-37  Score=199.87  Aligned_cols=152  Identities=32%  Similarity=0.611  Sum_probs=141.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ....+||+++|.+|+|||||+.+|..+.|......|++.+|+ +.+.+++..+++-||||.|+++|+.+.+++++++-++
T Consensus         8 ~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGi   87 (209)
T KOG0080|consen    8 YDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGI   87 (209)
T ss_pred             cceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCcee
Confidence            456799999999999999999999999998888888999995 5789999999999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      |+|||++.+++|..+ +.|++++..+.  +++..++|+||+|...++.          ++.+++..+++.+++ -|+|+|
T Consensus        88 IlVYDVT~Rdtf~kL-d~W~~Eld~Ystn~diikmlVgNKiDkes~R~----------V~reEG~kfAr~h~~-LFiE~S  155 (209)
T KOG0080|consen   88 ILVYDVTSRDTFVKL-DIWLKELDLYSTNPDIIKMLVGNKIDKESERV----------VDREEGLKFARKHRC-LFIECS  155 (209)
T ss_pred             EEEEEccchhhHHhH-HHHHHHHHhhcCCccHhHhhhcccccchhccc----------ccHHHHHHHHHhhCc-EEEEcc
Confidence            999999999999999 99999999988  5677789999999887776          999999999999999 899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++-+||
T Consensus       156 Akt~~~V  162 (209)
T KOG0080|consen  156 AKTRENV  162 (209)
T ss_pred             hhhhccH
Confidence            9998875

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=3.5e-36  Score=212.08  Aligned_cols=159  Identities=40%  Similarity=0.776  Sum_probs=139.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|++|||||||+++|.++.|...+.||++..+...+.+++..+.+.+|||+|++.|..+++.+++++|++++|||
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfd   81 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYTASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFD   81 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceEEEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEE
Confidence            79999999999999999999999999999999998888788899999999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc--CCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ++++++|+.+...|...+....++.|++|||||+|+.........  .....+++.+++..++++.++.+|+||||++++
T Consensus        82 is~~~Sf~~i~~~w~~~~~~~~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~~~  161 (222)
T cd04173          82 ISRPETLDSVLKKWQGETQEFCPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRSSE  161 (222)
T ss_pred             CCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCcCC
Confidence            999999999867888888776688999999999999754221111  122446889999999999997799999999987


Q ss_pred             C
Q 030961          167 V  167 (168)
Q Consensus       167 ~  167 (168)
                      |
T Consensus       162 ~  162 (222)
T cd04173         162 R  162 (222)
T ss_pred             c
Confidence            4

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=8.6e-36  Score=203.89  Aligned_cols=160  Identities=63%  Similarity=1.082  Sum_probs=138.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|.+|||||||+.+|+++.+...+.++....+...+.+++..+++.+|||+|++.+..+++.+++++|++++|||
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d   81 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFS   81 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEE
Confidence            68999999999999999999999998888999887777777888899999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ++++++|+.+...|+..+....++.|+++|+||+|+...+....  ......+++.++++.++++++..+|+|+||++|+
T Consensus        82 ~~~~~sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~  161 (174)
T cd01871          82 LVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQK  161 (174)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccccC
Confidence            99999999985579888877667899999999999964321110  0112345889999999999996689999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       162 ~i  163 (174)
T cd01871         162 GL  163 (174)
T ss_pred             CH
Confidence            86

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=5.8e-36  Score=204.40  Aligned_cols=149  Identities=27%  Similarity=0.501  Sum_probs=135.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .+||+++|.+|+|||||+++|.++.+...+.++.+..+.+.+.+++..+.+.+|||+|++.+..+++.+++.++++++||
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~   81 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICY   81 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceEEEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEE
Confidence            57999999999999999999999999888889998778777888999999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |++++.||..+ ..|...+.+..  ++.|+++|+||+|+...+.          +..+++..+++.+++ +|+++||++|
T Consensus        82 d~~~~~Sf~~~-~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~----------v~~~~~~~~a~~~~~-~~~e~Sa~~~  149 (172)
T cd04141          82 SVTDRHSFQEA-SEFKKLITRVRLTEDIPLVLVGNKVDLESQRQ----------VTTEEGRNLAREFNC-PFFETSAALR  149 (172)
T ss_pred             ECCchhHHHHH-HHHHHHHHHhcCCCCCCEEEEEEChhhhhcCc----------cCHHHHHHHHHHhCC-EEEEEecCCC
Confidence            99999999998 67888777643  5799999999999976654          788899999999998 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .||
T Consensus       150 ~~v  152 (172)
T cd04141         150 HYI  152 (172)
T ss_pred             CCH
Confidence            986

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

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=4.1e-36  Score=202.81  Aligned_cols=152  Identities=33%  Similarity=0.585  Sum_probs=144.7

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      -++.+|++++|++++|||-|+.||..+.|.....+|++.++ ...+.++++.+..+||||.||++|+.+...+++++.++
T Consensus        11 ~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgAvGA   90 (222)
T KOG0087|consen   11 YDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   90 (222)
T ss_pred             cceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhccccee
Confidence            46789999999999999999999999999999999999999 55789999999999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.+|+.+ ..|+.+|..+. +++++++||||+||.+.+.          +..++++.+++..++ .|+|+||
T Consensus        91 llVYDITr~~Tfenv-~rWL~ELRdhad~nivimLvGNK~DL~~lra----------V~te~~k~~Ae~~~l-~f~EtSA  158 (222)
T KOG0087|consen   91 LLVYDITRRQTFENV-ERWLKELRDHADSNIVIMLVGNKSDLNHLRA----------VPTEDGKAFAEKEGL-FFLETSA  158 (222)
T ss_pred             EEEEechhHHHHHHH-HHHHHHHHhcCCCCeEEEEeecchhhhhccc----------cchhhhHhHHHhcCc-eEEEecc
Confidence            999999999999998 99999999998 7999999999999998877          999999999999998 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ..+.||
T Consensus       159 l~~tNV  164 (222)
T KOG0087|consen  159 LDATNV  164 (222)
T ss_pred             cccccH
Confidence            999885

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=5.2e-37  Score=196.23  Aligned_cols=151  Identities=32%  Similarity=0.593  Sum_probs=142.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..-.+.+++|++|+|||+|+.+|..+.|...|..|++.++.. ++.++|..++++|||+.|++.|+.+...+++..++++
T Consensus         6 dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~   85 (198)
T KOG0079|consen    6 DHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVI   85 (198)
T ss_pred             HHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEE
Confidence            345688999999999999999999999999999999999964 7889999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      +|||+++.+||.+. ..|++++..+++.+|-++||||.|....+.          +..++++.++...++ .+||+||+.
T Consensus        86 vVYDVTn~ESF~Nv-~rWLeei~~ncdsv~~vLVGNK~d~~~Rrv----------V~t~dAr~~A~~mgi-e~FETSaKe  153 (198)
T KOG0079|consen   86 VVYDVTNGESFNNV-KRWLEEIRNNCDSVPKVLVGNKNDDPERRV----------VDTEDARAFALQMGI-ELFETSAKE  153 (198)
T ss_pred             EEEECcchhhhHhH-HHHHHHHHhcCccccceecccCCCCcccee----------eehHHHHHHHHhcCc-hheehhhhh
Confidence            99999999999999 899999999999999999999999988877          999999999999999 999999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      ++|+
T Consensus       154 ~~Nv  157 (198)
T KOG0079|consen  154 NENV  157 (198)
T ss_pred             cccc
Confidence            9885

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=4.1e-35  Score=199.10  Aligned_cols=149  Identities=30%  Similarity=0.623  Sum_probs=133.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      .+||+++|++|+|||||+++|.++.+...+.++.+.++. +.+.+++..+.+.+||+||++.+..++..++++++++++|
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   81 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV   81 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEE
Confidence            479999999999999999999999998888888877774 4677888899999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      ||++++++|+.+ ..|+..+.... ++.|+++++||+|+...+.          +..+++++++...++ +|+++||++|
T Consensus        82 ~d~~~~~s~~~~-~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sa~~~  149 (166)
T cd04122          82 YDITRRSTYNHL-SSWLTDARNLTNPNTVIFLIGNKADLEAQRD----------VTYEEAKQFADENGL-LFLECSAKTG  149 (166)
T ss_pred             EECCCHHHHHHH-HHHHHHHHHhCCCCCeEEEEEECcccccccC----------cCHHHHHHHHHHcCC-EEEEEECCCC
Confidence            999999999998 88988876655 6789999999999987655          778899999999888 9999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +||
T Consensus       150 ~~i  152 (166)
T cd04122         150 ENV  152 (166)
T ss_pred             CCH
Confidence            986

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

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=6.5e-35  Score=197.24  Aligned_cols=149  Identities=30%  Similarity=0.551  Sum_probs=132.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .+||+++|++|||||||++++..+.+...+.+|.+..+.+.+.+++..+.+.+|||||++++..++..++++++++++||
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (163)
T cd04136           1 EYKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVY   80 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhhhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEE
Confidence            37999999999999999999999998888888887667777888999999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |++++++++.+ ..|...+.+..  .+.|+++++||+|+...+.          +..+++..+++.++. +++++||++|
T Consensus        81 d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~  148 (163)
T cd04136          81 SITSQSSFNDL-QDLREQILRVKDTENVPMVLVGNKCDLEDERV----------VSREEGQALARQWGC-PFYETSAKSK  148 (163)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECccccccce----------ecHHHHHHHHHHcCC-eEEEecCCCC
Confidence            99999999998 78888887654  5799999999999976544          677788888888885 9999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .||
T Consensus       149 ~~v  151 (163)
T cd04136         149 INV  151 (163)
T ss_pred             CCH
Confidence            985

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.

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=1.6e-34  Score=200.16  Aligned_cols=160  Identities=44%  Similarity=0.735  Sum_probs=136.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      .||+++|++|||||||+++|.++.+...+.+|.+..+...+.+++..+.+.+||++|++.+..+++.++++++++++|||
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~d   80 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYVHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFS   80 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeEEEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEE
Confidence            38999999999999999999999998888899988887777788888999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc--CCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ++++++|+.+...|+..+....++.|+++|+||+|+...+.....  ......+..+++..++...+..+|+++||++|+
T Consensus        81 v~~~~sf~~~~~~~~~~i~~~~~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~  160 (189)
T cd04134          81 VDSPDSLENVESKWLGEIREHCPGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLNR  160 (189)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcCC
Confidence            999999998844699888876678999999999999765431110  111224677888999988885589999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       161 ~v  162 (189)
T cd04134         161 GV  162 (189)
T ss_pred             CH
Confidence            86

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.

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=1.4e-34  Score=200.40  Aligned_cols=151  Identities=34%  Similarity=0.580  Sum_probs=135.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|.+|+|||||+++|.++.+...+.+|.+..+.+.+.+++..+.+.+|||+|++.+..++..+++.++++++
T Consensus         3 ~~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iil   82 (189)
T PTZ00369          3 STEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYRKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLC   82 (189)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEEEEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEE
Confidence            34799999999999999999999999988888888888887788889999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||++++++|+.+ ..|+..+.+..  ++.|+++++||+|+...+.          +..+++..+++.+++ +|+++||+
T Consensus        83 v~D~s~~~s~~~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----------i~~~~~~~~~~~~~~-~~~e~Sak  150 (189)
T PTZ00369         83 VYSITSRSSFEEI-ASFREQILRVKDKDRVPMILVGNKCDLDSERQ----------VSTGEGQELAKSFGI-PFLETSAK  150 (189)
T ss_pred             EEECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECcccccccc----------cCHHHHHHHHHHhCC-EEEEeeCC
Confidence            9999999999998 78888887654  4789999999999875543          677788888888887 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.||
T Consensus       151 ~~~gi  155 (189)
T PTZ00369        151 QRVNV  155 (189)
T ss_pred             CCCCH
Confidence            99986

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.4e-35  Score=189.45  Aligned_cols=151  Identities=31%  Similarity=0.632  Sum_probs=140.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEE-EEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSAN-VVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +...|++++|+..+|||||+.|+.++.|...+..|.+..|+.+ +.-..+.+.+++|||.|++.|+.+...+++++++++
T Consensus        19 DymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfi   98 (193)
T KOG0093|consen   19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (193)
T ss_pred             cceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEE
Confidence            4678999999999999999999999999999999999999664 444567799999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||.+|.+||..+ +.|.-+++.+. .+.|+++++||||+..++.          ++.+.++.+++++|. .|||+||+
T Consensus        99 LmyDitNeeSf~sv-qdw~tqIktysw~naqvilvgnKCDmd~eRv----------is~e~g~~l~~~LGf-efFEtSaK  166 (193)
T KOG0093|consen   99 LMYDITNEESFNSV-QDWITQIKTYSWDNAQVILVGNKCDMDSERV----------ISHERGRQLADQLGF-EFFETSAK  166 (193)
T ss_pred             EEEecCCHHHHHHH-HHHHHHheeeeccCceEEEEecccCCcccee----------eeHHHHHHHHHHhCh-HHhhhccc
Confidence            99999999999998 99999999998 7999999999999999887          999999999999999 99999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      .+-||
T Consensus       167 ~NinV  171 (193)
T KOG0093|consen  167 ENINV  171 (193)
T ss_pred             ccccH
Confidence            98875

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=1.3e-34  Score=196.23  Aligned_cols=149  Identities=29%  Similarity=0.551  Sum_probs=133.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      ++||+++|.+|||||||++++..+.+...+.++.+..+.+.+.+++..+.+.+|||||++.+..++..+++++|++++||
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVY   80 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEEEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEE
Confidence            47999999999999999999999888888888888777777888898999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |++++.+++.+ ..|...+....  .+.|+++++||+|+.....          +..+++..+++.+++ +|+++||++|
T Consensus        81 d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~  148 (164)
T cd04175          81 SITAQSTFNDL-QDLREQILRVKDTEDVPMILVGNKCDLEDERV----------VGKEQGQNLARQWGC-AFLETSAKAK  148 (164)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECCcchhccE----------EcHHHHHHHHHHhCC-EEEEeeCCCC
Confidence            99999999998 77888776543  6799999999999976654          677778889988887 9999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .||
T Consensus       149 ~~v  151 (164)
T cd04175         149 INV  151 (164)
T ss_pred             CCH
Confidence            986

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

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

Probab=100.00  E-value=3.1e-34  Score=196.03  Aligned_cols=158  Identities=61%  Similarity=1.047  Sum_probs=137.5

Q ss_pred             EEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCC
Q 030961           11 CVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLV   90 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   90 (168)
                      |+++|++|+|||||+++|.++.+...+.++....+...+.+++..+.+.+|||+|++.+..+++..++++|++++|||++
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~   80 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENYSADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVD   80 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeeeeEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECC
Confidence            58999999999999999999999888888888888777888899999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961           91 SRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus        91 ~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      ++++|+.+...|+..+.+..++.|+++++||+|+........  ......++..+++..+++..+...|+++||++|.||
T Consensus        81 ~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v  160 (174)
T smart00174       81 SPASFENVKEKWYPEVKHFCPNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQEGV  160 (174)
T ss_pred             CHHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCCCH
Confidence            999999985679999988778999999999999976432111  122334578899999999999768999999999985

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=2.8e-34  Score=200.65  Aligned_cols=149  Identities=29%  Similarity=0.472  Sum_probs=131.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEEC-CeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAE-GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +||+++|++|||||||+++|.++.+...+.+|.+.++. +.+.++ +..+.+.+|||+|++.+..+++.++++++++++|
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            58999999999999999999999998888899987764 456677 7889999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ||++++++|+.+ ..|+..+....     .++|++||+||+|+...+.          +..+++.++++..+..+|+++|
T Consensus        81 ~D~t~~~s~~~~-~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~e~S  149 (201)
T cd04107          81 FDVTRPSTFEAV-LKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLA----------KDGEQMDQFCKENGFIGWFETS  149 (201)
T ss_pred             EECCCHHHHHHH-HHHHHHHHHhhcccCCCCCcEEEEEECCCcccccc----------cCHHHHHHHHHHcCCceEEEEe
Confidence            999999999998 78888776531     4789999999999975444          7788999999999955899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|+||
T Consensus       150 ak~~~~v  156 (201)
T cd04107         150 AKEGINI  156 (201)
T ss_pred             CCCCCCH
Confidence            9999986

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.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=100.00  E-value=2.5e-34  Score=195.42  Aligned_cols=150  Identities=30%  Similarity=0.643  Sum_probs=134.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      +.+||+++|++|+|||||+++|.+.++...+.++.+.++. ..+..++..+.+.+||++|++.+..++..+++++|++++
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~   81 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEE
Confidence            5689999999999999999999999998888898887764 466778888999999999999998888899999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |||++++++|..+ ..|+..+.+.. .+.|+++++||+|+...+.          +..+++..++...++ +++++||++
T Consensus        82 v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~  149 (167)
T cd01867          82 VYDITDEKSFENI-RNWMRNIEEHASEDVERMLVGNKCDMEEKRV----------VSKEEGEALADEYGI-KFLETSAKA  149 (167)
T ss_pred             EEECcCHHHHHhH-HHHHHHHHHhCCCCCcEEEEEECcccccccC----------CCHHHHHHHHHHcCC-EEEEEeCCC
Confidence            9999999999998 78999888765 5789999999999986544          677888999998888 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       150 ~~~v  153 (167)
T cd01867         150 NINV  153 (167)
T ss_pred             CCCH
Confidence            9986

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

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=3.4e-34  Score=194.42  Aligned_cols=148  Identities=32%  Similarity=0.646  Sum_probs=132.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|++|||||||+++|.++++...+.++.+.++. ..+..++..+.+.+||++|++.+..++..++++++++++||
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~   81 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY   81 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEE
Confidence            79999999999999999999999998888888876663 45666778899999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      |++++++++.+ ..|+..+.+.. ++.|+++++||+|+.+.+.          +..+++.++++.+++ +++++||++|.
T Consensus        82 d~~~~~s~~~~-~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~  149 (165)
T cd01865          82 DITNEESFNAV-QDWSTQIKTYSWDNAQVILVGNKCDMEDERV----------VSSERGRQLADQLGF-EFFEASAKENI  149 (165)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhCCCCCCEEEEEECcccCcccc----------cCHHHHHHHHHHcCC-EEEEEECCCCC
Confidence            99999999998 88999988766 5789999999999976654          677888889998888 89999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       150 gv  151 (165)
T cd01865         150 NV  151 (165)
T ss_pred             CH
Confidence            86

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

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=3.8e-34  Score=193.53  Aligned_cols=148  Identities=33%  Similarity=0.642  Sum_probs=133.2

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|++|+|||||+++|.++.+...+.++.+.++ .+.+.+++..+.+.+||++|++.+..++..+++++|++++||
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVY   80 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEE
Confidence            4899999999999999999999999888888888766 456778888899999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      |++++++|+.+ ..|+..+.... .+.|+++++||+|+...+.          +..+++..+++.+++ +|+++||++|.
T Consensus        81 d~~~~~sf~~~-~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sa~~~~  148 (161)
T cd04117          81 DISSERSYQHI-MKWVSDVDEYAPEGVQKILIGNKADEEQKRQ----------VGDEQGNKLAKEYGM-DFFETSACTNS  148 (161)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhCCCCCeEEEEEECcccccccC----------CCHHHHHHHHHHcCC-EEEEEeCCCCC
Confidence            99999999998 78999887765 4789999999999976654          778899999999997 89999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       149 ~v  150 (161)
T cd04117         149 NI  150 (161)
T ss_pred             CH
Confidence            86

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=100.00  E-value=7.3e-34  Score=194.21  Aligned_cols=160  Identities=49%  Similarity=0.914  Sum_probs=136.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +|++++|++|+|||||++++.++.+...+.+|..+.+...+.+++..+.+.+||+||++.+..+++.+++++|++++|||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d   80 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFS   80 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEEE
Confidence            58999999999999999999999998888888877777778888888999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhh--hcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYL--ADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ++++.+|+.+...|+..+....++.|+++++||+|+.......  ......+.+..+++..+++..+..+|+++||++|.
T Consensus        81 ~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~~~  160 (173)
T cd04130          81 VVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQK  160 (173)
T ss_pred             CCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCCCC
Confidence            9999999998567888888765789999999999986432100  01112345788899999999987789999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       161 ~v  162 (173)
T cd04130         161 NL  162 (173)
T ss_pred             CH
Confidence            86

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,

>cd04127 Rab27A Rab27a subfamily

Probab=100.00  E-value=3.2e-34  Score=196.98  Aligned_cols=151  Identities=38%  Similarity=0.619  Sum_probs=132.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEEC----------CeEEEEEEEeCCCCcccccccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAE----------GTTVNLGLWDTAGQEDYNRLRP   74 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~----------~~~~~~~i~D~~g~~~~~~~~~   74 (168)
                      .+.+||+++|++|||||||+++|.++.+...+.++.+.++. ..+...          +..+.+.+||++|++.+..++.
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   81 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTT   81 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHH
Confidence            35799999999999999999999999998888888877663 344433          4578999999999999999999


Q ss_pred             ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh
Q 030961           75 LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI  152 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (168)
                      .+++++|++++|||+++++++..+ ..|+..+....  ++.|+++|+||+|+...+.          +..+++..++..+
T Consensus        82 ~~~~~~~~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----------v~~~~~~~~~~~~  150 (180)
T cd04127          82 AFFRDAMGFLLIFDLTNEQSFLNV-RNWMSQLQTHAYCENPDIVLCGNKADLEDQRQ----------VSEEQAKALADKY  150 (180)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHHH-HHHHHHHHHhcCCCCCcEEEEEeCccchhcCc----------cCHHHHHHHHHHc
Confidence            999999999999999999999998 88999887754  5789999999999976654          7788899999999


Q ss_pred             CCcEEEEecccCccCC
Q 030961          153 GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ~~~~~~~~Sa~~~~~i  168 (168)
                      ++ +++++||++|.||
T Consensus       151 ~~-~~~e~Sak~~~~v  165 (180)
T cd04127         151 GI-PYFETSAATGTNV  165 (180)
T ss_pred             CC-eEEEEeCCCCCCH
Confidence            97 8999999999986

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=6e-34  Score=201.21  Aligned_cols=150  Identities=28%  Similarity=0.470  Sum_probs=131.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      +...+||+++|.+|||||||+++++.+.+...+.+|.+..+ ...+..++..+.+.+|||+|++.+..++..++++++++
T Consensus        10 ~~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~   89 (219)
T PLN03071         10 DYPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCA   89 (219)
T ss_pred             CCCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEE
Confidence            46789999999999999999999999999888899987666 44666778889999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      ++|||+++++++..+ ..|+..+.+..++.|+++||||+|+....           +..+++ .+++..++ +|+++||+
T Consensus        90 ilvfD~~~~~s~~~i-~~w~~~i~~~~~~~piilvgNK~Dl~~~~-----------v~~~~~-~~~~~~~~-~~~e~SAk  155 (219)
T PLN03071         90 IIMFDVTARLTYKNV-PTWHRDLCRVCENIPIVLCGNKVDVKNRQ-----------VKAKQV-TFHRKKNL-QYYEISAK  155 (219)
T ss_pred             EEEEeCCCHHHHHHH-HHHHHHHHHhCCCCcEEEEEEchhhhhcc-----------CCHHHH-HHHHhcCC-EEEEcCCC
Confidence            999999999999998 89999998877789999999999996432           334444 67777777 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.||
T Consensus       156 ~~~~i  160 (219)
T PLN03071        156 SNYNF  160 (219)
T ss_pred             CCCCH
Confidence            99986

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=5.4e-34  Score=197.08  Aligned_cols=154  Identities=50%  Similarity=0.919  Sum_probs=133.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEEC-CeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAE-GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|++|+|||||+++|.++.+...+.++.+..+...+... +..+.+.+|||+|++.+..+++.+++++|++++||
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            58999999999999999999999998888888888776666665 77899999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961           88 SLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      |++++.+|+.+...|+..+....++.|+++++||+|+.....      ....+..+++++++..+++.+++++||++|.|
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~------~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~  154 (187)
T cd04132          81 AVDNPTSLDNVEDKWFPEVNHFCPGTPIMLVGLKTDLRKDKN------LDRKVTPAQAESVAKKQGAFAYLECSAKTMEN  154 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhhhCcc------ccCCcCHHHHHHHHHHcCCcEEEEccCCCCCC
Confidence            999999999985578888876667899999999999975431      11236788999999999876899999999998


Q ss_pred             C
Q 030961          168 C  168 (168)
Q Consensus       168 i  168 (168)
                      |
T Consensus       155 v  155 (187)
T cd04132         155 V  155 (187)
T ss_pred             H
Confidence            6

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.

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=7.2e-34  Score=192.29  Aligned_cols=149  Identities=28%  Similarity=0.566  Sum_probs=131.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      ++||+++|.+|+|||||++++.++.+...+.++....+...+.+++..+.+.+|||+|++++..+++.+++++|++++||
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~   80 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVY   80 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchhheEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEEE
Confidence            47999999999999999999999999888888876556667888888899999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |++++.++.++ ..|...+.+..  .+.|+++++||+|+...+.          +..+++..++..+++ +++++||++|
T Consensus        81 d~~~~~s~~~~-~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~  148 (163)
T cd04176          81 SLVNQQTFQDI-KPMRDQIVRVKGYEKVPIILVGNKVDLESERE----------VSSAEGRALAEEWGC-PFMETSAKSK  148 (163)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECccchhcCc----------cCHHHHHHHHHHhCC-EEEEecCCCC
Confidence            99999999998 78888887754  5799999999999975443          666778888888887 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .||
T Consensus       149 ~~v  151 (163)
T cd04176         149 TMV  151 (163)
T ss_pred             CCH
Confidence            985

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

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.7e-35  Score=188.84  Aligned_cols=156  Identities=30%  Similarity=0.546  Sum_probs=144.9

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG   79 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   79 (168)
                      |+..-++-+|++++|+.|.|||+|+++|+..+|..+...|++.+| .+.+.+.++.++++||||.|+++|++....++++
T Consensus         2 msEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRG   81 (214)
T KOG0086|consen    2 MSETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRG   81 (214)
T ss_pred             cchhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhcc
Confidence            344456788999999999999999999999999999999999999 5677889999999999999999999999999999


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      +-+.++|||++++++|+.+ ..|+....... +++-+++++||.|+.+.++          ++-.++..+|.+..+ -+.
T Consensus        82 AAGAlLVYD~TsrdsfnaL-tnWL~DaR~lAs~nIvviL~GnKkDL~~~R~----------VtflEAs~FaqEnel-~fl  149 (214)
T KOG0086|consen   82 AAGALLVYDITSRDSFNAL-TNWLTDARTLASPNIVVILCGNKKDLDPERE----------VTFLEASRFAQENEL-MFL  149 (214)
T ss_pred             ccceEEEEeccchhhHHHH-HHHHHHHHhhCCCcEEEEEeCChhhcChhhh----------hhHHHHHhhhcccce-eee
Confidence            9999999999999999998 89999888877 6788899999999999988          999999999999998 899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      |+||++|+||
T Consensus       150 ETSa~TGeNV  159 (214)
T KOG0086|consen  150 ETSALTGENV  159 (214)
T ss_pred             eecccccccH
Confidence            9999999986

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=3.3e-34  Score=198.69  Aligned_cols=147  Identities=37%  Similarity=0.624  Sum_probs=131.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      ||+++|.+|||||||+++|..+.+...+.++.+..+.+...+++..+.+.+|||+|++++..++..+++.+|++++|||+
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~   80 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSI   80 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEEC
Confidence            68999999999999999999999988888888877766777888889999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHhHHHHHchhC----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           90 VSRASYENVLKKWIPELQHYS----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      +++++|+.+ ..|+..+....    ++.|+++|+||+|+...+.          +..+++..++..+++ +|+++||++|
T Consensus        81 ~~~~s~~~~-~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~SAk~~  148 (190)
T cd04144          81 TSRSTFERV-ERFREQIQRVKDESAADVPIMIVGNKCDKVYERE----------VSTEEGAALARRLGC-EFIEASAKTN  148 (190)
T ss_pred             CCHHHHHHH-HHHHHHHHHHhcccCCCCCEEEEEEChhccccCc----------cCHHHHHHHHHHhCC-EEEEecCCCC
Confidence            999999998 78888776543    4689999999999976554          777788889998997 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .||
T Consensus       149 ~~v  151 (190)
T cd04144         149 VNV  151 (190)
T ss_pred             CCH
Confidence            986

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.

>cd04135 Tc10 TC10 subfamily

Probab=100.00  E-value=2.3e-33  Score=191.68  Aligned_cols=160  Identities=54%  Similarity=0.990  Sum_probs=137.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|++|+|||||+++|.++.+...+.++....+...+.+++..+.+.+|||+|++.+..+++.++++++++++|||
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~   80 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFS   80 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEEE
Confidence            58999999999999999999999998888888877777778888889999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhh--hcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYL--ADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      +.++.+|+.+...|+..+....++.|+++++||+|+.+.....  ........+..++++.+++.+++.+|+++||++|.
T Consensus        81 ~~~~~s~~~~~~~~~~~l~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~  160 (174)
T cd04135          81 VVNPASFQNVKEEWVPELKEYAPNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALTQK  160 (174)
T ss_pred             CCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCcCC
Confidence            9999999998667888887666789999999999987543211  11233345778899999999998789999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       161 gi  162 (174)
T cd04135         161 GL  162 (174)
T ss_pred             CH
Confidence            86

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=9.3e-34  Score=192.35  Aligned_cols=149  Identities=31%  Similarity=0.676  Sum_probs=133.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      .+||+++|.+|||||||+++|.++.+...+.++.+.++ .+.+..++..+.+.+||+||++.+..++..++++++++++|
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v   81 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIV   81 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEE
Confidence            58999999999999999999999988887788887666 45677788889999999999999999989999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      ||+++++++..+ ..|+..+.+.. ++.|+++++||+|+...+.          +..+++..++...++ +++++||++|
T Consensus        82 ~d~~~~~s~~~l-~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~  149 (166)
T cd01869          82 YDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTDKRV----------VDYSEAQEFADELGI-PFLETSAKNA  149 (166)
T ss_pred             EECcCHHHHHhH-HHHHHHHHHhCCCCCcEEEEEEChhcccccC----------CCHHHHHHHHHHcCC-eEEEEECCCC
Confidence            999999999998 78999888766 6789999999999876654          778889999999988 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +||
T Consensus       150 ~~v  152 (166)
T cd01869         150 TNV  152 (166)
T ss_pred             cCH
Confidence            986

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

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=9.5e-34  Score=192.16  Aligned_cols=151  Identities=32%  Similarity=0.562  Sum_probs=133.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      +.+||+++|++|+|||||++++.++.+...+.++.+.++ .+.+.+++..+.+.+||+||++.+..++..+++.+|++++
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~ll   81 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAII   81 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            568999999999999999999999988877778877665 4567788888899999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |||+++++++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..+++..+++.++...++++||++
T Consensus        82 v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~e~Sa~~  150 (165)
T cd01864          82 AYDITRRSSFESV-PHWIEEVEKYGASNVVLLLIGNKCDLEEQRE----------VLFEEACTLAEKNGMLAVLETSAKE  150 (165)
T ss_pred             EEECcCHHHHHhH-HHHHHHHHHhCCCCCcEEEEEECcccccccc----------cCHHHHHHHHHHcCCcEEEEEECCC
Confidence            9999999999998 88999988765 6799999999999976654          7778899999998876899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.|+
T Consensus       151 ~~~v  154 (165)
T cd01864         151 SQNV  154 (165)
T ss_pred             CCCH
Confidence            9985

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.

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=1.1e-33  Score=194.70  Aligned_cols=152  Identities=29%  Similarity=0.546  Sum_probs=128.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|++|+|||||+++|.++.|...+.+|.+.++ .+.+.+++..+.+.+||++|++.|..+++.++++++++++||
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~   80 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMF   80 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEE
Confidence            5899999999999999999999999888899998776 457888899999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      |++++++++.+ ..|+..+.+.. ...| ++|+||+|+.....     ........++++++++..++ +++++||++|+
T Consensus        81 D~t~~~s~~~i-~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~-----~~~~~~~~~~~~~~a~~~~~-~~~e~SAk~g~  152 (182)
T cd04128          81 DLTRKSTLNSI-KEWYRQARGFNKTAIP-ILVGTKYDLFADLP-----PEEQEEITKQARKYAKAMKA-PLIFCSTSHSI  152 (182)
T ss_pred             ECcCHHHHHHH-HHHHHHHHHhCCCCCE-EEEEEchhcccccc-----chhhhhhHHHHHHHHHHcCC-EEEEEeCCCCC
Confidence            99999999998 88999887765 3456 67899999963210     00001234678889999997 89999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       153 ~v  154 (182)
T cd04128         153 NV  154 (182)
T ss_pred             CH
Confidence            86

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

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=1.1e-33  Score=191.96  Aligned_cols=148  Identities=25%  Similarity=0.478  Sum_probs=129.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|.+|+|||||+++++++.+...+.++.+..+......+...+.+.+|||+|++.+..++..+++.++++++|||
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d   81 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYRQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVYS   81 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheEEEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEE
Confidence            78999999999999999999999988888888877776666777888999999999999999888888999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           89 LVSRASYENVLKKWIPELQHYS----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ++++++++.+ ..|+..+.+..    +++|+++|+||+|+...+.          +..+++..++..+++ +|+++||++
T Consensus        82 ~~~~~s~~~~-~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~SA~~  149 (165)
T cd04140          82 VTSKQSLEEL-KPIYELICEIKGNNIEKIPIMLVGNKCDESHKRE----------VSSNEGAACATEWNC-AFMETSAKT  149 (165)
T ss_pred             CCCHHHHHHH-HHHHHHHHHHhcCCCCCCCEEEEEECccccccCe----------ecHHHHHHHHHHhCC-cEEEeecCC
Confidence            9999999998 77877766542    5789999999999976544          777788888888887 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+||
T Consensus       150 g~~v  153 (165)
T cd04140         150 NHNV  153 (165)
T ss_pred             CCCH
Confidence            9985

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

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=1.4e-33  Score=196.88  Aligned_cols=151  Identities=32%  Similarity=0.558  Sum_probs=135.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +..+||+++|++|+|||||+++|.+..+...+.+|.+.++ ...+.+++..+.+.+||+||++.+..++..+++++++++
T Consensus         4 ~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~ii   83 (199)
T cd04110           4 DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVI   83 (199)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEE
Confidence            4579999999999999999999999998888888887666 346677888899999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      +|||++++++|..+ ..|+..+....+..|++||+||+|+.....          +..+++..++...++ +|+++||++
T Consensus        84 lv~D~~~~~s~~~~-~~~~~~i~~~~~~~piivVgNK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sa~~  151 (199)
T cd04110          84 VVYDVTNGESFVNV-KRWLQEIEQNCDDVCKVLVGNKNDDPERKV----------VETEDAYKFAGQMGI-SLFETSAKE  151 (199)
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHHhCCCCCEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEEEEECCC
Confidence            99999999999998 889999888777899999999999976554          677888999998887 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       152 ~~gi  155 (199)
T cd04110         152 NINV  155 (199)
T ss_pred             CcCH
Confidence            9986

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=9.8e-34  Score=191.78  Aligned_cols=148  Identities=34%  Similarity=0.618  Sum_probs=131.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|++|||||||+++|.+..+...+.++.+..+.+...+++..+.+.+|||||++++..++..+++.++++++|||
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d   80 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYS   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhhhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEE
Confidence            58999999999999999999999988888888877777777888889999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ++++++++.+ ..|...+.+..  .+.|+++++||+|+...+.          +..+++..+++.++. +|+++||++|+
T Consensus        81 ~~~~~s~~~~-~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~  148 (164)
T smart00173       81 ITDRQSFEEI-KKFREQILRVKDRDDVPIVLVGNKCDLESERV----------VSTEEGKELARQWGC-PFLETSAKERV  148 (164)
T ss_pred             CCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECccccccce----------EcHHHHHHHHHHcCC-EEEEeecCCCC
Confidence            9999999998 78877776654  4789999999999976544          677888889988886 99999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       149 ~i  150 (164)
T smart00173      149 NV  150 (164)
T ss_pred             CH
Confidence            85

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=1.2e-33  Score=190.98  Aligned_cols=148  Identities=33%  Similarity=0.576  Sum_probs=132.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEEC--CeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAE--GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~--~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      +||+++|.+++|||||+++|.++.+...+.++.+.++ ...+.+.  +..+.+++||+||++.+..++..++++++++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            5899999999999999999999988888888888776 4456666  778999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |||+++++++..+ ..|+..+.+..++.|+++++||+|+...+.          +..+++..+++.+++ +++++||++|
T Consensus        81 v~d~~~~~s~~~l-~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~~  148 (162)
T cd04106          81 VFSTTDRESFEAI-ESWKEKVEAECGDIPMVLVQTKIDLLDQAV----------ITNEEAEALAKRLQL-PLFRTSVKDD  148 (162)
T ss_pred             EEECCCHHHHHHH-HHHHHHHHHhCCCCCEEEEEEChhcccccC----------CCHHHHHHHHHHcCC-eEEEEECCCC
Confidence            9999999999998 889998887667899999999999976654          677889999999998 9999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .|+
T Consensus       149 ~~v  151 (162)
T cd04106         149 FNV  151 (162)
T ss_pred             CCH
Confidence            885

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

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

Probab=100.00  E-value=1.4e-33  Score=190.85  Aligned_cols=150  Identities=34%  Similarity=0.576  Sum_probs=132.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|++|+|||||++++++..+...+.++.+..+.....+++..+.+.+|||||++++..++..+++++|++++|
T Consensus         1 ~~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   80 (164)
T cd04145           1 PTYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLV   80 (164)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceEEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEE
Confidence            35899999999999999999999988888888888777766777888889999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||++++.+++.+ ..|+..+.+..  .+.|+++++||+|+...+.          +..+++.++++..+. +++++||++
T Consensus        81 ~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~  148 (164)
T cd04145          81 FSVTDRGSFEEV-DKFHTQILRVKDRDEFPMILVGNKADLEHQRK----------VSREEGQELARKLKI-PYIETSAKD  148 (164)
T ss_pred             EECCCHHHHHHH-HHHHHHHHHHhCCCCCCEEEEeeCccccccce----------ecHHHHHHHHHHcCC-cEEEeeCCC
Confidence            999999999998 78888877653  5789999999999976544          677788899998887 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       149 ~~~i  152 (164)
T cd04145         149 RLNV  152 (164)
T ss_pred             CCCH
Confidence            9986

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

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

Probab=100.00  E-value=1.8e-33  Score=189.73  Aligned_cols=148  Identities=39%  Similarity=0.611  Sum_probs=131.4

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .+||+++|++|||||||+++|.++.+...+.++.+..+.+.+.+++..+.+.+||++|++.+..++..+++.++++++||
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~   80 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVF   80 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheEEEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEE
Confidence            37999999999999999999999998888888888777777888888899999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |++++.++..+ ..|...+.+..  .+.|+++++||+|+....           +..+++..++..++. +++++||++|
T Consensus        81 ~~~~~~s~~~~-~~~~~~i~~~~~~~~~piivv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~-~~~~~Sa~~~  147 (162)
T cd04138          81 AINSRKSFEDI-HTYREQIKRVKDSDDVPMVLVGNKCDLAART-----------VSSRQGQDLAKSYGI-PYIETSAKTR  147 (162)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECcccccce-----------ecHHHHHHHHHHhCC-eEEEecCCCC
Confidence            99999999998 77887777654  578999999999997532           567788888888888 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .||
T Consensus       148 ~gi  150 (162)
T cd04138         148 QGV  150 (162)
T ss_pred             CCH
Confidence            986

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.

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=100.00  E-value=2.6e-34  Score=195.30  Aligned_cols=163  Identities=64%  Similarity=1.069  Sum_probs=150.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEEC-CeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAE-GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ...+|+++||+.++|||+|+..+..+.|.+.|.||.++.|...+.++ +..+.+.+|||.|++.|..+++..+.++|+++
T Consensus         2 ~~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVFdnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl   81 (198)
T KOG0393|consen    2 SRRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVFDNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFL   81 (198)
T ss_pred             ceeeEEEEECCCCcCceEEEEEeccCcCcccccCeEEccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEE
Confidence            35789999999999999999999999999999999999999999995 99999999999999999999989999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchh--hhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHY--LADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +||++.++.||+++...|+.++.+++++.|+++||+|.||..+...  ........++..+++..++++.|+..|+|+||
T Consensus        82 ~cfsv~~p~S~~nv~~kW~pEi~~~cp~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcSa  161 (198)
T KOG0393|consen   82 LCFSVVSPESFENVKSKWIPEIKHHCPNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECSA  161 (198)
T ss_pred             EEEEcCChhhHHHHHhhhhHHHHhhCCCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeehh
Confidence            9999999999999999999999999999999999999999965433  23345678899999999999999989999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++..|+
T Consensus       162 ~tq~~v  167 (198)
T KOG0393|consen  162 LTQKGV  167 (198)
T ss_pred             hhhCCc
Confidence            999885

>cd01873 RhoBTB RhoBTB subfamily

Probab=100.00  E-value=3.9e-33  Score=193.66  Aligned_cols=158  Identities=39%  Similarity=0.609  Sum_probs=124.6

Q ss_pred             eeEEEEECCCCCCHHHHHH-HHhcCC-----CCCCCCCcee--eceeEE--------EEECCeEEEEEEEeCCCCccccc
Q 030961            8 FIKCVTVGDGAVGKTCMLI-CYTSNK-----FPTDYIPTVF--DNFSAN--------VVAEGTTVNLGLWDTAGQEDYNR   71 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~-~l~~~~-----~~~~~~~~~~--~~~~~~--------~~~~~~~~~~~i~D~~g~~~~~~   71 (168)
                      .+||+++|++|+|||||+. ++.+..     +...+.||++  ..+...        ..+++..+.+++|||+|++.  .
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--K   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--h
Confidence            4799999999999999996 665543     4456778875  333322        25788899999999999975  3


Q ss_pred             cccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh---------cCCCCCcccH
Q 030961           72 LRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA---------DHPGLVPVTT  142 (168)
Q Consensus        72 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~---------~~~~~~~~~~  142 (168)
                      +...+++++|++++|||++++.||+.+...|+..+.+..++.|+++||||+|+........         .....++++.
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~  159 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPP  159 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccccccchhhhcccccccccccCCccCH
Confidence            5566889999999999999999999984469998887767899999999999964211000         0011356899


Q ss_pred             HHHHHHHHHhCCcEEEEecccCccCC
Q 030961          143 AQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      ++++++++++++ +|+||||++|+||
T Consensus       160 ~e~~~~a~~~~~-~~~E~SAkt~~~V  184 (195)
T cd01873         160 ETGRAVAKELGI-PYYETSVVTQFGV  184 (195)
T ss_pred             HHHHHHHHHhCC-EEEEcCCCCCCCH
Confidence            999999999998 9999999999986

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.

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=2.2e-33  Score=190.29  Aligned_cols=150  Identities=32%  Similarity=0.570  Sum_probs=133.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      ..+||+++|.++||||||+++|.+..+...+.++.+.++ .+.+..++..+.+.+||+||++.+..+++.++++++++++
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~   81 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALL   81 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEE
Confidence            468999999999999999999999998888888888776 4567788888999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCC-CCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSP-GVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~-~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |||++++.++..+ ..|+..+.+... +.|+++++||+|+...+.          +..++...++...++ +++++||++
T Consensus        82 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~  149 (165)
T cd01868          82 VYDITKKQTFENV-ERWLKELRDHADSNIVIMLVGNKSDLRHLRA----------VPTEEAKAFAEKNGL-SFIETSALD  149 (165)
T ss_pred             EEECcCHHHHHHH-HHHHHHHHHhCCCCCeEEEEEECcccccccc----------CCHHHHHHHHHHcCC-EEEEEECCC
Confidence            9999999999998 789998887764 699999999999976654          677888899988887 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       150 ~~~v  153 (165)
T cd01868         150 GTNV  153 (165)
T ss_pred             CCCH
Confidence            9985

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

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

Probab=100.00  E-value=1.2e-33  Score=191.02  Aligned_cols=147  Identities=39%  Similarity=0.770  Sum_probs=135.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      ||+++|+++||||||+++|.++.+...+.+|.+.+. .+.+.+++..+.+.+||++|++.+..+....+++++++++|||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd   80 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFD   80 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            799999999999999999999999998899985554 6788899999999999999999998888889999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCC-CCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961           89 LVSRASYENVLKKWIPELQHYSP-GVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~-~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      +++++|++.+ ..|+..+....+ +.|++|+|||+|+...+.          +..++++++++.++. +|+++||+++.|
T Consensus        81 ~~~~~S~~~~-~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sa~~~~~  148 (162)
T PF00071_consen   81 VTDEESFENL-KKWLEEIQKYKPEDIPIIVVGNKSDLSDERE----------VSVEEAQEFAKELGV-PYFEVSAKNGEN  148 (162)
T ss_dssp             TTBHHHHHTH-HHHHHHHHHHSTTTSEEEEEEETTTGGGGSS----------SCHHHHHHHHHHTTS-EEEEEBTTTTTT
T ss_pred             cccccccccc-ccccccccccccccccceeeecccccccccc----------chhhHHHHHHHHhCC-EEEEEECCCCCC
Confidence            9999999999 799999999886 799999999999988655          889999999999995 999999999988


Q ss_pred             C
Q 030961          168 C  168 (168)
Q Consensus       168 i  168 (168)
                      |
T Consensus       149 v  149 (162)
T PF00071_consen  149 V  149 (162)
T ss_dssp             H
T ss_pred             H
Confidence            5

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=4.4e-33  Score=189.72  Aligned_cols=152  Identities=34%  Similarity=0.617  Sum_probs=133.0

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      +...+||+++|++|+|||||+++|.++.+...+.++.+.++ .+.+.+++..+.+.+||+||++.+..++..+++++|++
T Consensus         2 ~~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~   81 (170)
T cd04116           2 KSSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCC   81 (170)
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEE
Confidence            45679999999999999999999999998887788887766 45777889999999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      ++|||++++++++.+ ..|...+....     .+.|+++++||+|+.. +.          +..++++++++.++..+++
T Consensus        82 i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~~----------~~~~~~~~~~~~~~~~~~~  149 (170)
T cd04116          82 LLTFAVDDSQSFQNL-SNWKKEFIYYADVKEPESFPFVVLGNKNDIPE-RQ----------VSTEEAQAWCRENGDYPYF  149 (170)
T ss_pred             EEEEECCCHHHHHhH-HHHHHHHHHhcccccCCCCcEEEEEECccccc-cc----------cCHHHHHHHHHHCCCCeEE
Confidence            999999999999998 78888775533     4689999999999863 22          6788899999999866899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       150 e~Sa~~~~~v  159 (170)
T cd04116         150 ETSAKDATNV  159 (170)
T ss_pred             EEECCCCCCH
Confidence            9999999985

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=2.4e-33  Score=190.14  Aligned_cols=148  Identities=25%  Similarity=0.539  Sum_probs=131.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|.+|||||||+++|.+..+...+.++.+.++ .+.+.+++..+.+.+|||+|++.+..+++.++++++++++||
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVY   80 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEE
Confidence            5899999999999999999999999888889988777 456778889999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC------CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           88 SLVSRASYENVLKKWIPELQHYS------PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~------~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      |++++.++..+ ..|+..+.+..      .+.|+++|+||+|+.....          +..+++..++...+. +++++|
T Consensus        81 D~~~~~s~~~~-~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~S  148 (168)
T cd04119          81 DVTDRQSFEAL-DSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRA----------VSEDEGRLWAESKGF-KYFETS  148 (168)
T ss_pred             ECCCHHHHHhH-HHHHHHHHHhccccccCCCceEEEEEEchhcccccc----------cCHHHHHHHHHHcCC-eEEEEE
Confidence            99999999998 88999887764      3589999999999975443          678888889988886 899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|+||
T Consensus       149 a~~~~gi  155 (168)
T cd04119         149 ACTGEGV  155 (168)
T ss_pred             CCCCCCH
Confidence            9999986

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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=3.6e-33  Score=190.28  Aligned_cols=149  Identities=30%  Similarity=0.522  Sum_probs=129.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      ||+++|.+|||||||+++|+++.|...+.+|.+..+. +.+.+++..+.+++|||||++.|..++..+++++|++++|||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   81 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFD   81 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEE
Confidence            7999999999999999999999999899999987774 567788889999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      +++++++..+ ..|+..+.+..  .+.|+++|+||+|+.+...        .....+++..++++++. +|+++||++|.
T Consensus        82 ~~~~~s~~~~-~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~--------~~~~~~~~~~~~~~~~~-~~~e~Sa~~g~  151 (170)
T cd04108          82 LTDVASLEHT-RQWLEDALKENDPSSVLLFLVGTKKDLSSPAQ--------YALMEQDAIKLAAEMQA-EYWSVSALSGE  151 (170)
T ss_pred             CcCHHHHHHH-HHHHHHHHHhcCCCCCeEEEEEEChhcCcccc--------ccccHHHHHHHHHHcCC-eEEEEECCCCC
Confidence            9999999998 78998876543  3578999999999865422        11356778888888887 89999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       152 ~v  153 (170)
T cd04108         152 NV  153 (170)
T ss_pred             CH
Confidence            86

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

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=3.1e-33  Score=197.27  Aligned_cols=148  Identities=29%  Similarity=0.433  Sum_probs=131.2

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECC-eEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEG-TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +||+++|++|||||||+++|.+..+...+.+|.+.++ .+.+.+++ ..+.+.+|||+|++.+..++..+++++|++++|
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            5899999999999999999999999888899998665 45666654 579999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ||++++++|+.+ ..|+..+.+..    .+.|+++|+||+|+...+.          +..+++..+++.+++ +++++||
T Consensus        81 ~D~t~~~s~~~~-~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~----------v~~~~~~~~~~~~~~-~~~~iSA  148 (215)
T cd04109          81 YDVTNSQSFENL-EDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRT----------VKDDKHARFAQANGM-ESCLVSA  148 (215)
T ss_pred             EECCCHHHHHHH-HHHHHHHHHhccccCCCceEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEEEEEC
Confidence            999999999998 88999888764    2468999999999976554          788899999999997 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       149 ktg~gv  154 (215)
T cd04109         149 KTGDRV  154 (215)
T ss_pred             CCCCCH
Confidence            999986

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

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=4.1e-33  Score=196.69  Aligned_cols=152  Identities=30%  Similarity=0.548  Sum_probs=136.7

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .++.+||+++|++|||||||+++|.+..+...+.++.+.++ .+.+.+++..+.+.+||++|++++..++..+++.++++
T Consensus         9 ~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~   88 (216)
T PLN03110          9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (216)
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEE
Confidence            34779999999999999999999999998888888888777 56778889899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.+|+.+ ..|+..+.+.. .+.|+++++||+|+...+.          +..++++.++..+++ +|+++||
T Consensus        89 ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~----------~~~~~~~~l~~~~~~-~~~e~SA  156 (216)
T PLN03110         89 LLVYDITKRQTFDNV-QRWLRELRDHADSNIVIMMAGNKSDLNHLRS----------VAEEDGQALAEKEGL-SFLETSA  156 (216)
T ss_pred             EEEEECCChHHHHHH-HHHHHHHHHhCCCCCeEEEEEEChhcccccC----------CCHHHHHHHHHHcCC-EEEEEeC
Confidence            999999999999998 88999888765 5799999999999976655          778889999998887 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       157 ~~g~~v  162 (216)
T PLN03110        157 LEATNV  162 (216)
T ss_pred             CCCCCH
Confidence            999986

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=8.4e-33  Score=187.81  Aligned_cols=146  Identities=30%  Similarity=0.540  Sum_probs=126.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|++|||||||+++++.+.+...+.++.+.++ ...+..++..+.+.+|||+|++.+..++..++..+|++++||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMF   80 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEE
Confidence            5899999999999999999999888888888887666 345666788899999999999999888899999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961           88 SLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      |+++++++..+ +.|+..+.+...+.|+++|+||+|+....           +. .+..+++...++ +++++||++|+|
T Consensus        81 d~~~~~s~~~~-~~~~~~i~~~~~~~piiiv~nK~Dl~~~~-----------~~-~~~~~~~~~~~~-~~~e~Sa~~~~~  146 (166)
T cd00877          81 DVTSRVTYKNV-PNWHRDLVRVCGNIPIVLCGNKVDIKDRK-----------VK-AKQITFHRKKNL-QYYEISAKSNYN  146 (166)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhCCCCcEEEEEEchhccccc-----------CC-HHHHHHHHHcCC-EEEEEeCCCCCC
Confidence            99999999998 88999998877789999999999997332           22 334566666666 899999999998


Q ss_pred             C
Q 030961          168 C  168 (168)
Q Consensus       168 i  168 (168)
                      |
T Consensus       147 v  147 (166)
T cd00877         147 F  147 (166)
T ss_pred             h
Confidence            6

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

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=5.8e-33  Score=195.22  Aligned_cols=150  Identities=33%  Similarity=0.557  Sum_probs=131.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEE-CCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVA-EGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +.+||+++|++|+|||||+++|.+..+...+.++.+.++ .+.+.+ ++..+.+++|||+|++.+..++..+++++|+++
T Consensus         1 ~~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (211)
T cd04111           1 YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVL   80 (211)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEE
Confidence            368999999999999999999999998888888887666 445555 467899999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++++|+.+ ..|+..+.+..  ...|++|++||+|+...+.          +..+++..+++.+++ +|+++||
T Consensus        81 lv~D~~~~~Sf~~l-~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sa  148 (211)
T cd04111          81 LVFDITNRESFEHV-HDWLEEARSHIQPHRPVFILVGHKCDLESQRQ----------VTREEAEKLAKDLGM-KYIETSA  148 (211)
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHHhcCCCCCeEEEEEEccccccccc----------cCHHHHHHHHHHhCC-EEEEEeC
Confidence            99999999999998 78998887654  3578899999999987554          788889999999996 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       149 k~g~~v  154 (211)
T cd04111         149 RTGDNV  154 (211)
T ss_pred             CCCCCH
Confidence            999986

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.

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=8.8e-33  Score=191.22  Aligned_cols=148  Identities=31%  Similarity=0.532  Sum_probs=132.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|++|||||||+++|.++.+...+.++.+.++ .+.+.+++..+.+.+||++|++.+..++..+++++|++++||
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~   80 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVY   80 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEE
Confidence            5899999999999999999999999877888888766 456778888899999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      |+++++++..+ ..|+..+.... .+.|+++++||+|+.....          +..+++..+++.+++ +++++||++|.
T Consensus        81 d~~~~~s~~~i-~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~evSa~~~~  148 (188)
T cd04125          81 DVTDQESFENL-KFWINEINRYARENVIKVIVANKSDLVNNKV----------VDSNIAKSFCDSLNI-PFFETSAKQSI  148 (188)
T ss_pred             ECcCHHHHHHH-HHHHHHHHHhCCCCCeEEEEEECCCCccccc----------CCHHHHHHHHHHcCC-eEEEEeCCCCC
Confidence            99999999998 77999888765 5689999999999986554          678888899998888 89999999998


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       149 ~i  150 (188)
T cd04125         149 NV  150 (188)
T ss_pred             CH
Confidence            85

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.

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=8.3e-33  Score=186.73  Aligned_cols=148  Identities=31%  Similarity=0.588  Sum_probs=131.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|++|+|||||+++|.++.+...+.++.+.++ ...+.+++..+.+.+||+||++.+..++..+++.++++++||
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEE
Confidence            5899999999999999999999998887788887666 456777888899999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      |+++++++..+ ..|+..+.... ++.|+++++||+|+...+.          +..+++..++...++ .++++||+++.
T Consensus        81 d~~~~~s~~~~-~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~  148 (161)
T cd04113          81 DITNRTSFEAL-PTWLSDARALASPNIVVILVGNKSDLADQRE----------VTFLEASRFAQENGL-LFLETSALTGE  148 (161)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhCCCCCeEEEEEEchhcchhcc----------CCHHHHHHHHHHcCC-EEEEEECCCCC
Confidence            99999999998 78988877655 6899999999999976554          778889999999996 99999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       149 ~i  150 (161)
T cd04113         149 NV  150 (161)
T ss_pred             CH
Confidence            85

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

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=1.1e-32  Score=187.49  Aligned_cols=150  Identities=29%  Similarity=0.597  Sum_probs=132.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      ..+||+++|.+|+|||||++++.+..+...+.++.+.++ ...+.+++....+.+||++|++++..+...+++++|++++
T Consensus         3 ~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~   82 (168)
T cd01866           3 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALL   82 (168)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEE
Confidence            468999999999999999999999988777777877666 4566778888899999999999998888889999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |||++++.++..+ ..|+..+.+.. ++.|+++++||.|+...+.          +..++++.++...++ +++++||++
T Consensus        83 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sa~~  150 (168)
T cd01866          83 VYDITRRETFNHL-TSWLEDARQHSNSNMTIMLIGNKCDLESRRE----------VSYEEGEAFAKEHGL-IFMETSAKT  150 (168)
T ss_pred             EEECCCHHHHHHH-HHHHHHHHHhCCCCCcEEEEEECcccccccC----------CCHHHHHHHHHHcCC-EEEEEeCCC
Confidence            9999999999998 78999887765 6899999999999975544          778888999998888 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      ++||
T Consensus       151 ~~~i  154 (168)
T cd01866         151 ASNV  154 (168)
T ss_pred             CCCH
Confidence            9986

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

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=1e-33  Score=183.93  Aligned_cols=152  Identities=32%  Similarity=0.535  Sum_probs=137.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEE-EE-ECCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSAN-VV-AEGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      -.++++++++|++-+|||+|+++|..+++.+..+||.+.+|..+ +. -++..+++++|||.|+++|+++..+++++.-+
T Consensus         5 f~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvg   84 (213)
T KOG0091|consen    5 FHYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVG   84 (213)
T ss_pred             eEEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccc
Confidence            35789999999999999999999999999999999999887443 33 36888999999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcE-EEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEE
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS--PGVPV-VLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIE  159 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~-ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      +++|||.+|++||+.+ +.|..+.+.+.  |..++ ++||+|+|+...++          ++.++++.++...|. .|+|
T Consensus        85 vllvyditnr~sfehv-~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRq----------Vt~EEaEklAa~hgM-~FVE  152 (213)
T KOG0091|consen   85 VLLVYDITNRESFEHV-ENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQ----------VTAEEAEKLAASHGM-AFVE  152 (213)
T ss_pred             eEEEEeccchhhHHHH-HHHHHHHHHhcCCCCeeEEEEeccccchhhhcc----------ccHHHHHHHHHhcCc-eEEE
Confidence            9999999999999999 99999877765  45554 69999999998887          999999999999998 9999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|.||
T Consensus       153 TSak~g~NV  161 (213)
T KOG0091|consen  153 TSAKNGCNV  161 (213)
T ss_pred             ecccCCCcH
Confidence            999999986

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=1.4e-32  Score=185.86  Aligned_cols=145  Identities=27%  Similarity=0.498  Sum_probs=124.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|.+|||||||+++|+++.+...+.++....+ .....+++..+.+.+|||+|++.+..+++.+++++|++++||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVF   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEE
Confidence            5899999999999999999999998777777765544 446677888999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961           88 SLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      |++++.++..+ ..|+..+.+..++.|+++++||+|+...            . .++...++...++ +++++||++|.|
T Consensus        81 d~~~~~s~~~~-~~~~~~i~~~~~~~p~ivv~nK~Dl~~~------------~-~~~~~~~~~~~~~-~~~~~Sa~~~~g  145 (161)
T cd04124          81 DVTRKITYKNL-SKWYEELREYRPEIPCIVVANKIDLDPS------------V-TQKKFNFAEKHNL-PLYYVSAADGTN  145 (161)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhCCCCcEEEEEECccCchh------------H-HHHHHHHHHHcCC-eEEEEeCCCCCC
Confidence            99999999998 8999999876678999999999998432            1 2445667777777 899999999998


Q ss_pred             C
Q 030961          168 C  168 (168)
Q Consensus       168 i  168 (168)
                      +
T Consensus       146 v  146 (161)
T cd04124         146 V  146 (161)
T ss_pred             H
Confidence            5

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=1.1e-32  Score=187.93  Aligned_cols=146  Identities=32%  Similarity=0.576  Sum_probs=129.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCcccc-ccccccccCCcEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYN-RLRPLSYRGADVFV   84 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~~~~~i   84 (168)
                      +.+||+++|++|+|||||+++|+.+.+...+.++.+.++ ...+.+++..+.+.+||++|++.++ .++..+++++|+++
T Consensus         1 r~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i   80 (170)
T cd04115           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (170)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEE
Confidence            358999999999999999999999988877888887666 4567788889999999999999886 57888899999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++.++..+ ..|+..+....  .++|+++++||+|+...+.          +..+++.+++..+++ +|+++||
T Consensus        81 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sa  148 (170)
T cd04115          81 FVYDVTNMASFHSL-PSWIEECEQHSLPNEVPRILVGNKCDLREQIQ----------VPTDLAQRFADAHSM-PLFETSA  148 (170)
T ss_pred             EEEECCCHHHHHhH-HHHHHHHHHhcCCCCCCEEEEEECccchhhcC----------CCHHHHHHHHHHcCC-cEEEEec
Confidence            99999999999998 78998887765  5799999999999987655          778889999998887 8999999


Q ss_pred             cC
Q 030961          163 KT  164 (168)
Q Consensus       163 ~~  164 (168)
                      ++
T Consensus       149 ~~  150 (170)
T cd04115         149 KD  150 (170)
T ss_pred             cC
Confidence            99

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

>cd04177 RSR1 RSR1 subgroup

Probab=100.00  E-value=1.8e-32  Score=186.51  Aligned_cols=149  Identities=31%  Similarity=0.542  Sum_probs=133.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|.+|+|||||+++|.++.+...+.++.+..+.+.+..++..+.+.+|||||++.|..+++..++.++++++|||
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~   81 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYS   81 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEE
Confidence            68999999999999999999999988888888887777777888888999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ++++++++.. ..|...+.+..  .+.|+++++||+|+...+.          +..+++..+++.++..+++++||++|.
T Consensus        82 ~~~~~s~~~~-~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~----------~~~~~~~~~~~~~~~~~~~~~SA~~~~  150 (168)
T cd04177          82 VTSEASLNEL-GELREQVLRIKDSDNVPMVLVGNKADLEDDRQ----------VSREDGVSLSQQWGNVPFYETSARKRT  150 (168)
T ss_pred             CCCHHHHHHH-HHHHHHHHHhhCCCCCCEEEEEEChhccccCc----------cCHHHHHHHHHHcCCceEEEeeCCCCC
Confidence            9999999998 78888887643  5799999999999976554          677788888888885589999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       151 ~i  152 (168)
T cd04177         151 NV  152 (168)
T ss_pred             CH
Confidence            86

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

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=1.2e-32  Score=191.06  Aligned_cols=148  Identities=34%  Similarity=0.678  Sum_probs=129.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +||+++|++|||||||+++|.++.+. ..+.++.+..+. ..+.+++..+.+.+|||||++.+..++..+++++|++++|
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   80 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLL   80 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEE
Confidence            58999999999999999999998875 356777776663 4577888899999999999999988888899999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      ||++++++++.+ ..|+..+.... .++|+++++||+|+...+.          +..+++..++..++. +|+++||++|
T Consensus        81 ~D~~~~~s~~~~-~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~----------~~~~~~~~l~~~~~~-~~~e~Sa~~~  148 (191)
T cd04112          81 YDITNKASFDNI-RAWLTEIKEYAQEDVVIMLLGNKADMSGERV----------VKREDGERLAKEYGV-PFMETSAKTG  148 (191)
T ss_pred             EECCCHHHHHHH-HHHHHHHHHhCCCCCcEEEEEEcccchhccc----------cCHHHHHHHHHHcCC-eEEEEeCCCC
Confidence            999999999998 78998888776 4789999999999976544          677888999999997 9999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +||
T Consensus       149 ~~v  151 (191)
T cd04112         149 LNV  151 (191)
T ss_pred             CCH
Confidence            985

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.

>cd01870 RhoA_like RhoA-like subfamily

Probab=100.00  E-value=5.1e-32  Score=185.22  Aligned_cols=160  Identities=49%  Similarity=0.924  Sum_probs=135.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      .||+++|++|||||||+++|.++.+...+.++.+..+...+.+++..+.+.+|||+|++.+..++...+.++|++++|||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~   81 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFS   81 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceEEEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEEE
Confidence            58999999999999999999999998888888887777777888888999999999999999888889999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc--CCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ++++++++.+...|...+.+..++.|+++++||+|+.........  ......+...++++++...+..+++++||++|.
T Consensus        82 ~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~  161 (175)
T cd01870          82 IDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKTKE  161 (175)
T ss_pred             CCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccccCc
Confidence            999999998856788888776678999999999998754321111  111234567889999998887789999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       162 ~v  163 (175)
T cd01870         162 GV  163 (175)
T ss_pred             CH
Confidence            85

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

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=1.9e-32  Score=192.92  Aligned_cols=155  Identities=28%  Similarity=0.417  Sum_probs=123.2

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|.+++|||||+++|..+.|.. +.+|++..+...   ....+.+.+|||+|++.+..++..++++++++++|||
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~---~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~D   76 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLK---QWGPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYD   76 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEE---EeeEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEE
Confidence            589999999999999999999998864 466766554321   1246789999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchh---------hhcCCCCCcccHHHHHHHHHHhCC----
Q 030961           89 LVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHY---------LADHPGLVPVTTAQGEELRKQIGA----  154 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~----  154 (168)
                      ++++++|+.+ ..|+..+.+.. ++.|++||+||+|+......         .......+.+..++++.++++.+.    
T Consensus        77 vt~~~Sf~~l-~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~  155 (220)
T cd04126          77 VSNVQSLEEL-EDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKML  155 (220)
T ss_pred             CCCHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccc
Confidence            9999999998 55555555443 67899999999999752110         011122456899999999998762    


Q ss_pred             ---------cEEEEecccCccCC
Q 030961          155 ---------SYYIECSSKTQQVC  168 (168)
Q Consensus       155 ---------~~~~~~Sa~~~~~i  168 (168)
                               .+|+|+||++|+||
T Consensus       156 ~~~~~~~~~~~~~E~SA~tg~~V  178 (220)
T cd04126         156 DEDLSPAAEKMCFETSAKTGYNV  178 (220)
T ss_pred             cccccccccceEEEeeCCCCCCH
Confidence                     37999999999986

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

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=2.7e-32  Score=191.73  Aligned_cols=152  Identities=28%  Similarity=0.586  Sum_probs=134.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ..+.+||+++|++|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||+|++.+..++..+++.+|++
T Consensus         3 ~~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~   82 (210)
T PLN03108          3 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGA   82 (210)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEE
Confidence            34679999999999999999999999988877788887776 45677888889999999999999998999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||+++++++..+ ..|+..+.+.. ++.|+++++||+|+...+.          +..++++++++.+++ +|+++||
T Consensus        83 vlv~D~~~~~s~~~l-~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sa  150 (210)
T PLN03108         83 LLVYDITRRETFNHL-ASWLEDARQHANANMTIMLIGNKCDLAHRRA----------VSTEEGEQFAKEHGL-IFMEASA  150 (210)
T ss_pred             EEEEECCcHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECccCccccC----------CCHHHHHHHHHHcCC-EEEEEeC
Confidence            999999999999998 78888776654 5799999999999976654          788899999999998 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++++||
T Consensus       151 ~~~~~v  156 (210)
T PLN03108        151 KTAQNV  156 (210)
T ss_pred             CCCCCH
Confidence            999986

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

Probab=100.00  E-value=1.7e-32  Score=190.92  Aligned_cols=141  Identities=27%  Similarity=0.509  Sum_probs=124.2

Q ss_pred             ECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCCh
Q 030961           14 VGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSR   92 (168)
Q Consensus        14 vG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   92 (168)
                      +|.+|||||||+++|+.+.+...+.+|++.++ .+.+.+++..+.+.+|||+|++.|..+++.++++++++++|||++++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            69999999999999999989888889998776 45677888899999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961           93 ASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus        93 ~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      .+|..+ ..|+..+.+..+++|+++|+||+|+....           +..+. ..++...++ .|++|||++|+||
T Consensus        81 ~S~~~i-~~w~~~i~~~~~~~piilvgNK~Dl~~~~-----------v~~~~-~~~~~~~~~-~~~e~SAk~~~~v  142 (200)
T smart00176       81 VTYKNV-PNWHRDLVRVCENIPIVLCGNKVDVKDRK-----------VKAKS-ITFHRKKNL-QYYDISAKSNYNF  142 (200)
T ss_pred             HHHHHH-HHHHHHHHHhCCCCCEEEEEECccccccc-----------CCHHH-HHHHHHcCC-EEEEEeCCCCCCH
Confidence            999998 78999998877789999999999986432           33333 467777887 8999999999986

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

>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.1e-33  Score=181.50  Aligned_cols=150  Identities=31%  Similarity=0.614  Sum_probs=137.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .-+||+++|+.|+|||+|++||..+-|+.-...|++.+| -+++.+++..++++||||.|+++|+++..++++.++++++
T Consensus         6 flfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsahalil   85 (213)
T KOG0095|consen    6 FLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALIL   85 (213)
T ss_pred             eeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEE
Confidence            467999999999999999999999999888888999998 5688999999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |||++...+|+-+ .+|+.+++++. .++--++||||+|+.+.++          +....++++++.... .|+|+||+.
T Consensus        86 vydiscqpsfdcl-pewlreie~yan~kvlkilvgnk~d~~drre----------vp~qigeefs~~qdm-yfletsake  153 (213)
T KOG0095|consen   86 VYDISCQPSFDCL-PEWLREIEQYANNKVLKILVGNKIDLADRRE----------VPQQIGEEFSEAQDM-YFLETSAKE  153 (213)
T ss_pred             EEecccCcchhhh-HHHHHHHHHHhhcceEEEeeccccchhhhhh----------hhHHHHHHHHHhhhh-hhhhhcccc
Confidence            9999999999998 99999999998 4566689999999998877          888899999988665 789999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      .+||
T Consensus       154 a~nv  157 (213)
T KOG0095|consen  154 ADNV  157 (213)
T ss_pred             hhhH
Confidence            8875

>cd01892 Miro2 Miro2 subfamily

Probab=100.00  E-value=2.8e-32  Score=185.73  Aligned_cols=151  Identities=21%  Similarity=0.301  Sum_probs=129.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ++.+||+++|.+|||||||+++|+++.+. ..+.+|.+..+. ..+.+++..+.+.+||++|++.+..++..+++++|++
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~   81 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVA   81 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEE
Confidence            57899999999999999999999999998 888899888775 4577788889999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      ++|||++++.+++.+ ..|+..+... .+.|+++|+||+|+.+...          ...+++.++++.+++..++++||+
T Consensus        82 llv~d~~~~~s~~~~-~~~~~~~~~~-~~~p~iiv~NK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~~Sa~  149 (169)
T cd01892          82 CLVYDSSDPKSFSYC-AEVYKKYFML-GEIPCLFVAAKADLDEQQQ----------RYEVQPDEFCRKLGLPPPLHFSSK  149 (169)
T ss_pred             EEEEeCCCHHHHHHH-HHHHHHhccC-CCCeEEEEEEccccccccc----------ccccCHHHHHHHcCCCCCEEEEec
Confidence            999999999999987 7888776432 4799999999999965433          334456778888887557999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.||
T Consensus       150 ~~~~v  154 (169)
T cd01892         150 LGDSS  154 (169)
T ss_pred             cCccH
Confidence            99985

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=100.00  E-value=4.2e-32  Score=182.88  Aligned_cols=145  Identities=23%  Similarity=0.331  Sum_probs=120.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|++|+|||||+++|..+.|...+.++ ...+.+.+.+++..+.+.+||++|++.     ..+++++|++++|||
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~d   74 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRFKKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVFS   74 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccceEEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEEE
Confidence            58999999999999999999998887665554 344556788899899999999999975     245678999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ++++.||+.+ ..|+..+.+..  ++.|+++|+||+|+....        .+.+..++++++++..+...|+||||++|.
T Consensus        75 ~~~~~sf~~~-~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~--------~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~  145 (158)
T cd04103          75 LENEASFQTV-YNLYHQLSSYRNISEIPLILVGTQDAISESN--------PRVIDDARARQLCADMKRCSYYETCATYGL  145 (158)
T ss_pred             CCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEeeHHHhhhcC--------CcccCHHHHHHHHHHhCCCcEEEEecCCCC
Confidence            9999999998 78998888765  578999999999985321        123788889999987753389999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       146 ~i  147 (158)
T cd04103         146 NV  147 (158)
T ss_pred             CH
Confidence            86

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.

>cd04143 Rhes_like Rhes_like subfamily

Probab=100.00  E-value=3.4e-32  Score=194.98  Aligned_cols=149  Identities=28%  Similarity=0.424  Sum_probs=128.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|++|+|||||+++|+++.+...+.+|+++.+.+.+.+++..+.+.+|||+|++.|..++..++.++|++++|||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfd   80 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIEDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFS   80 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChhHhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEEe
Confidence            58999999999999999999999998888888876667778889999999999999999998888888899999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchh----------CCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           89 LVSRASYENVLKKWIPELQHY----------SPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~----------~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      ++++++|+.+ ..|++.+...          ..+.|+++++||+|+...+.          +..+++.+++.......++
T Consensus        81 v~~~~Sf~~i-~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~----------v~~~ei~~~~~~~~~~~~~  149 (247)
T cd04143          81 LDNRESFEEV-CRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPRE----------VQRDEVEQLVGGDENCAYF  149 (247)
T ss_pred             CCCHHHHHHH-HHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccc----------cCHHHHHHHHHhcCCCEEE
Confidence            9999999998 7888777543          24789999999999976444          6777787777644333899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|.||
T Consensus       150 evSAktg~gI  159 (247)
T cd04143         150 EVSAKKNSNL  159 (247)
T ss_pred             EEeCCCCCCH
Confidence            9999999986

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

>cd04118 Rab24 Rab24 subfamily

Probab=100.00  E-value=8.6e-32  Score=186.94  Aligned_cols=152  Identities=34%  Similarity=0.553  Sum_probs=130.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +||+++|.+|+|||||+++|.++.+.. .+.++.+..+ .+.+.+++..+.+.+||++|++++..++..+++++|++++|
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv   80 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVC   80 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEE
Confidence            589999999999999999999998864 6788887776 45678889999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ||++++.+++.+ ..|+..+....++.|+++|+||+|+.....      ....+..+++..++..+++ +++++||++|+
T Consensus        81 ~d~~~~~s~~~~-~~~~~~i~~~~~~~piilv~nK~Dl~~~~~------~~~~v~~~~~~~~~~~~~~-~~~~~Sa~~~~  152 (193)
T cd04118          81 YDLTDSSSFERA-KFWVKELQNLEEHCKIYLCGTKSDLIEQDR------SLRQVDFHDVQDFADEIKA-QHFETSSKTGQ  152 (193)
T ss_pred             EECCCHHHHHHH-HHHHHHHHhcCCCCCEEEEEEccccccccc------ccCccCHHHHHHHHHHcCC-eEEEEeCCCCC
Confidence            999999999998 789998887666899999999999864321      1123566778888888887 89999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       153 gv  154 (193)
T cd04118         153 NV  154 (193)
T ss_pred             CH
Confidence            86

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=100.00  E-value=2.4e-32  Score=185.26  Aligned_cols=147  Identities=30%  Similarity=0.526  Sum_probs=126.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc-cccccccccCCcEEEEEEe
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY-NRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-~~~~~~~~~~~~~~i~v~d   88 (168)
                      ||+++|++|+|||||+++++...+...+.++....+.+...+++..+.+.+||+||++.+ .......++++|++++|||
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d   80 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLYSRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYS   80 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhceEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEE
Confidence            689999999999999999999888777778776666667788899999999999999853 4556678899999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           89 LVSRASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      ++++++|+.+ ..|+..+....   .+.|+++|+||+|+...+.          +..+++..+++.++. +|+++||++|
T Consensus        81 ~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sa~~~  148 (165)
T cd04146          81 ITDRSSFDEI-SQLKQLIREIKKRDREIPVILVGNKADLLHYRQ----------VSTEEGEKLASELGC-LFFEVSAAED  148 (165)
T ss_pred             CCCHHHHHHH-HHHHHHHHHHhcCCCCCCEEEEEECCchHHhCc----------cCHHHHHHHHHHcCC-EEEEeCCCCC
Confidence            9999999998 78888887754   3799999999999876544          778889999999997 8999999999


Q ss_pred             c-CC
Q 030961          166 Q-VC  168 (168)
Q Consensus       166 ~-~i  168 (168)
                      . ||
T Consensus       149 ~~~v  152 (165)
T cd04146         149 YDGV  152 (165)
T ss_pred             chhH
Confidence            4 64

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

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=1.9e-33  Score=181.91  Aligned_cols=152  Identities=35%  Similarity=0.647  Sum_probs=142.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      +...+|++++|..=+|||||+-||+.++|......|+...| .+++.+.+....+.||||.|+++|..+-+.++++.+++
T Consensus        10 ~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGa   89 (218)
T KOG0088|consen   10 KSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGA   89 (218)
T ss_pred             CceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCce
Confidence            45789999999999999999999999999988888887777 67899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++|++||+.+ +.|..++.... ..+-++|||||+|+..++.          ++..++..+++.-|. .|+++||
T Consensus        90 lLVyDITDrdSFqKV-KnWV~Elr~mlGnei~l~IVGNKiDLEeeR~----------Vt~qeAe~YAesvGA-~y~eTSA  157 (218)
T KOG0088|consen   90 LLVYDITDRDSFQKV-KNWVLELRTMLGNEIELLIVGNKIDLEEERQ----------VTRQEAEAYAESVGA-LYMETSA  157 (218)
T ss_pred             EEEEeccchHHHHHH-HHHHHHHHHHhCCeeEEEEecCcccHHHhhh----------hhHHHHHHHHHhhch-hheeccc
Confidence            999999999999999 99999999987 6788999999999999988          999999999999999 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      +.+.||
T Consensus       158 k~N~Gi  163 (218)
T KOG0088|consen  158 KDNVGI  163 (218)
T ss_pred             ccccCH
Confidence            999986

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=6.8e-32  Score=182.53  Aligned_cols=148  Identities=35%  Similarity=0.675  Sum_probs=131.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|++|+|||||+++|.+..+...+.++.+.++ ...+..++..+.+.+||+||++.+..++..+++.+|++++||
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEE
Confidence            5899999999999999999999988877788887776 346777888889999999999999888899999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      |++++++++.+ ..|+..+.... ++.|+++++||+|+.+...          +..+.++++++.+++ +++++||++|.
T Consensus        81 d~~~~~s~~~~-~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sa~~~~  148 (164)
T smart00175       81 DITNRESFENL-KNWLKELREYADPNVVIMLVGNKSDLEDQRQ----------VSREEAEAFAEEHGL-PFFETSAKTNT  148 (164)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhCCCCCeEEEEEEchhcccccC----------CCHHHHHHHHHHcCC-eEEEEeCCCCC
Confidence            99999999998 67999888776 7899999999999876544          677888889998887 89999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      |+
T Consensus       149 ~i  150 (164)
T smart00175      149 NV  150 (164)
T ss_pred             CH
Confidence            85

Rab GTPases are implicated in vesicle trafficking.

>cd04129 Rho2 Rho2 subfamily

Probab=100.00  E-value=1.6e-31  Score=184.83  Aligned_cols=160  Identities=47%  Similarity=0.784  Sum_probs=134.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      .|++++|++|+|||||+++|..+.+...+.++....+...+.+++..+.+.+||++|++.+..+.+..++.+++++++||
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~   81 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENYVTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFA   81 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEEE
Confidence            58999999999999999999988887777777777776677788888999999999999888877788899999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      ++++++++.+...|+..+.+..++.|+++|+||+|+........+....+.+..+++..+++..+..+||++||++|.||
T Consensus        82 i~~~~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v  161 (187)
T cd04129          82 VDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGEGV  161 (187)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCCCH
Confidence            99999999985579999987777899999999999865322221222334467788999999999768999999999986

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).

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=100.00  E-value=6.6e-32  Score=182.79  Aligned_cols=148  Identities=32%  Similarity=0.561  Sum_probs=127.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC--CCCCCCCCceeece-eEEEEEC-CeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN--KFPTDYIPTVFDNF-SANVVAE-GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~--~~~~~~~~~~~~~~-~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +||+++|++|||||||+++|...  .+...+.++.+.++ .+...++ +..+++.+|||||++.+..++..+++++|+++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            58999999999999999999865  57778888887665 3445554 67799999999999999888999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      +|||+++++++..+ ..|+..+....++.|+++|+||+|+.+...          +...+++.++..++. +++++||++
T Consensus        81 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~  148 (164)
T cd04101          81 LVYDVSNKASFENC-SRWVNKVRTASKHMPGVLVGNKMDLADKAE----------VTDAQAQAFAQANQL-KFFKTSALR  148 (164)
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHHhCCCCCEEEEEECcccccccC----------CCHHHHHHHHHHcCC-eEEEEeCCC
Confidence            99999999999987 899998887666799999999999976544          666777778888887 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       149 ~~gi  152 (164)
T cd04101         149 GVGY  152 (164)
T ss_pred             CCCh
Confidence            9986

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.

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=9.6e-32  Score=181.43  Aligned_cols=148  Identities=36%  Similarity=0.610  Sum_probs=130.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|.++||||||+++|++..+...+.++.+.++ .+.+..++..+++++||+||++.+..++..++++++++++||
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~   80 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEE
Confidence            4899999999999999999999998887788887766 456777888899999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      |.++++++..+ ..|+..+.+.. .+.|+++++||+|+...+.          ...++...++...++ +++++||++++
T Consensus        81 d~~~~~s~~~~-~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~  148 (161)
T cd01861          81 DITNRQSFDNT-DKWIDDVRDERGNDVIIVLVGNKTDLSDKRQ----------VSTEEGEKKAKELNA-MFIETSAKAGH  148 (161)
T ss_pred             ECcCHHHHHHH-HHHHHHHHHhCCCCCEEEEEEEChhccccCc----------cCHHHHHHHHHHhCC-EEEEEeCCCCC
Confidence            99999999998 78888876655 4699999999999965444          677888888888887 89999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      |+
T Consensus       149 ~v  150 (161)
T cd01861         149 NV  150 (161)
T ss_pred             CH
Confidence            85

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

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=1.4e-31  Score=186.44  Aligned_cols=148  Identities=25%  Similarity=0.424  Sum_probs=120.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCcccccc--------ccccccC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRL--------RPLSYRG   79 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~~~   79 (168)
                      +||+++|.+|||||||+++|.++.+...+.++.+.++ ...+..++..+.+.+|||||...+...        ....++.
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~   80 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRN   80 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhcc
Confidence            5899999999999999999999999888888886554 446677888899999999997654321        2234789


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhC----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH-HhCC
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYS----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK-QIGA  154 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  154 (168)
                      +|++++|||+++++|++.+ ..|.+.+.+..    .++|+++++||+|+...+.          +..+++..++. ..++
T Consensus        81 ad~iilv~D~~~~~S~~~~-~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~----------~~~~~~~~~~~~~~~~  149 (198)
T cd04142          81 SRAFILVYDICSPDSFHYV-KLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRF----------APRHVLSVLVRKSWKC  149 (198)
T ss_pred             CCEEEEEEECCCHHHHHHH-HHHHHHHHHhcccCCCCCCEEEEEECcccccccc----------ccHHHHHHHHHHhcCC
Confidence            9999999999999999998 78888776642    5799999999999976544          56666777654 4566


Q ss_pred             cEEEEecccCccCC
Q 030961          155 SYYIECSSKTQQVC  168 (168)
Q Consensus       155 ~~~~~~Sa~~~~~i  168 (168)
                       +|+++||++|.||
T Consensus       150 -~~~e~Sak~g~~v  162 (198)
T cd04142         150 -GYLECSAKYNWHI  162 (198)
T ss_pred             -cEEEecCCCCCCH
Confidence             8999999999986

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.

>cd00157 Rho Rho (Ras homology) family

Probab=100.00  E-value=2.5e-31  Score=180.99  Aligned_cols=160  Identities=61%  Similarity=1.084  Sum_probs=135.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|.+|+|||||+++|.+..+...+.++....+......++..+.+++||+||++.+.......++.+|++++|||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d   80 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFS   80 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEE
Confidence            58999999999999999999999987777888877777777888999999999999999888888888899999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc-CCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD-HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      ++++.++......|+..+.....+.|+++|+||+|+......... ......+..+++..++..++..+|+++||++|+|
T Consensus        81 ~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (171)
T cd00157          81 VDSPSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQEG  160 (171)
T ss_pred             CCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCCCC
Confidence            999999998877888888887778999999999999866531110 0112235678889999999887899999999998


Q ss_pred             C
Q 030961          168 C  168 (168)
Q Consensus       168 i  168 (168)
                      +
T Consensus       161 i  161 (171)
T cd00157         161 V  161 (171)
T ss_pred             H
Confidence            5

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=1.5e-31  Score=180.82  Aligned_cols=149  Identities=35%  Similarity=0.646  Sum_probs=131.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      .+||+++|++|+|||||++++.+..+...+.++.+..+ ...+.+++..+.+.+||+||++++...+..+++++|++++|
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   80 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVV   80 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEE
Confidence            47999999999999999999999998777778877666 56778888899999999999999988888899999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      +|+++++++... ..|+..+.... ++.|+++++||+|+...+.          ...++...++...+. .++++||++|
T Consensus        81 ~d~~~~~s~~~~-~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~  148 (163)
T cd01860          81 YDITSEESFEKA-KSWVKELQRNASPNIIIALVGNKADLESKRQ----------VSTEEAQEYADENGL-LFFETSAKTG  148 (163)
T ss_pred             EECcCHHHHHHH-HHHHHHHHHhCCCCCeEEEEEECccccccCc----------CCHHHHHHHHHHcCC-EEEEEECCCC
Confidence            999999999998 78988887766 6799999999999876544          677888889998886 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .|+
T Consensus       149 ~~v  151 (163)
T cd01860         149 ENV  151 (163)
T ss_pred             CCH
Confidence            985

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

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=100.00  E-value=3.7e-32  Score=188.02  Aligned_cols=150  Identities=33%  Similarity=0.610  Sum_probs=139.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      ..+|++++|.+|+|||+|+.+|....|...|.||+++.|.+.+.+++..+.+.|+||+|++.+..+...++++++++++|
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptied~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lV   81 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIEDSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLV   81 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCccccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEE
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |+++++.||+.+ ..+.+++.+..  ..+|+++||||+|+...+.          +..++++.++..+++ +|+|+||+.
T Consensus        82 ysitd~~SF~~~-~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~----------V~~eeg~~la~~~~~-~f~E~Sak~  149 (196)
T KOG0395|consen   82 YSITDRSSFEEA-KQLREQILRVKGRDDVPIILVGNKCDLERERQ----------VSEEEGKALARSWGC-AFIETSAKL  149 (196)
T ss_pred             EECCCHHHHHHH-HHHHHHHHHhhCcCCCCEEEEEEcccchhccc----------cCHHHHHHHHHhcCC-cEEEeeccC
Confidence            999999999998 77888874433  5689999999999998877          999999999999999 699999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      ..||
T Consensus       150 ~~~v  153 (196)
T KOG0395|consen  150 NYNV  153 (196)
T ss_pred             CcCH
Confidence            8764

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2.5e-34  Score=186.14  Aligned_cols=151  Identities=38%  Similarity=0.605  Sum_probs=138.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEE---------CCeEEEEEEEeCCCCccccccccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVA---------EGTTVNLGLWDTAGQEDYNRLRPL   75 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~---------~~~~~~~~i~D~~g~~~~~~~~~~   75 (168)
                      ++-+|++.+|++|+|||+++.++.+++|...-..|.+.+| .+++.+         .+..+.+++|||.|+++|+++...
T Consensus         7 dylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLTTA   86 (219)
T KOG0081|consen    7 DYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLTTA   86 (219)
T ss_pred             HHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHHHH
Confidence            4567899999999999999999999999999999999988 455544         235688999999999999999999


Q ss_pred             cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           76 SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      ++++|-+++++||+++..||.++ ..|+.+++.+.  .+..+++.+||+|+.+.+.          ++.+++.+++++|+
T Consensus        87 FfRDAMGFlLiFDlT~eqSFLnv-rnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~----------Vs~~qa~~La~kyg  155 (219)
T KOG0081|consen   87 FFRDAMGFLLIFDLTSEQSFLNV-RNWLSQLQTHAYCENPDIVLCGNKADLEDQRV----------VSEDQAAALADKYG  155 (219)
T ss_pred             HHHhhccceEEEeccchHHHHHH-HHHHHHHHHhhccCCCCEEEEcCccchhhhhh----------hhHHHHHHHHHHhC
Confidence            99999999999999999999999 89999998876  6788999999999999887          99999999999999


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      + ||||+||-+|.||
T Consensus       156 l-PYfETSA~tg~Nv  169 (219)
T KOG0081|consen  156 L-PYFETSACTGTNV  169 (219)
T ss_pred             C-CeeeeccccCcCH
Confidence            9 9999999999986

>cd01863 Rab18 Rab18 subfamily

Probab=100.00  E-value=4.9e-31  Score=178.00  Aligned_cols=147  Identities=33%  Similarity=0.643  Sum_probs=128.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|++|+|||||+++|.+..+...+.++.+.++. ..+.+++..+.+.+||+||++.+..++...++++|++++||
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999999887777888877664 45667788899999999999999888889999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |.+++.++..+ ..|+..+.+..  .+.|+++++||+|+....           ...++...++...++ +++++||++|
T Consensus        81 d~~~~~s~~~~-~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~-----------~~~~~~~~~~~~~~~-~~~~~Sa~~~  147 (161)
T cd01863          81 DVTRRDTFTNL-ETWLNELETYSTNNDIVKMLVGNKIDKENRE-----------VTREEGLKFARKHNM-LFIETSAKTR  147 (161)
T ss_pred             ECCCHHHHHhH-HHHHHHHHHhCCCCCCcEEEEEECCcccccc-----------cCHHHHHHHHHHcCC-EEEEEecCCC
Confidence            99999999998 67988887765  579999999999997432           566788889998887 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +|+
T Consensus       148 ~gi  150 (161)
T cd01863         148 DGV  150 (161)
T ss_pred             CCH
Confidence            986

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

>cd01862 Rab7 Rab7 subfamily

Probab=100.00  E-value=2.9e-31  Score=180.84  Aligned_cols=149  Identities=33%  Similarity=0.597  Sum_probs=128.2

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|++|||||||++++.+..+...+.++.+.++ .+.+.+.+..+.+.+||+||++.+..++..+++++++++++|
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVY   80 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEE
Confidence            5899999999999999999999988877777877665 456778888899999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      |++++.++... ..|...+....     .+.|+++++||+|+..++.          ...++...+++..+..+++++||
T Consensus        81 d~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~~Sa  149 (172)
T cd01862          81 DVTNPKSFESL-DSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQ----------VSTKKAQQWCQSNGNIPYFETSA  149 (172)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhcCccCCCCceEEEEEECcccccccc----------cCHHHHHHHHHHcCCceEEEEEC
Confidence            99999999887 67877655443     2789999999999985443          66788888888888558999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.|+
T Consensus       150 ~~~~gv  155 (172)
T cd01862         150 KEAINV  155 (172)
T ss_pred             CCCCCH
Confidence            999985

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-

>PLN03118 Rab family protein; Provisional

Probab=99.98  E-value=5.1e-31  Score=185.51  Aligned_cols=151  Identities=31%  Similarity=0.599  Sum_probs=129.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ...+||+++|.+|+|||||+++|.+..+ ..+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++++|+++
T Consensus        12 ~~~~kv~ivG~~~vGKTsli~~l~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~v   90 (211)
T PLN03118         12 DLSFKILLIGDSGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGII   90 (211)
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCC-CCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            4678999999999999999999999877 45567777666 346677888899999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++++|..+...|...+....  .+.|+++|+||+|+...+.          +..+++..++..+++ .|+++||
T Consensus        91 lv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~----------i~~~~~~~~~~~~~~-~~~e~SA  159 (211)
T PLN03118         91 LVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERD----------VSREEGMALAKEHGC-LFLECSA  159 (211)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCc----------cCHHHHHHHHHHcCC-EEEEEeC
Confidence            99999999999998556777666543  4679999999999976654          677888888988887 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       160 k~~~~v  165 (211)
T PLN03118        160 KTRENV  165 (211)
T ss_pred             CCCCCH
Confidence            999985

>cd04148 RGK RGK subfamily

Probab=99.98  E-value=7.4e-31  Score=185.70  Aligned_cols=146  Identities=25%  Similarity=0.381  Sum_probs=123.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCcee-eceeEEEEECCeEEEEEEEeCCCCcccccccccccc-CCcEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVF-DNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYR-GADVFVL   85 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~-~~~~~i~   85 (168)
                      +||+++|++|+|||||+++|..+.+. ..+.++.+ ..+.+.+.+++..+.+.+||++|++.  .....++. ++|++++
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iil   78 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVV   78 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEE
Confidence            58999999999999999999988876 66667765 34466788888899999999999982  33444566 8999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||++++.+|..+ ..|+..+.+..  .+.|+++|+||+|+...+.          +..++++.++...++ +|+++||+
T Consensus        79 V~d~td~~S~~~~-~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~----------v~~~~~~~~a~~~~~-~~~e~SA~  146 (221)
T cd04148          79 VYSVTDRSSFERA-SELRIQLRRNRQLEDRPIILVGNKSDLARSRE----------VSVQEGRACAVVFDC-KFIETSAG  146 (221)
T ss_pred             EEECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEEChhccccce----------ecHHHHHHHHHHcCC-eEEEecCC
Confidence            9999999999998 78888887754  5799999999999976654          777888899988888 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.||
T Consensus       147 ~~~gv  151 (221)
T cd04148         147 LQHNV  151 (221)
T ss_pred             CCCCH
Confidence            99986

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.98  E-value=1e-30  Score=176.26  Aligned_cols=148  Identities=38%  Similarity=0.664  Sum_probs=127.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|.+|+|||||+++|++..+...+.++....+ ...+...+..+.+.+||+||++.+..+++.++++++++++||
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVY   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEE
Confidence            5899999999999999999999988766666665554 445666777889999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      |+++++++... ..|+..+.+.. .+.|+++++||+|+.....          +..++..+++..++. +++++||++++
T Consensus        81 d~~~~~s~~~~-~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~s~~~~~  148 (162)
T cd04123          81 DITDADSFQKV-KKWIKELKQMRGNNISLVIVGNKIDLERQRV----------VSKSEAEEYAKSVGA-KHFETSAKTGK  148 (162)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhCCCCCeEEEEEECcccccccC----------CCHHHHHHHHHHcCC-EEEEEeCCCCC
Confidence            99999999998 78988888766 4789999999999985544          667778888888887 89999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      |+
T Consensus       149 gi  150 (162)
T cd04123         149 GI  150 (162)
T ss_pred             CH
Confidence            85

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

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.98  E-value=9.6e-32  Score=171.28  Aligned_cols=151  Identities=30%  Similarity=0.600  Sum_probs=140.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ++++|.+++|+-|+|||+|+++|...+|...+..+++.+| ...+.+.++.+++++|||.|+++|+....++++++-+.+
T Consensus         9 syifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaagal   88 (215)
T KOG0097|consen    9 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL   88 (215)
T ss_pred             hheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhcccccee
Confidence            5789999999999999999999999999999999999999 557889999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||++.+.+...+ ..|+....... ++..+++++||.|+...+.          +..+++++++++.|+ .|+|+||+
T Consensus        89 mvyditrrstynhl-sswl~dar~ltnpnt~i~lignkadle~qrd----------v~yeeak~faeengl-~fle~sak  156 (215)
T KOG0097|consen   89 MVYDITRRSTYNHL-SSWLTDARNLTNPNTVIFLIGNKADLESQRD----------VTYEEAKEFAEENGL-MFLEASAK  156 (215)
T ss_pred             EEEEehhhhhhhhH-HHHHhhhhccCCCceEEEEecchhhhhhccc----------CcHHHHHHHHhhcCe-EEEEeccc
Confidence            99999999999998 78888776655 7888899999999998888          999999999999999 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       157 tg~nv  161 (215)
T KOG0097|consen  157 TGQNV  161 (215)
T ss_pred             ccCcH
Confidence            99986

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.97  E-value=1.4e-30  Score=176.04  Aligned_cols=148  Identities=34%  Similarity=0.604  Sum_probs=130.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|.+|+|||||++++....+...+.++....+.+....++..+.+.+||+||++.+..++...++.++++++|+|
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   80 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFS   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhEEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEE
Confidence            58999999999999999999999888888888877777778888899999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ++++.++... ..|...+.+..  .+.|+++++||+|+...+.          ...++...++..++. +++++||++|+
T Consensus        81 ~~~~~s~~~~-~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~  148 (164)
T cd04139          81 ITDMESFTAT-AEFREQILRVKDDDNVPLLLVGNKCDLEDKRQ----------VSSEEAANLARQWGV-PYVETSAKTRQ  148 (164)
T ss_pred             CCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEEccccccccc----------cCHHHHHHHHHHhCC-eEEEeeCCCCC
Confidence            9999999988 67777777663  5799999999999976433          566777888888887 89999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      |+
T Consensus       149 gi  150 (164)
T cd04139         149 NV  150 (164)
T ss_pred             CH
Confidence            86

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

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.97  E-value=2.3e-33  Score=176.90  Aligned_cols=145  Identities=33%  Similarity=0.652  Sum_probs=132.6

Q ss_pred             EEECCCCCCHHHHHHHHhcCCCC-CCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           12 VTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        12 ~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      +++|++++|||+|+-||.++.|- ..-.+|.+.+| .+-+..++..+++++|||.||++|++....+++++|+++++||+
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydi   80 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDI   80 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeec
Confidence            47999999999999999887653 45567888888 56678899999999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961           90 VSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      .|+.||++. +.|+.++.++. ..+.+.+++||+|+.+++.          +..++++++++.|++ ||+|+||++|.||
T Consensus        81 ankasfdn~-~~wlsei~ey~k~~v~l~llgnk~d~a~er~----------v~~ddg~kla~~y~i-pfmetsaktg~nv  148 (192)
T KOG0083|consen   81 ANKASFDNC-QAWLSEIHEYAKEAVALMLLGNKCDLAHERA----------VKRDDGEKLAEAYGI-PFMETSAKTGFNV  148 (192)
T ss_pred             ccchhHHHH-HHHHHHHHHHHHhhHhHhhhccccccchhhc----------cccchHHHHHHHHCC-CceeccccccccH
Confidence            999999998 99999999988 6788999999999998877          889999999999999 9999999999886

>cd04114 Rab30 Rab30 subfamily

Probab=99.97  E-value=7.1e-30  Score=173.61  Aligned_cols=151  Identities=31%  Similarity=0.616  Sum_probs=128.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      .+.++|+++|++|+|||||++++.++.+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|+++
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i   84 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALI   84 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEE
Confidence            4569999999999999999999998877666667776555 446778888899999999999999888888999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||++++.+++.+ ..|+..+.... .+.|+++++||+|+...+.          +..+..+.+.+.... +++++||+
T Consensus        85 ~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~----------i~~~~~~~~~~~~~~-~~~~~Sa~  152 (169)
T cd04114          85 LTYDITCEESFRCL-PEWLREIEQYANNKVITILVGNKIDLAERRE----------VSQQRAEEFSDAQDM-YYLETSAK  152 (169)
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHHhCCCCCeEEEEEECcccccccc----------cCHHHHHHHHHHcCC-eEEEeeCC
Confidence            99999999999988 78988887765 4799999999999976544          666667778777775 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.|+
T Consensus       153 ~~~gv  157 (169)
T cd04114         153 ESDNV  157 (169)
T ss_pred             CCCCH
Confidence            99985

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04149 Arf6 Arf6 subfamily

Probab=99.97  E-value=8.3e-31  Score=178.33  Aligned_cols=146  Identities=17%  Similarity=0.222  Sum_probs=113.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|++++|||||+++|..+.+. .+.+|.+.++. .  +....+.+++|||+|++.++.+++.+++++|++++
T Consensus         7 ~~~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~-~--~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~   82 (168)
T cd04149           7 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVE-T--VTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   82 (168)
T ss_pred             CCccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceE-E--EEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            45789999999999999999999887764 35667665543 2  22345789999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH-----hCCcEEEE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ-----IGASYYIE  159 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~  159 (168)
                      |||++++.++......|.+.+.... .+.|++|++||+|+...            +..++++.++..     ..+ ++++
T Consensus        83 v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~~~  149 (168)
T cd04149          83 VVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDA------------MKPHEIQEKLGLTRIRDRNW-YVQP  149 (168)
T ss_pred             EEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccC------------CCHHHHHHHcCCCccCCCcE-EEEE
Confidence            9999999999988444444444432 67899999999998643            345555555421     223 6899


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|+||
T Consensus       150 ~SAk~g~gv  158 (168)
T cd04149         150 SCATSGDGL  158 (168)
T ss_pred             eeCCCCCCh
Confidence            999999986

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

>cd00154 Rab Rab family

Probab=99.97  E-value=7.2e-30  Score=171.13  Aligned_cols=148  Identities=38%  Similarity=0.747  Sum_probs=130.2

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|.+++|||||++++.+..+...+.++.+.++ ......++..+.+.+||+||++.+...+...++++|++++|+
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~   80 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVY   80 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEE
Confidence            5899999999999999999999998877778877766 456677788899999999999999888999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      |+++++++..+ ..|+..+.... .+.|+++++||+|+.....          ...++.+.++...+. +++++||+++.
T Consensus        81 d~~~~~~~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~sa~~~~  148 (159)
T cd00154          81 DITNRESFENL-DKWLKELKEYAPENIPIILVGNKIDLEDQRQ----------VSTEEAQQFAKENGL-LFFETSAKTGE  148 (159)
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhCCCCCcEEEEEEccccccccc----------ccHHHHHHHHHHcCC-eEEEEecCCCC
Confidence            99999999998 77998888876 6899999999999974433          677888899988877 89999999998


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       149 ~i  150 (159)
T cd00154         149 NV  150 (159)
T ss_pred             CH
Confidence            85

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.97  E-value=5.3e-31  Score=178.65  Aligned_cols=139  Identities=17%  Similarity=0.217  Sum_probs=114.9

Q ss_pred             EEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCC
Q 030961           11 CVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLV   90 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   90 (168)
                      |+++|++|||||||+++|.+..+...+.+|.+..+   ..++...+++.+||++|++.++.+++.+++++|++++|||.+
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~---~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t   78 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS---VAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSA   78 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcce---EEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECC
Confidence            79999999999999999999888777778876543   335556788999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCccc----HHHHHHHHHHhCCcEEEEecccC
Q 030961           91 SRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVT----TAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        91 ~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ++.++... +.|+..+.+..+++|+++++||+|+...+.          +.    ..++..++.+.++ +++++||++
T Consensus        79 ~~~s~~~~-~~~l~~~~~~~~~~piilv~NK~Dl~~~~~----------~~~i~~~~~~~~~~~~~~~-~~~~~Sa~~  144 (164)
T cd04162          79 DSERLPLA-RQELHQLLQHPPDLPLVVLANKQDLPAARS----------VQEIHKELELEPIARGRRW-ILQGTSLDD  144 (164)
T ss_pred             CHHHHHHH-HHHHHHHHhCCCCCcEEEEEeCcCCcCCCC----------HHHHHHHhCChhhcCCCce-EEEEeeecC
Confidence            99999988 677777765447899999999999976542          21    1235666677777 899999998

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.

>cd01893 Miro1 Miro1 subfamily

Probab=99.97  E-value=8e-30  Score=173.13  Aligned_cols=151  Identities=23%  Similarity=0.387  Sum_probs=117.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|++|+|||||+++|.++.+...+.++ ...+.....+++..+++.+|||||.+.+...+...++.+|++++|||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRV-LPEITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYS   79 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCc-ccceEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEE
Confidence            48999999999999999999999886553333 23344445567788999999999999887777777899999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC-CcEEEEecccCccC
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG-ASYYIECSSKTQQV  167 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~  167 (168)
                      ++++.+++.+...|+..+....++.|+++++||+|+.+.....        ...++...++..++ ...++++||++|.|
T Consensus        80 ~~~~~s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl~~~~~~~--------~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~  151 (166)
T cd01893          80 VDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLRDGSSQA--------GLEEEMLPIMNEFREIETCVECSAKTLIN  151 (166)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhcccccchh--------HHHHHHHHHHHHHhcccEEEEeccccccC
Confidence            9999999997557888887766789999999999997654200        11233444444443 23799999999998


Q ss_pred             C
Q 030961          168 C  168 (168)
Q Consensus       168 i  168 (168)
                      +
T Consensus       152 v  152 (166)
T cd01893         152 V  152 (166)
T ss_pred             H
Confidence            5

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.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.97  E-value=8.7e-30  Score=174.99  Aligned_cols=148  Identities=32%  Similarity=0.530  Sum_probs=127.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      .||+++|.+|+|||||+++|.+..+...+.++....+......++..+.+.+||+||++++..++..++..++++++|||
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d   81 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFSKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYS   81 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhEEEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEE
Confidence            58999999999999999999998887777787776667777788888999999999999999899999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           89 LVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      .++..+++.+ ..|...+.+..  .+.|+++++||+|+...+.          +..++...+++.+++ +++++||++++
T Consensus        82 ~~~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~  149 (180)
T cd04137          82 VTSRKSFEVV-KVIYDKILDMLGKESVPIVLVGNKSDLHTQRQ----------VSTEEGKELAESWGA-AFLESSARENE  149 (180)
T ss_pred             CCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEEchhhhhcCc----------cCHHHHHHHHHHcCC-eEEEEeCCCCC
Confidence            9999999998 56656655543  4789999999999976543          566677888888887 89999999998


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      |+
T Consensus       150 gv  151 (180)
T cd04137         150 NV  151 (180)
T ss_pred             CH
Confidence            85

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>cd00876 Ras Ras family

Probab=99.97  E-value=9.7e-30  Score=171.15  Aligned_cols=147  Identities=35%  Similarity=0.645  Sum_probs=128.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      ||+++|++|||||||++++++..+...+.++....+.....+++..+.+++||+||++.+..++...++.++++++|||+
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   80 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIEDSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSI   80 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChhHeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEEC
Confidence            68999999999999999999988877777877755666777788889999999999999888888899999999999999


Q ss_pred             CChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961           90 VSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      ++++++..+ ..|...+.+..  ...|+++++||+|+...+.          +..+++..++..++. +++++||++++|
T Consensus        81 ~~~~s~~~~-~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~S~~~~~~  148 (160)
T cd00876          81 TDRESFEEI-KGYREQILRVKDDEDIPIVLVGNKCDLENERQ----------VSKEEGKALAKEWGC-PFIETSAKDNIN  148 (160)
T ss_pred             CCHHHHHHH-HHHHHHHHHhcCCCCCcEEEEEECCcccccce----------ecHHHHHHHHHHcCC-cEEEeccCCCCC
Confidence            999999998 67777776655  3799999999999987544          677889999988886 899999999998


Q ss_pred             C
Q 030961          168 C  168 (168)
Q Consensus       168 i  168 (168)
                      |
T Consensus       149 i  149 (160)
T cd00876         149 I  149 (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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.97  E-value=2.8e-29  Score=174.79  Aligned_cols=150  Identities=23%  Similarity=0.311  Sum_probs=122.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEEC-----CeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAE-----GTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~-----~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      +||+++|++++|||||+++|.++.+...+.+|++..+. +.+.++     +..+.+++|||+|++.|..++..+++++++
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            58999999999999999999999998888889886663 344443     567999999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchh-------------------C-CCCcEEEEeeCCcccccchhhhcCCCCCcccH
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHY-------------------S-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTT  142 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~-------------------~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~  142 (168)
                      +++|||++++.|++.+ ..|+.++...                   . +++|++|||||+|+.+++...      .....
T Consensus        81 iIlVyDvtn~~Sf~~l-~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~------~~~~~  153 (202)
T cd04102          81 IILVHDLTNRKSSQNL-QRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESS------GNLVL  153 (202)
T ss_pred             EEEEEECcChHHHHHH-HHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccc------hHHHh
Confidence            9999999999999998 8999888653                   1 368999999999997664300      00122


Q ss_pred             HHHHHHHHHhCCcEEEEecccCcc
Q 030961          143 AQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      .....++++.++ +.++.++....
T Consensus       154 ~~~~~ia~~~~~-~~i~~~c~~~~  176 (202)
T cd04102         154 TARGFVAEQGNA-EEINLNCTNGR  176 (202)
T ss_pred             hHhhhHHHhcCC-ceEEEecCCcc
Confidence            345677888998 78888887653

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.97  E-value=9.9e-30  Score=171.59  Aligned_cols=143  Identities=17%  Similarity=0.260  Sum_probs=107.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|.++||||||++++..+.+. .+.||.+..+. .+..  ..+.+.+||+||++.+..++..+++++|++++|||
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~-~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D   76 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE-TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVD   76 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE-EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEe
Confidence            48999999999999999999887775 46677765542 2223  45788899999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHH-HHHHH----HHhCCcEEEEecc
Q 030961           89 LVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQ-GEELR----KQIGASYYIECSS  162 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~----~~~~~~~~~~~Sa  162 (168)
                      ++++.++..+.+.|...+.... .+.|++|++||+|+.+.            ...++ ...+.    ...++ .++++||
T Consensus        77 ~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~~~~Sa  143 (159)
T cd04150          77 SNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNA------------MSAAEVTDKLGLHSLRNRNW-YIQATCA  143 (159)
T ss_pred             CCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCC------------CCHHHHHHHhCccccCCCCE-EEEEeeC
Confidence            9999999998443444443322 56899999999999643            12222 22221    12233 6789999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       144 k~g~gv  149 (159)
T cd04150         144 TSGDGL  149 (159)
T ss_pred             CCCCCH
Confidence            999986

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=6.7e-29  Score=175.19  Aligned_cols=152  Identities=28%  Similarity=0.496  Sum_probs=129.3

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCc
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGAD   81 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~   81 (168)
                      +.....+|++++|++|||||||+++++.+.+...+.+|.+.++. ..+..++..+.+.+||++|++.+..++..++.+++
T Consensus         4 ~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~   83 (215)
T PTZ00132          4 MDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQ   83 (215)
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCC
Confidence            44567899999999999999999999988888888888887773 45667888899999999999999888888999999


Q ss_pred             EEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           82 VFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ++++|||++++.++..+ ..|+..+.+...+.|+++++||+|+....           +.. +...+++..++ .|+++|
T Consensus        84 ~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~i~lv~nK~Dl~~~~-----------~~~-~~~~~~~~~~~-~~~e~S  149 (215)
T PTZ00132         84 CAIIMFDVTSRITYKNV-PNWHRDIVRVCENIPIVLVGNKVDVKDRQ-----------VKA-RQITFHRKKNL-QYYDIS  149 (215)
T ss_pred             EEEEEEECcCHHHHHHH-HHHHHHHHHhCCCCCEEEEEECccCcccc-----------CCH-HHHHHHHHcCC-EEEEEe
Confidence            99999999999999998 78998888776789999999999986432           222 33456777777 899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|.|+
T Consensus       150 a~~~~~v  156 (215)
T PTZ00132        150 AKSNYNF  156 (215)
T ss_pred             CCCCCCH
Confidence            9999885

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=1e-29  Score=174.87  Aligned_cols=144  Identities=17%  Similarity=0.271  Sum_probs=110.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      ...+||+++|.++||||||++++..+.+. .+.||.+..+. .  ++...+.+++||+||++.++.+|..+++++|++++
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~-~--~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~   90 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE-T--VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIF   90 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE-E--EEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            34689999999999999999999987775 45677765543 2  33345788999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc-------EE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS-------YY  157 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~  157 (168)
                      |||+++++++..+...+...+.+.. ++.|++|++||+|+...            ...++   +....++.       .+
T Consensus        91 V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~------------~~~~~---~~~~l~l~~~~~~~~~~  155 (181)
T PLN00223         91 VVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA------------MNAAE---ITDKLGLHSLRQRHWYI  155 (181)
T ss_pred             EEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC------------CCHHH---HHHHhCccccCCCceEE
Confidence            9999999999988444444444332 57999999999999654            22333   23233321       46


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|+||
T Consensus       156 ~~~Sa~~g~gv  166 (181)
T PLN00223        156 QSTCATSGEGL  166 (181)
T ss_pred             EeccCCCCCCH
Confidence            68999999996

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.97  E-value=6.3e-29  Score=173.28  Aligned_cols=147  Identities=25%  Similarity=0.418  Sum_probs=121.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      ||+++|.+|+|||||+++|+++.+...+.++........+.+.+..+.+.+||++|++.+..++..++..+|++++|||+
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~   80 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVEEMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAV   80 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchhhheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEEC
Confidence            68999999999999999999998877777776555556677888889999999999999988888899999999999999


Q ss_pred             CChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCccccc-chhhhcCCCCCcccHHHHHHHHH-HhCCcEEEEecccCc
Q 030961           90 VSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLRED-KHYLADHPGLVPVTTAQGEELRK-QIGASYYIECSSKTQ  165 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~-~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~Sa~~~  165 (168)
                      +++.+++.+ ..|+..+....  .+.|+++++||+|+... +.          +..++..+... ..+. +++++||++|
T Consensus        81 ~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~----------v~~~~~~~~~~~~~~~-~~~~~Sa~~g  148 (198)
T cd04147          81 DDPESFEEV-ERLREEILEVKEDKFVPIVVVGNKADSLEEERQ----------VPAKDALSTVELDWNC-GFVETSAKDN  148 (198)
T ss_pred             CCHHHHHHH-HHHHHHHHHhcCCCCCcEEEEEEcccccccccc----------ccHHHHHHHHHhhcCC-cEEEecCCCC
Confidence            999999998 78887777654  47999999999998653 22          44444444443 4454 7999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .||
T Consensus       149 ~gv  151 (198)
T cd04147         149 ENV  151 (198)
T ss_pred             CCH
Confidence            986

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.

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.97  E-value=2.2e-29  Score=172.40  Aligned_cols=145  Identities=17%  Similarity=0.246  Sum_probs=109.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      ...+||+++|.+|||||||+++|..+.+. .+.+|.+..+. ....  ..+.+.+||+||++.+..++..++++++++++
T Consensus        11 ~~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~-~~~~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~   86 (175)
T smart00177       11 NKEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVE-TVTY--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIF   86 (175)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceE-EEEE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEEE
Confidence            34799999999999999999999877774 45677765543 2222  45788999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHH-chhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH-----HHhCCcEEE
Q 030961           86 AFSLVSRASYENVLKKWIPEL-QHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR-----KQIGASYYI  158 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l-~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~  158 (168)
                      |||++++.+++.. .+|+..+ .+.. ++.|++|++||+|+....            ..++.....     ....+ .++
T Consensus        87 v~D~t~~~s~~~~-~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~------------~~~~i~~~~~~~~~~~~~~-~~~  152 (175)
T smart00177       87 VVDSNDRDRIDEA-REELHRMLNEDELRDAVILVFANKQDLPDAM------------KAAEITEKLGLHSIRDRNW-YIQ  152 (175)
T ss_pred             EEECCCHHHHHHH-HHHHHHHhhCHhhcCCcEEEEEeCcCcccCC------------CHHHHHHHhCccccCCCcE-EEE
Confidence            9999999999998 4555444 4332 578999999999996531            222222211     11222 577


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       153 ~~Sa~~g~gv  162 (175)
T smart00177      153 PTCATSGDGL  162 (175)
T ss_pred             EeeCCCCCCH
Confidence            8999999986

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).

>cd04158 ARD1 ARD1 subfamily

Probab=99.97  E-value=2.7e-29  Score=171.05  Aligned_cols=142  Identities=19%  Similarity=0.284  Sum_probs=112.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      ||+++|.++||||||+++|.+..+.. +.+|.+..+. .  ++...+.+.+||+||++.+..++..+++++|++++|+|+
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~-~--~~~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~   76 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVE-T--VEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDS   76 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEE-E--EEECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeC
Confidence            68999999999999999999987643 5677655443 2  333457888999999999999999999999999999999


Q ss_pred             CChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC-----CcEEEEecc
Q 030961           90 VSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG-----ASYYIECSS  162 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~Sa  162 (168)
                      +++.++..+ ..|+..+.+..  .+.|++|++||+|+...            +..+++++++...+     ...++++||
T Consensus        77 s~~~s~~~~-~~~~~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  143 (169)
T cd04158          77 SHRDRVSEA-HSELAKLLTEKELRDALLLIFANKQDVAGA------------LSVEEMTELLSLHKLCCGRSWYIQGCDA  143 (169)
T ss_pred             CcHHHHHHH-HHHHHHHhcChhhCCCCEEEEEeCcCcccC------------CCHHHHHHHhCCccccCCCcEEEEeCcC
Confidence            999999998 66666665432  46899999999999643            45666666654322     126889999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       144 ~~g~gv  149 (169)
T cd04158         144 RSGMGL  149 (169)
T ss_pred             CCCCCH
Confidence            999986

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.96  E-value=8.8e-29  Score=170.56  Aligned_cols=148  Identities=23%  Similarity=0.303  Sum_probs=114.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEE-CCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVA-EGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +.+||+++|++|||||||++++....+... .+|.+..+ ...+.. ++..+.+.+|||+|++.+..++..+++++|+++
T Consensus         2 ~~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii   80 (183)
T cd04152           2 QSLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIV   80 (183)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEE
Confidence            368999999999999999999998877543 56665444 333433 446789999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH--hC---CcEE
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ--IG---ASYY  157 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~---~~~~  157 (168)
                      +|+|++++.++..+ ..|+..+.+..  .+.|+++++||+|+...            ...++...+...  ..   ..++
T Consensus        81 ~v~D~~~~~~~~~~-~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~------------~~~~~~~~~~~~~~~~~~~~~~~  147 (183)
T cd04152          81 FVVDSVDVERMEEA-KTELHKITRFSENQGVPVLVLANKQDLPNA------------LSVSEVEKLLALHELSASTPWHV  147 (183)
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHhhhhcCCCcEEEEEECcCcccc------------CCHHHHHHHhCccccCCCCceEE
Confidence            99999999999887 67777666543  57999999999998643            333444444321  11   1268


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|+||
T Consensus       148 ~~~SA~~~~gi  158 (183)
T cd04152         148 QPACAIIGEGL  158 (183)
T ss_pred             EEeecccCCCH
Confidence            89999999985

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.96  E-value=9.9e-29  Score=168.81  Aligned_cols=146  Identities=18%  Similarity=0.258  Sum_probs=111.7

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +...+||+++|++|+|||||+++|.+..+ ..+.+|.+... ..+.++  .+.+.+||+||++.++.++..+++++|+++
T Consensus        11 ~~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~~~-~~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i   86 (173)
T cd04154          11 KEREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGFQI-KTLEYE--GYKLNIWDVGGQKTLRPYWRNYFESTDALI   86 (173)
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccccce-EEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            34678999999999999999999998755 34456655332 233344  477889999999998888899999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchh-C-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH-----HhCCcEE
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHY-S-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK-----QIGASYY  157 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~-~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~  157 (168)
                      +|||++++.++... ..|+..+... . .+.|+++++||+|+...            ...++.+.+..     ..++ ++
T Consensus        87 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~-~~  152 (173)
T cd04154          87 WVVDSSDRLRLDDC-KRELKELLQEERLAGATLLILANKQDLPGA------------LSEEEIREALELDKISSHHW-RI  152 (173)
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHhChhhcCCCEEEEEECcccccC------------CCHHHHHHHhCccccCCCce-EE
Confidence            99999999999887 5566555332 2 67999999999999654            23344444442     2344 89


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|+||
T Consensus       153 ~~~Sa~~g~gi  163 (173)
T cd04154         153 QPCSAVTGEGL  163 (173)
T ss_pred             EeccCCCCcCH
Confidence            99999999985

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.96  E-value=7.7e-29  Score=170.66  Aligned_cols=146  Identities=21%  Similarity=0.285  Sum_probs=108.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      +..+||+++|+++||||||++++..+.+.. +.+|.+..+. .  ++...+.+.+||++|++.++.++..+++++|++++
T Consensus        15 ~~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~-~--~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~   90 (182)
T PTZ00133         15 KKEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE-T--VEYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIF   90 (182)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE-E--EEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            346899999999999999999998877754 5677765543 2  23355788999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHH-----HHHhCCcEEEE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL-----RKQIGASYYIE  159 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~  159 (168)
                      |+|++++.++......+...+.... .+.|++|++||.|+...            ...++....     +....+ .+++
T Consensus        91 v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~i~~~l~~~~~~~~~~-~~~~  157 (182)
T PTZ00133         91 VVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNA------------MSTTEVTEKLGLHSVRQRNW-YIQG  157 (182)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCC------------CCHHHHHHHhCCCcccCCcE-EEEe
Confidence            9999999999988444444443322 57899999999998653            122222111     111222 5779


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|+||
T Consensus       158 ~Sa~tg~gv  166 (182)
T PTZ00133        158 CCATTAQGL  166 (182)
T ss_pred             eeCCCCCCH
Confidence            999999986

>PLN00023 GTP-binding protein; Provisional

Probab=99.96  E-value=6.4e-28  Score=176.01  Aligned_cols=147  Identities=19%  Similarity=0.306  Sum_probs=121.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEEC-------------CeEEEEEEEeCCCCcccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAE-------------GTTVNLGLWDTAGQEDYN   70 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~-------------~~~~~~~i~D~~g~~~~~   70 (168)
                      +...+||+++|+.|||||||+++|.++.+...+.+|++..+ .+.+.++             +..+.++||||+|++.|+
T Consensus        18 ~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfr   97 (334)
T PLN00023         18 PCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYK   97 (334)
T ss_pred             CccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhh
Confidence            34679999999999999999999999999888889998776 3445553             356889999999999999


Q ss_pred             ccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-------------CCCcEEEEeeCCcccccchhhhcCCCC
Q 030961           71 RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-------------PGVPVVLVGTKLDLREDKHYLADHPGL  137 (168)
Q Consensus        71 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-------------~~~p~ivv~nK~D~~~~~~~~~~~~~~  137 (168)
                      .++..++++++++|+|||++++.+++.+ ..|+..+.+..             .++|++||+||+|+...+..    ...
T Consensus        98 sL~~~yyr~AdgiILVyDITdr~SFenL-~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~----r~~  172 (334)
T PLN00023         98 DCRSLFYSQINGVIFVHDLSQRRTKTSL-QKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGT----RGS  172 (334)
T ss_pred             hhhHHhccCCCEEEEEEeCCCHHHHHHH-HHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccc----ccc
Confidence            9999999999999999999999999998 89999998753             24899999999999653210    000


Q ss_pred             CcccHHHHHHHHHHhCCcE
Q 030961          138 VPVTTAQGEELRKQIGASY  156 (168)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~  156 (168)
                      ..+..++++++|.+.++.+
T Consensus       173 s~~~~e~a~~~A~~~g~l~  191 (334)
T PLN00023        173 SGNLVDAARQWVEKQGLLP  191 (334)
T ss_pred             ccccHHHHHHHHHHcCCCc
Confidence            0136789999999988743

>cd04157 Arl6 Arl6 subfamily

Probab=99.95  E-value=7.4e-28  Score=162.50  Aligned_cols=142  Identities=20%  Similarity=0.225  Sum_probs=106.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC-CCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK-FPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +|+++|+++||||||+++|.+.. +...+.+|.+.....   .....+.+.+|||||++.+..++..++++++++++|+|
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~---~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D   77 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVES---FEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVID   77 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceEE---EEECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEe
Confidence            58999999999999999999875 345566776644321   22345778899999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHH---HH--HhCCcEEEE
Q 030961           89 LVSRASYENVLKKWIPELQHYS----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL---RK--QIGASYYIE  159 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~---~~--~~~~~~~~~  159 (168)
                      ++++.++... ..|+..+.+..    .+.|+++++||+|+....            ..++....   ..  ...+ ++++
T Consensus        78 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~------------~~~~~~~~l~~~~~~~~~~-~~~~  143 (162)
T cd04157          78 SSDRLRLVVV-KDELELLLNHPDIKHRRVPILFFANKMDLPDAL------------TAVKITQLLGLENIKDKPW-HIFA  143 (162)
T ss_pred             CCcHHHHHHH-HHHHHHHHcCcccccCCCCEEEEEeCccccCCC------------CHHHHHHHhCCccccCceE-EEEE
Confidence            9999999887 56666654421    479999999999996542            12222211   11  1122 5899


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|.||
T Consensus       144 ~Sa~~g~gv  152 (162)
T cd04157         144 SNALTGEGL  152 (162)
T ss_pred             eeCCCCCch
Confidence            999999986

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=99.95  E-value=1.4e-27  Score=163.29  Aligned_cols=145  Identities=21%  Similarity=0.295  Sum_probs=109.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      ..+||+++|++|+|||||++++..+.+.. +.++.+..+. ....+  ..++.+||+||++.+...+..+++++|++++|
T Consensus        14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~-~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V   89 (174)
T cd04153          14 KEYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVE-EIVYK--NIRFLMWDIGGQESLRSSWNTYYTNTDAVILV   89 (174)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceE-EEEEC--CeEEEEEECCCCHHHHHHHHHHhhcCCEEEEE
Confidence            46899999999999999999999887764 4666665542 22333  57788899999999988999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHH-HHHHH----HHhCCcEEEEe
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQ-GEELR----KQIGASYYIEC  160 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~----~~~~~~~~~~~  160 (168)
                      +|+++++++......+...+.... .+.|+++++||+|+...            ...++ .+.+.    ...++ +++++
T Consensus        90 ~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~------------~~~~~i~~~l~~~~~~~~~~-~~~~~  156 (174)
T cd04153          90 IDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGA------------MTPAEISESLGLTSIRDHTW-HIQGC  156 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCC------------CCHHHHHHHhCcccccCCce-EEEec
Confidence            999999999887444444443332 57999999999998653            22222 22221    22344 78999


Q ss_pred             cccCccCC
Q 030961          161 SSKTQQVC  168 (168)
Q Consensus       161 Sa~~~~~i  168 (168)
                      ||++|+||
T Consensus       157 SA~~g~gi  164 (174)
T cd04153         157 CALTGEGL  164 (174)
T ss_pred             ccCCCCCH
Confidence            99999986

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.95  E-value=3.7e-27  Score=158.86  Aligned_cols=142  Identities=24%  Similarity=0.314  Sum_probs=106.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      +|+++|++|+|||||+++|.+..+.. +.+|.+..+. .+.. +..+.+.+||+||++.+..++..+++++|++++|+|+
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~~-~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~   77 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNVE-MLQL-EKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDS   77 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcceE-EEEe-CCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEEC
Confidence            58999999999999999999988753 3566554332 2222 3457899999999999988888899999999999999


Q ss_pred             CChhHHHHHHHhHHHHHchh-C-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHH------HHHHHhCCcEEEEec
Q 030961           90 VSRASYENVLKKWIPELQHY-S-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGE------ELRKQIGASYYIECS  161 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~-~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~S  161 (168)
                      +++.++... ..|+..+.+. . .+.|+++++||+|+...            ...++..      .++...++ +++++|
T Consensus        78 ~~~~~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~~-~~~~~S  143 (160)
T cd04156          78 SDEARLDES-QKELKHILKNEHIKGVPVVLLANKQDLPGA------------LTAEEITRRFKLKKYCSDRDW-YVQPCS  143 (160)
T ss_pred             CcHHHHHHH-HHHHHHHHhchhhcCCCEEEEEECcccccC------------cCHHHHHHHcCCcccCCCCcE-EEEecc
Confidence            999999888 5555554332 2 57999999999998643            1122222      22222333 789999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|+||
T Consensus       144 a~~~~gv  150 (160)
T cd04156         144 AVTGEGL  150 (160)
T ss_pred             cccCCCh
Confidence            9999986

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

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.95  E-value=6.8e-28  Score=163.85  Aligned_cols=145  Identities=19%  Similarity=0.235  Sum_probs=108.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      +|+++|.++||||||+++|.+. +...+.+|.+... ..+..  ..+.+++||+||++.++.++..++++++++++|||+
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~~-~~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~   76 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFTP-TKLRL--DKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDS   76 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccceE-EEEEE--CCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEEC
Confidence            4899999999999999999976 6667777776542 23333  457788999999999999999999999999999999


Q ss_pred             CChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC-cEEEEecccCc
Q 030961           90 VSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA-SYYIECSSKTQ  165 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~  165 (168)
                      +++.++..+ ..|+..+.+..  .+.|+++|+||+|+........      .+....+..++.+.+. ..++++||++|
T Consensus        77 s~~~s~~~~-~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~------i~~~~~l~~~~~~~~~~~~~~~~Sa~~g  148 (167)
T cd04161          77 SDDDRVQEV-KEILRELLQHPRVSGKPILVLANKQDKKNALLGAD------VIEYLSLEKLVNENKSLCHIEPCSAIEG  148 (167)
T ss_pred             CchhHHHHH-HHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHH------HHHhcCcccccCCCCceEEEEEeEceeC
Confidence            999999988 67777665543  5789999999999976532000      0111112334433332 26777999998

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.95  E-value=3.2e-27  Score=159.04  Aligned_cols=142  Identities=17%  Similarity=0.207  Sum_probs=104.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      ||+++|++++|||||++++..+.+. .+.++.+.++. .  ++...+.+++|||||++.+..++..+++.++++++|+|+
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~-~~~~t~~~~~~-~--~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~   76 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVV-TTIPTIGFNVE-T--VTYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDS   76 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCc-CcCCccCcCeE-E--EEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEEC
Confidence            6899999999999999999887764 34566554432 2  233457889999999999999999999999999999999


Q ss_pred             CChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHH-HHH----HHhCCcEEEEeccc
Q 030961           90 VSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGE-ELR----KQIGASYYIECSSK  163 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~-~~~----~~~~~~~~~~~Sa~  163 (168)
                      +++.++......|...++... .+.|+++++||+|+.+..            ...+.. .+.    ...+. +++++||+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~------------~~~~i~~~~~~~~~~~~~~-~~~~~Sa~  143 (158)
T cd04151          77 TDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL------------SEAEISEKLGLSELKDRTW-SIFKTSAI  143 (158)
T ss_pred             CCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC------------CHHHHHHHhCccccCCCcE-EEEEeecc
Confidence            999888776444444444332 579999999999986542            112221 111    11223 69999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.||
T Consensus       144 ~~~gi  148 (158)
T cd04151         144 KGEGL  148 (158)
T ss_pred             CCCCH
Confidence            99986

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.95  E-value=1e-26  Score=160.99  Aligned_cols=146  Identities=18%  Similarity=0.275  Sum_probs=112.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|++|||||||++++.+..+. .+.++.+... ..+.+++  ..+.+||+||++.+..++..++++++++++
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~~-~~i~~~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~iil   92 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPTS-EELTIGN--IKFKTFDLGGHEQARRLWKDYFPEVDGIVF   92 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcce-EEEEECC--EEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            45789999999999999999999988763 4555554332 2344443  677889999999988888889999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh-----------
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI-----------  152 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------  152 (168)
                      |+|+++..++... ..++..+.+..  .+.|+++++||+|+...            +..++.+.....+           
T Consensus        93 V~D~~~~~s~~~~-~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~  159 (190)
T cd00879          93 LVDAADPERFQES-KEELDSLLSDEELANVPFLILGNKIDLPGA------------VSEEELRQALGLYGTTTGKGVSLK  159 (190)
T ss_pred             EEECCcHHHHHHH-HHHHHHHHcCccccCCCEEEEEeCCCCCCC------------cCHHHHHHHhCccccccccccccc
Confidence            9999999999887 55555554432  56999999999998653            4556666655421           


Q ss_pred             ----CCcEEEEecccCccCC
Q 030961          153 ----GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ----~~~~~~~~Sa~~~~~i  168 (168)
                          ...++++|||++|+||
T Consensus       160 ~~~~~~~~~~~~Sa~~~~gv  179 (190)
T cd00879         160 VSGIRPIEVFMCSVVKRQGY  179 (190)
T ss_pred             ccCceeEEEEEeEecCCCCh
Confidence                1236899999999986

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.95  E-value=1e-26  Score=157.74  Aligned_cols=143  Identities=20%  Similarity=0.306  Sum_probs=105.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCC------CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKF------PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      +|+++|++|+|||||+++|.+...      ...+.++.+..+. .+.++  ...+.+|||||++.+..++..+++.++++
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   77 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIG-TIEVG--NARLKFWDLGGQESLRSLWDKYYAECHAI   77 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceE-EEEEC--CEEEEEEECCCChhhHHHHHHHhCCCCEE
Confidence            589999999999999999986432      1233444444432 23333  56788899999999998889999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh------CCc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI------GAS  155 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~  155 (168)
                      ++|+|+++++++... ..|+..+.+..  .+.|+++++||+|+...            ...++...+....      ...
T Consensus        78 v~vvd~~~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~------------~~~~~~~~~~~~~~~~~~~~~~  144 (167)
T cd04160          78 IYVIDSTDRERFEES-KSALEKVLRNEALEGVPLLILANKQDLPDA------------LSVEEIKEVFQDKAEEIGRRDC  144 (167)
T ss_pred             EEEEECchHHHHHHH-HHHHHHHHhChhhcCCCEEEEEEccccccC------------CCHHHHHHHhccccccccCCce
Confidence            999999999988887 56666555432  57999999999998654            3334444443221      123


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|+|+
T Consensus       145 ~~~~~Sa~~g~gv  157 (167)
T cd04160         145 LVLPVSALEGTGV  157 (167)
T ss_pred             EEEEeeCCCCcCH
Confidence            7999999999986

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.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.94  E-value=2.4e-26  Score=154.69  Aligned_cols=141  Identities=22%  Similarity=0.280  Sum_probs=106.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      ||+++|.+|||||||++++.+..+ ..+.++.+.... .+.+.  .+.+.+||+||++.+...+..+++.++++++|||+
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~   76 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNVE-TVEYK--NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDS   76 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcceE-EEEEC--CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEEC
Confidence            689999999999999999998874 344555544332 22333  46788899999999988999999999999999999


Q ss_pred             CChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH-----HhCCcEEEEecc
Q 030961           90 VSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK-----QIGASYYIECSS  162 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa  162 (168)
                      ++++++... ..|+..+.+..  .+.|+++++||+|+....            ..++......     ... .+++++||
T Consensus        77 ~~~~~~~~~-~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~------------~~~~~~~~~~~~~~~~~~-~~~~~~Sa  142 (158)
T cd00878          77 SDRERIEEA-KEELHKLLNEEELKGVPLLIFANKQDLPGAL------------SVSELIEKLGLEKILGRR-WHIQPCSA  142 (158)
T ss_pred             CCHHHHHHH-HHHHHHHHhCcccCCCcEEEEeeccCCcccc------------CHHHHHHhhChhhccCCc-EEEEEeeC
Confidence            999999988 55655554432  589999999999997643            1222222222     233 37999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.|+
T Consensus       143 ~~~~gv  148 (158)
T cd00878         143 VTGDGL  148 (158)
T ss_pred             CCCCCH
Confidence            999985

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

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.94  E-value=2.4e-26  Score=158.55  Aligned_cols=146  Identities=15%  Similarity=0.216  Sum_probs=108.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.++|+++|.+|||||||++++.++.+.. +.+|.+... ..+.+.  .+++.+||+||++.++.++..++.+++++++
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~--~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~   90 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQ-HQPTQHPTS-EELAIG--NIKFTTFDLGGHQQARRLWKDYFPEVNGIVY   90 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCcc-cCCccccce-EEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEEE
Confidence            567999999999999999999999887643 344443322 122333  4678889999999998899999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchh-C-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH-----------Hh
Q 030961           86 AFSLVSRASYENVLKKWIPELQHY-S-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK-----------QI  152 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~-~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~  152 (168)
                      |+|++++.++... ..++..+.+. . .+.|+++++||+|+...            +..++..+...           ..
T Consensus        91 vvD~~~~~~~~~~-~~~l~~l~~~~~~~~~piliv~NK~Dl~~~------------~~~~~i~~~l~l~~~~~~~~~~~~  157 (184)
T smart00178       91 LVDAYDKERFAES-KRELDALLSDEELATVPFLILGNKIDAPYA------------ASEDELRYALGLTNTTGSKGKVGV  157 (184)
T ss_pred             EEECCcHHHHHHH-HHHHHHHHcChhhcCCCEEEEEeCccccCC------------CCHHHHHHHcCCCcccccccccCC
Confidence            9999999999887 4555544432 2 57899999999998643            33444433321           11


Q ss_pred             CCcEEEEecccCccCC
Q 030961          153 GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ~~~~~~~~Sa~~~~~i  168 (168)
                      +...++++||++|+|+
T Consensus       158 ~~~~i~~~Sa~~~~g~  173 (184)
T smart00178      158 RPLEVFMCSVVRRMGY  173 (184)
T ss_pred             ceeEEEEeecccCCCh
Confidence            2346899999999985

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>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=99.94  E-value=1.6e-26  Score=158.11  Aligned_cols=147  Identities=20%  Similarity=0.307  Sum_probs=112.6

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.++|+++|++||||||+++++..+.... ..||.+... ..+...  .+.+.+||.+|+..++.+|+.++.++++++
T Consensus        11 ~~~~~~ililGl~~sGKTtll~~l~~~~~~~-~~pT~g~~~-~~i~~~--~~~~~~~d~gG~~~~~~~w~~y~~~~~~iI   86 (175)
T PF00025_consen   11 KKKEIKILILGLDGSGKTTLLNRLKNGEISE-TIPTIGFNI-EEIKYK--GYSLTIWDLGGQESFRPLWKSYFQNADGII   86 (175)
T ss_dssp             TTSEEEEEEEESTTSSHHHHHHHHHSSSEEE-EEEESSEEE-EEEEET--TEEEEEEEESSSGGGGGGGGGGHTTESEEE
T ss_pred             cCcEEEEEEECCCccchHHHHHHhhhccccc-cCccccccc-ceeeeC--cEEEEEEeccccccccccceeeccccceeE
Confidence            4678999999999999999999998765432 445554332 233344  456778999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH------HhCCcEE
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK------QIGASYY  157 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~  157 (168)
                      ||+|.++.+.+.+..+.+...+.+.. .+.|++|++||.|+...            ...++......      ... ..+
T Consensus        87 fVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~------------~~~~~i~~~l~l~~l~~~~~-~~v  153 (175)
T PF00025_consen   87 FVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDA------------MSEEEIKEYLGLEKLKNKRP-WSV  153 (175)
T ss_dssp             EEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS------------STHHHHHHHTTGGGTTSSSC-EEE
T ss_pred             EEEecccceeecccccchhhhcchhhcccceEEEEeccccccCc------------chhhHHHhhhhhhhcccCCc-eEE
Confidence            99999999999988556655555543 68999999999998765            34444444332      123 368


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +.+||.+|+|+
T Consensus       154 ~~~sa~~g~Gv  164 (175)
T PF00025_consen  154 FSCSAKTGEGV  164 (175)
T ss_dssp             EEEBTTTTBTH
T ss_pred             EeeeccCCcCH
Confidence            89999999985

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 ....

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.94  E-value=3.2e-28  Score=160.77  Aligned_cols=151  Identities=34%  Similarity=0.517  Sum_probs=139.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +..+|++++|..++||||+++|++.+-|...+..+++.++. ..+.+++..+.+.+||++|+++|..+...++++|.+.+
T Consensus        18 e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~v   97 (246)
T KOG4252|consen   18 ERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQASV   97 (246)
T ss_pred             hhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhccccceE
Confidence            46899999999999999999999999999999999999884 46778888888889999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      +||+.+|+.||+.. ..|...++....++|.++|-||+|+.++..          +..++.+.+++.+.+ .++.+|++.
T Consensus        98 LVFSTTDr~SFea~-~~w~~kv~~e~~~IPtV~vqNKIDlveds~----------~~~~evE~lak~l~~-RlyRtSvke  165 (246)
T KOG4252|consen   98 LVFSTTDRYSFEAT-LEWYNKVQKETERIPTVFVQNKIDLVEDSQ----------MDKGEVEGLAKKLHK-RLYRTSVKE  165 (246)
T ss_pred             EEEecccHHHHHHH-HHHHHHHHHHhccCCeEEeeccchhhHhhh----------cchHHHHHHHHHhhh-hhhhhhhhh
Confidence            99999999999998 899999999888999999999999999887          899999999999998 889999998


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      ..||
T Consensus       166 d~NV  169 (246)
T KOG4252|consen  166 DFNV  169 (246)
T ss_pred             hhhh
Confidence            8765

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.94  E-value=3.1e-25  Score=148.64  Aligned_cols=141  Identities=26%  Similarity=0.351  Sum_probs=107.6

Q ss_pred             EEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCC
Q 030961           11 CVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLV   90 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   90 (168)
                      |+++|++|||||||++++.+..+...+.++.+..+.. +...  .+.+.+||+||++.++.++..+++.+|++++|+|++
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~-~~~~--~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~   78 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK-VTKG--NVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAA   78 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE-EEEC--CEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECC
Confidence            7899999999999999999998888888877665532 2222  378899999999999999999999999999999999


Q ss_pred             ChhHHHHHHHhHHHHHch-hC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHH-HHH----HHHhCCcEEEEeccc
Q 030961           91 SRASYENVLKKWIPELQH-YS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQG-EEL----RKQIGASYYIECSSK  163 (168)
Q Consensus        91 ~~~s~~~~~~~~~~~l~~-~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~----~~~~~~~~~~~~Sa~  163 (168)
                      ++.++... ..++..+.. .. .+.|+++++||+|+.+...            .++. ..+    ....+ .+++++||+
T Consensus        79 ~~~~~~~~-~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~  144 (159)
T cd04159          79 DRTALEAA-KNELHDLLEKPSLEGIPLLVLGNKNDLPGALS------------VDELIEQMNLKSITDRE-VSCYSISCK  144 (159)
T ss_pred             CHHHHHHH-HHHHHHHHcChhhcCCCEEEEEeCccccCCcC------------HHHHHHHhCcccccCCc-eEEEEEEec
Confidence            99998887 444444433 22 5789999999999865422            1111 111    11123 378999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.||
T Consensus       145 ~~~gi  149 (159)
T cd04159         145 EKTNI  149 (159)
T ss_pred             cCCCh
Confidence            99986

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.

>PTZ00099 rab6; Provisional

Probab=99.94  E-value=2.5e-25  Score=152.17  Aligned_cols=126  Identities=30%  Similarity=0.518  Sum_probs=110.6

Q ss_pred             CCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchh
Q 030961           31 NKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY  109 (168)
Q Consensus        31 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~  109 (168)
                      +.|.+.+.+|++.++ .+.+.+++..+++.+|||+|++.+..+++.+++++|++++|||++++.+|+.+ ..|+..+.+.
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~-~~w~~~i~~~   81 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENT-TKWIQDILNE   81 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHH-HHHHHHHHHh
Confidence            356778889998777 55678899999999999999999999999999999999999999999999998 7898887665


Q ss_pred             C-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961          110 S-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       110 ~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      . ++.|++||+||+|+...+.          +..+++..++..+++ .|+++||++|+||
T Consensus        82 ~~~~~piilVgNK~DL~~~~~----------v~~~e~~~~~~~~~~-~~~e~SAk~g~nV  130 (176)
T PTZ00099         82 RGKDVIIALVGNKTDLGDLRK----------VTYEEGMQKAQEYNT-MFHETSAKAGHNI  130 (176)
T ss_pred             cCCCCeEEEEEECcccccccC----------CCHHHHHHHHHHcCC-EEEEEECCCCCCH
Confidence            4 5789999999999975543          778889999999988 8999999999986

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.93  E-value=3e-25  Score=144.52  Aligned_cols=152  Identities=18%  Similarity=0.225  Sum_probs=116.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ++++++|.++|..||||||++++|.+.. .....||.+.+.+   ++....+++++||.+|+..+++.|+.++...|++|
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~gf~Ik---tl~~~~~~L~iwDvGGq~~lr~~W~nYfestdglI   88 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLGFQIK---TLEYKGYTLNIWDVGGQKTLRSYWKNYFESTDGLI   88 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccceeeE---EEEecceEEEEEEcCCcchhHHHHHHhhhccCeEE
Confidence            5679999999999999999999999876 3444566554432   34455688899999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|+|.+|+..+++....+...+.... ...|++|++||.|+...-...      .....-+.+.++....+ +.+.|||.
T Consensus        89 wvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~------~i~~~~~L~~l~ks~~~-~l~~cs~~  161 (185)
T KOG0073|consen   89 WVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLE------EISKALDLEELAKSHHW-RLVKCSAV  161 (185)
T ss_pred             EEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHH------HHHHhhCHHHhccccCc-eEEEEecc
Confidence            99999999999887666666665544 578999999999998441100      00111224455566666 88999999


Q ss_pred             CccC
Q 030961          164 TQQV  167 (168)
Q Consensus       164 ~~~~  167 (168)
                      +|++
T Consensus       162 tge~  165 (185)
T KOG0073|consen  162 TGED  165 (185)
T ss_pred             cccc
Confidence            9976

>cd01890 LepA LepA subfamily

Probab=99.93  E-value=6.5e-25  Score=150.53  Aligned_cols=143  Identities=15%  Similarity=0.151  Sum_probs=102.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC-------CCCCCCCce------eecee-EEE--EE---CCeEEEEEEEeCCCCcccc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK-------FPTDYIPTV------FDNFS-ANV--VA---EGTTVNLGLWDTAGQEDYN   70 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~-------~~~~~~~~~------~~~~~-~~~--~~---~~~~~~~~i~D~~g~~~~~   70 (168)
                      +|+++|++++|||||+++|++..       +...+.++.      +..+. +..  ..   ++..+.+.+|||||++.+.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            68999999999999999998742       111222221      12221 111  22   5677889999999999999


Q ss_pred             ccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH
Q 030961           71 RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK  150 (168)
Q Consensus        71 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (168)
                      .++..+++.+|++++|+|++++.++... ..|.....   .++|+++++||+|+....            ..+...++++
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~------------~~~~~~~~~~  145 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTL-ANFYLALE---NNLEIIPVINKIDLPSAD------------PERVKQQIED  145 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhH-HHHHHHHH---cCCCEEEEEECCCCCcCC------------HHHHHHHHHH
Confidence            8888899999999999999987776654 44543332   468999999999986432            1233445566


Q ss_pred             HhCCc--EEEEecccCccCC
Q 030961          151 QIGAS--YYIECSSKTQQVC  168 (168)
Q Consensus       151 ~~~~~--~~~~~Sa~~~~~i  168 (168)
                      .+++.  .++++||++|+||
T Consensus       146 ~~~~~~~~~~~~Sa~~g~gi  165 (179)
T cd01890         146 VLGLDPSEAILVSAKTGLGV  165 (179)
T ss_pred             HhCCCcccEEEeeccCCCCH
Confidence            66652  4899999999986

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=99.93  E-value=2.7e-24  Score=143.67  Aligned_cols=149  Identities=36%  Similarity=0.520  Sum_probs=115.7

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      .+||+++|.+|+|||||++++.+..+...+.++.+..+.. .+..++..+.+.+||+||+..+..++....+.++.++.+
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~   80 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRV   80 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEE
Confidence            3799999999999999999999988766777777666643 456777778999999999999988888888999999999


Q ss_pred             EeCCCh-hHHHHHHHhHHHHHchhCC-CCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSR-ASYENVLKKWIPELQHYSP-GVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~-~s~~~~~~~~~~~l~~~~~-~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      +|.... .++......|...+.+... +.|+++++||+|+....           ........+.. .+..+++++||++
T Consensus        81 ~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-----------~~~~~~~~~~~-~~~~~~~~~sa~~  148 (161)
T TIGR00231        81 FDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-----------LKTHVAFLFAK-LNGEPIIPLSAET  148 (161)
T ss_pred             EEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-----------hhHHHHHHHhh-ccCCceEEeecCC
Confidence            998877 6666653466666666554 78999999999997643           22233333333 4444799999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.|+
T Consensus       149 ~~gv  152 (161)
T TIGR00231       149 GKNI  152 (161)
T ss_pred             CCCH
Confidence            9985

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.93  E-value=1.5e-24  Score=153.32  Aligned_cols=160  Identities=32%  Similarity=0.500  Sum_probs=124.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      .+||+++|++|||||||+++|.++.+...+.++.+..+.. .....+..+.+.+|||+|+++++.+++.++.+++++++|
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            4899999999999999999999999998889998877744 445555588999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCC--CcccHHHHHHHHHH---hCCcEEEEe
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGL--VPVTTAQGEELRKQ---IGASYYIEC  160 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~--~~~~~~~~~~~~~~---~~~~~~~~~  160 (168)
                      ||..+..++....+.|...+.... .+.|+++++||+|+.............  .....+.....+..   ... .++++
T Consensus        85 ~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  163 (219)
T COG1100          85 YDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANP-ALLET  163 (219)
T ss_pred             EecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhccc-ceeEe
Confidence            999997777777799999999987 479999999999999775311110000  01222222332222   243 48999


Q ss_pred             ccc--CccCC
Q 030961          161 SSK--TQQVC  168 (168)
Q Consensus       161 Sa~--~~~~i  168 (168)
                      |++  .+.||
T Consensus       164 s~~~~~~~~v  173 (219)
T COG1100         164 SAKSLTGPNV  173 (219)
T ss_pred             ecccCCCcCH
Confidence            999  76654

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.93  E-value=1.6e-25  Score=148.19  Aligned_cols=127  Identities=27%  Similarity=0.279  Sum_probs=93.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCc-----cccccccccccCCcEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQE-----DYNRLRPLSYRGADVFV   84 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-----~~~~~~~~~~~~~~~~i   84 (168)
                      ||+++|++|+|||||+++|.+..+.  +.+|.+..+.      .     .+|||||+.     .+..+.+ .++++|+++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~--~~~t~~~~~~------~-----~~iDt~G~~~~~~~~~~~~~~-~~~~ad~vi   67 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL--YKKTQAVEYN------D-----GAIDTPGEYVENRRLYSALIV-TAADADVIA   67 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc--cccceeEEEc------C-----eeecCchhhhhhHHHHHHHHH-HhhcCCEEE
Confidence            8999999999999999999987652  2333332221      1     579999973     2333333 478999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      +|||++++.++..  ..|...+     ..|+++++||+|+.+..           ...++++++++..+..+++++||++
T Consensus        68 lv~d~~~~~s~~~--~~~~~~~-----~~p~ilv~NK~Dl~~~~-----------~~~~~~~~~~~~~~~~~~~~~Sa~~  129 (142)
T TIGR02528        68 LVQSATDPESRFP--PGFASIF-----VKPVIGLVTKIDLAEAD-----------VDIERAKELLETAGAEPIFEISSVD  129 (142)
T ss_pred             EEecCCCCCcCCC--hhHHHhc-----cCCeEEEEEeeccCCcc-----------cCHHHHHHHHHHcCCCcEEEEecCC
Confidence            9999999998765  3454432     24999999999986432           4456777888777765799999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+|+
T Consensus       130 ~~gi  133 (142)
T TIGR02528       130 EQGL  133 (142)
T ss_pred             CCCH
Confidence            9985

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.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.92  E-value=4.1e-24  Score=145.11  Aligned_cols=144  Identities=19%  Similarity=0.160  Sum_probs=95.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccc---------c-cc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPL---------S-YR   78 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~---------~-~~   78 (168)
                      .+|+++|.+|+|||||+++|.+..+.....+-.+..... .........+.+|||||.... ..+..         . ..
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~i~Dt~G~~~~-~~~~~~~~~~~~~~~~~~   78 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFV-GHFDYKYLRWQVIDTPGLLDR-PLEERNTIEMQAITALAH   78 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeE-EEEccCceEEEEEECCCcCCc-cccCCchHHHHHHHHHHh
Confidence            479999999999999999999987643211111111111 112223578889999998431 11111         0 12


Q ss_pred             CCcEEEEEEeCCChhHH--HHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcE
Q 030961           79 GADVFVLAFSLVSRASY--ENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASY  156 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~--~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (168)
                      .+|++++|+|++++.++  +.. ..|+..+.....+.|+++++||+|+.....          +.  +.+.+....+. +
T Consensus        79 ~~d~~l~v~d~~~~~~~~~~~~-~~~~~~l~~~~~~~pvilv~NK~Dl~~~~~----------~~--~~~~~~~~~~~-~  144 (168)
T cd01897          79 LRAAVLFLFDPSETCGYSLEEQ-LSLFEEIKPLFKNKPVIVVLNKIDLLTFED----------LS--EIEEEEELEGE-E  144 (168)
T ss_pred             ccCcEEEEEeCCcccccchHHH-HHHHHHHHhhcCcCCeEEEEEccccCchhh----------HH--HHHHhhhhccC-c
Confidence            36899999999987653  444 567777766545899999999999975432          22  24455554555 8


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      ++++||++|.|+
T Consensus       145 ~~~~Sa~~~~gi  156 (168)
T cd01897         145 VLKISTLTEEGV  156 (168)
T ss_pred             eEEEEecccCCH
Confidence            999999999986

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.

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.92  E-value=1.6e-25  Score=143.43  Aligned_cols=144  Identities=23%  Similarity=0.330  Sum_probs=119.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      ..+.+.++|..++|||||+|....+.+.+...||.+....   .+....+.+.+||.||++.|+.+|+.+++.++++++|
T Consensus        19 ~emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnmr---k~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~   95 (186)
T KOG0075|consen   19 EEMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNMR---KVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYV   95 (186)
T ss_pred             heeeEEEEeeccCCcceEEEEEeeccchhhhcccccceeE---EeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEE
Confidence            3678999999999999999999998888888888876543   3445556777899999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC-------cEEE
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA-------SYYI  158 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~  158 (168)
                      +|+++++.+...+.++.+.+.+.. ..+|++|+|||.|+...            ++.   ..+..++|+       +..|
T Consensus        96 VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~A------------L~~---~~li~rmgL~sitdREvcC~  160 (186)
T KOG0075|consen   96 VDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGA------------LSK---IALIERMGLSSITDREVCCF  160 (186)
T ss_pred             eecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCccc------------ccH---HHHHHHhCccccccceEEEE
Confidence            999999999888888888888877 78999999999999876            333   333344444       3578


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      .+|++...||
T Consensus       161 siScke~~Ni  170 (186)
T KOG0075|consen  161 SISCKEKVNI  170 (186)
T ss_pred             EEEEcCCccH
Confidence            9999988875

>cd04155 Arl3 Arl3 subfamily

Probab=99.92  E-value=2.8e-24  Score=146.61  Aligned_cols=144  Identities=22%  Similarity=0.314  Sum_probs=104.2

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      ...++++++|++|+|||||++++.+..+. .+.++.+... ..+..+  ...+.+||++|+..+...+...++.++++++
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~-~~i~~~--~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~   87 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNI-KTVQSD--GFKLNVWDIGGQRAIRPYWRNYFENTDCLIY   87 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcce-EEEEEC--CEEEEEEECCCCHHHHHHHHHHhcCCCEEEE
Confidence            45799999999999999999999987653 3345544332 223333  3667889999998888888888999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC-------cEE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA-------SYY  157 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~  157 (168)
                      |+|+++..++......+...+.... .++|+++++||+|+....            ..   ..+....++       .++
T Consensus        88 v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~------------~~---~~i~~~l~~~~~~~~~~~~  152 (173)
T cd04155          88 VIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAA------------PA---EEIAEALNLHDLRDRTWHI  152 (173)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCC------------CH---HHHHHHcCCcccCCCeEEE
Confidence            9999999988877333334333322 579999999999986542            11   122222332       147


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|+|+
T Consensus       153 ~~~Sa~~~~gi  163 (173)
T cd04155         153 QACSAKTGEGL  163 (173)
T ss_pred             EEeECCCCCCH
Confidence            89999999986

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.

>cd01898 Obg Obg subfamily

Probab=99.92  E-value=3.4e-24  Score=145.73  Aligned_cols=145  Identities=19%  Similarity=0.140  Sum_probs=97.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCcc----cccccccc---ccCCc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQED----YNRLRPLS---YRGAD   81 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~----~~~~~~~~---~~~~~   81 (168)
                      +|+++|.+|||||||+++|.+........+..+..... .+.+++ ...+.+|||||...    ...+...+   +..+|
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~-~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d   80 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDD-GRSFVVADIPGLIEGASEGKGLGHRFLRHIERTR   80 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCC-CCeEEEEecCcccCcccccCCchHHHHHHHHhCC
Confidence            58999999999999999998765421111111111111 122222 24788899999642    22233333   34699


Q ss_pred             EEEEEEeCCCh-hHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh-CCcE
Q 030961           82 VFVLAFSLVSR-ASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI-GASY  156 (168)
Q Consensus        82 ~~i~v~d~~~~-~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  156 (168)
                      ++++|+|++++ .+++.. ..|.+.+....   .+.|+++|+||+|+.....           ..+....+.... +. +
T Consensus        81 ~vi~v~D~~~~~~~~~~~-~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~-----------~~~~~~~~~~~~~~~-~  147 (170)
T cd01898          81 LLLHVIDLSGDDDPVEDY-KTIRNELELYNPELLEKPRIVVLNKIDLLDEEE-----------LFELLKELLKELWGK-P  147 (170)
T ss_pred             EEEEEEecCCCCCHHHHH-HHHHHHHHHhCccccccccEEEEEchhcCCchh-----------hHHHHHHHHhhCCCC-C
Confidence            99999999999 788887 78888877654   3689999999999866532           233444455543 44 7


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      ++++||+++.||
T Consensus       148 ~~~~Sa~~~~gi  159 (170)
T cd01898         148 VFPISALTGEGL  159 (170)
T ss_pred             EEEEecCCCCCH
Confidence            999999999885

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.

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.92  E-value=3.7e-24  Score=142.55  Aligned_cols=147  Identities=18%  Similarity=0.237  Sum_probs=117.6

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..++.+|+++|..++||||++.+|..+..... .||++..... +.+.  .+.+.+||.+|++.++.+|+.++++.+++|
T Consensus        14 ~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiGfnVE~-v~yk--n~~f~vWDvGGq~k~R~lW~~Y~~~t~~lI   89 (181)
T KOG0070|consen   14 GKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIGFNVET-VEYK--NISFTVWDVGGQEKLRPLWKHYFQNTQGLI   89 (181)
T ss_pred             CcceEEEEEEeccCCCceeeeEeeccCCcccC-CCccccceeE-EEEc--ceEEEEEecCCCcccccchhhhccCCcEEE
Confidence            56789999999999999999999988776544 7888766532 2222  677888999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH-----HHhCCcEEE
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR-----KQIGASYYI  158 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~  158 (168)
                      ||+|.+|++.+.++.+++...+.... .+.|+++++||.|+...            .+..+..+..     ....+ ++.
T Consensus        90 fVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~a------------ls~~ei~~~L~l~~l~~~~w-~iq  156 (181)
T KOG0070|consen   90 FVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGA------------LSAAEITNKLGLHSLRSRNW-HIQ  156 (181)
T ss_pred             EEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhcccc------------CCHHHHHhHhhhhccCCCCc-EEe
Confidence            99999999999999888888877765 58999999999999876            3333332222     22344 566


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      .++|.+|+|+
T Consensus       157 ~~~a~~G~GL  166 (181)
T KOG0070|consen  157 STCAISGEGL  166 (181)
T ss_pred             eccccccccH
Confidence            6999999984

>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=99.92  E-value=5.3e-24  Score=136.87  Aligned_cols=114  Identities=29%  Similarity=0.537  Sum_probs=87.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      ||+|+|++|||||||+++|++..+.  ..+.++.+..+. ...........+.+||++|++.+...+...+..+|++++|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv   80 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILV   80 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEE
Confidence            7999999999999999999998765  122222233332 3455667777799999999998888777789999999999


Q ss_pred             EeCCChhHHHHHHH--hHHHHHchhCCCCcEEEEeeCCc
Q 030961           87 FSLVSRASYENVLK--KWIPELQHYSPGVPVVLVGTKLD  123 (168)
Q Consensus        87 ~d~~~~~s~~~~~~--~~~~~l~~~~~~~p~ivv~nK~D  123 (168)
                      ||++++.++..+.+  .|+..+.....++|+++|+||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~~~~~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKRDKNIPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHccCCCCCEEEEEeccC
Confidence            99999999998722  25666665556799999999998

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.

>cd01878 HflX HflX subfamily

Probab=99.91  E-value=4.8e-24  Score=149.28  Aligned_cols=145  Identities=18%  Similarity=0.097  Sum_probs=98.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccc--cc------ccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR--LR------PLS   76 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~--~~------~~~   76 (168)
                      ++.++|+++|++|||||||++++.+..+.....+..+... ...+..++. ..+.+|||||......  +.      ...
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~  117 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRSTLEE  117 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHHHHH
Confidence            4568999999999999999999998764322222222122 223333332 3688899999732111  00      112


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      +..+|++++|+|++++.++... ..|...+.... .+.|+++|+||+|+.....          ..     ......+. 
T Consensus       118 ~~~~d~ii~v~D~~~~~~~~~~-~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~----------~~-----~~~~~~~~-  180 (204)
T cd01878         118 VAEADLLLHVVDASDPDYEEQI-ETVEKVLKELGAEDIPMILVLNKIDLLDDEE----------LE-----ERLEAGRP-  180 (204)
T ss_pred             HhcCCeEEEEEECCCCChhhHH-HHHHHHHHHcCcCCCCEEEEEEccccCChHH----------HH-----HHhhcCCC-
Confidence            5689999999999998888775 66766666554 5789999999999965532          11     33344444 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|.|+
T Consensus       181 ~~~~~Sa~~~~gi  193 (204)
T cd01878         181 DAVFISAKTGEGL  193 (204)
T ss_pred             ceEEEEcCCCCCH
Confidence            7999999999985

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.

>cd04171 SelB SelB subfamily

Probab=99.91  E-value=8.5e-24  Score=142.75  Aligned_cols=143  Identities=20%  Similarity=0.166  Sum_probs=92.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC---CCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK---FPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~---~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .|+++|.+|+|||||+++|.+..   +.....++.+.... ......+ ...+.+|||||++.+.......++++|++++
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~   80 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLL   80 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEE
Confidence            58999999999999999998642   22222222222221 2233332 4578889999999887666667889999999


Q ss_pred             EEeCCCh---hHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH---hCCcEEEE
Q 030961           86 AFSLVSR---ASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ---IGASYYIE  159 (168)
Q Consensus        86 v~d~~~~---~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~  159 (168)
                      |+|+++.   .+.+.+     ..+... ...|+++++||+|+.....        .....++..+....   .+. ++++
T Consensus        81 V~d~~~~~~~~~~~~~-----~~~~~~-~~~~~ilv~NK~Dl~~~~~--------~~~~~~~~~~~~~~~~~~~~-~~~~  145 (164)
T cd04171          81 VVAADEGIMPQTREHL-----EILELL-GIKRGLVVLTKADLVDEDW--------LELVEEEIRELLAGTFLADA-PIFP  145 (164)
T ss_pred             EEECCCCccHhHHHHH-----HHHHHh-CCCcEEEEEECccccCHHH--------HHHHHHHHHHHHHhcCcCCC-cEEE
Confidence            9999873   333322     222221 2249999999999965421        00122344444443   244 8999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|+|+
T Consensus       146 ~Sa~~~~~v  154 (164)
T cd04171         146 VSAVTGEGI  154 (164)
T ss_pred             EeCCCCcCH
Confidence            999999985

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

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.91  E-value=8.4e-24  Score=147.00  Aligned_cols=147  Identities=12%  Similarity=0.082  Sum_probs=102.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc--CCCCCCC------------CCceeece-eEEEEECCeEEEEEEEeCCCCcccccc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS--NKFPTDY------------IPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRL   72 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~--~~~~~~~------------~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~   72 (168)
                      .-+|+++|.+++|||||+++|++  +.+...+            ..+.+..+ .+...+....+.+.+|||||++.|..+
T Consensus         2 ~r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~   81 (194)
T cd01891           2 IRNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGE   81 (194)
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHH
Confidence            34799999999999999999997  4444332            11122222 233445556778899999999999999


Q ss_pred             ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH-
Q 030961           73 RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ-  151 (168)
Q Consensus        73 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  151 (168)
                      +..+++.+|++++|+|+++.. +... ..++..+..  .++|+++++||+|+...+.         ....++...+... 
T Consensus        82 ~~~~~~~~d~~ilV~d~~~~~-~~~~-~~~~~~~~~--~~~p~iiv~NK~Dl~~~~~---------~~~~~~~~~~~~~~  148 (194)
T cd01891          82 VERVLSMVDGVLLLVDASEGP-MPQT-RFVLKKALE--LGLKPIVVINKIDRPDARP---------EEVVDEVFDLFIEL  148 (194)
T ss_pred             HHHHHHhcCEEEEEEECCCCc-cHHH-HHHHHHHHH--cCCCEEEEEECCCCCCCCH---------HHHHHHHHHHHHHh
Confidence            999999999999999998743 2222 344444433  4689999999999964321         0223444444422 


Q ss_pred             ------hCCcEEEEecccCccCC
Q 030961          152 ------IGASYYIECSSKTQQVC  168 (168)
Q Consensus       152 ------~~~~~~~~~Sa~~~~~i  168 (168)
                            .+. +++++||++|.|+
T Consensus       149 ~~~~~~~~~-~iv~~Sa~~g~~~  170 (194)
T cd01891         149 GATEEQLDF-PVLYASAKNGWAS  170 (194)
T ss_pred             CCccccCcc-CEEEeehhccccc
Confidence                  255 7999999999885

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

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.91  E-value=1.3e-23  Score=156.20  Aligned_cols=147  Identities=17%  Similarity=0.128  Sum_probs=102.2

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCccc----ccccc---ccccCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDY----NRLRP---LSYRGA   80 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~----~~~~~---~~~~~~   80 (168)
                      ..|.+||.|+||||||++++.+.+......+-.+..... .+.+. ...++.+||+||..+-    ..+..   .+++.+
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~-~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a  237 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVD-DYKSFVIADIPGLIEGASEGAGLGHRFLKHIERT  237 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeC-CCcEEEEEeCCCccCCCCccccHHHHHHHHhhhc
Confidence            468999999999999999999865432222211222221 22232 3345778999996431    12222   245679


Q ss_pred             cEEEEEEeCCChhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEE
Q 030961           81 DVFVLAFSLVSRASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYY  157 (168)
Q Consensus        81 ~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (168)
                      +++++|+|+++.++++.. +.|..++..+.   .+.|+++|+||+|+.....          +..+..+.++...+. ++
T Consensus       238 ~vlI~ViD~s~~~s~e~~-~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~----------~~~~~~~~~~~~~~~-~i  305 (335)
T PRK12299        238 RLLLHLVDIEAVDPVEDY-KTIRNELEKYSPELADKPRILVLNKIDLLDEEE----------EREKRAALELAALGG-PV  305 (335)
T ss_pred             CEEEEEEcCCCCCCHHHH-HHHHHHHHHhhhhcccCCeEEEEECcccCCchh----------HHHHHHHHHHHhcCC-CE
Confidence            999999999988888887 88988888765   3689999999999975533          333445555555665 89


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++++||
T Consensus       306 ~~iSAktg~GI  316 (335)
T PRK12299        306 FLISAVTGEGL  316 (335)
T ss_pred             EEEEcCCCCCH
Confidence            99999999985

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.90  E-value=1.2e-23  Score=136.10  Aligned_cols=155  Identities=26%  Similarity=0.487  Sum_probs=129.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      -.+||.++|++..|||||+-+++++.+.+.+..+.+..+ .+++.+.+..+.+.+||.+|++++..+.+..++++.+++|
T Consensus        19 Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlF   98 (205)
T KOG1673|consen   19 VSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAILF   98 (205)
T ss_pred             eEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEEEE
Confidence            478999999999999999999999998888888888888 6788999999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      +||+++++++..+ .+|+++....+...--++||+|.|+.-.-.     ++.......+++.++...++ +.|++|+-.+
T Consensus        99 mFDLt~r~TLnSi-~~WY~QAr~~NktAiPilvGTKyD~fi~lp-----~e~Q~~I~~qar~YAk~mnA-sL~F~Sts~s  171 (205)
T KOG1673|consen   99 MFDLTRRSTLNSI-KEWYRQARGLNKTAIPILVGTKYDLFIDLP-----PELQETISRQARKYAKVMNA-SLFFCSTSHS  171 (205)
T ss_pred             EEecCchHHHHHH-HHHHHHHhccCCccceEEeccchHhhhcCC-----HHHHHHHHHHHHHHHHHhCC-cEEEeecccc
Confidence            9999999999998 899999888774444466799999753211     00111344567888889998 8889998776


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      -||
T Consensus       172 INv  174 (205)
T KOG1673|consen  172 INV  174 (205)
T ss_pred             ccH
Confidence            654

>TIGR00436 era GTP-binding protein Era

Probab=99.90  E-value=4.6e-23  Score=150.02  Aligned_cols=142  Identities=18%  Similarity=0.136  Sum_probs=95.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeeceeEEEEECCeEEEEEEEeCCCCcccc-cc-------ccccccCC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYN-RL-------RPLSYRGA   80 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~~-------~~~~~~~~   80 (168)
                      +|+++|.||+|||||+|+|.+.++.. ...+..+......+...+ ..++.+|||||..... .+       ....+.++
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~-~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~a   80 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTG-ASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGV   80 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcC-CcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhC
Confidence            68999999999999999999987542 112222222222222222 3568889999975431 11       23456899


Q ss_pred             cEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           81 DVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        81 ~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      |++++|+|+++..+..   ..+...+..  .+.|+++|+||+|+....           ...+....++...+..+++++
T Consensus        81 Dvvl~VvD~~~~~~~~---~~i~~~l~~--~~~p~ilV~NK~Dl~~~~-----------~~~~~~~~~~~~~~~~~v~~i  144 (270)
T TIGR00436        81 DLILFVVDSDQWNGDG---EFVLTKLQN--LKRPVVLTRNKLDNKFKD-----------KLLPLIDKYAILEDFKDIVPI  144 (270)
T ss_pred             CEEEEEEECCCCCchH---HHHHHHHHh--cCCCEEEEEECeeCCCHH-----------HHHHHHHHHHhhcCCCceEEE
Confidence            9999999998876654   344455544  468999999999996432           223445555555555578999


Q ss_pred             cccCccCC
Q 030961          161 SSKTQQVC  168 (168)
Q Consensus       161 Sa~~~~~i  168 (168)
                      ||++|.|+
T Consensus       145 SA~~g~gi  152 (270)
T TIGR00436       145 SALTGDNT  152 (270)
T ss_pred             ecCCCCCH
Confidence            99999986

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.90  E-value=6.8e-23  Score=138.99  Aligned_cols=146  Identities=18%  Similarity=0.164  Sum_probs=97.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEEC-CeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAE-GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .|+++|.+|+|||||+++|....+.....++.+.... ..+..+ +....+.+|||||++.+..++...+..+|++++|+
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            5899999999999999999988776554444433332 222222 24577889999999998888888889999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH----h-CCcEEEEecc
Q 030961           88 SLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ----I-GASYYIECSS  162 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~-~~~~~~~~Sa  162 (168)
                      |+++......  ...+..+..  .+.|+++++||+|+......         ...+....+...    . ...+++++||
T Consensus        82 d~~~~~~~~~--~~~~~~~~~--~~~p~ivv~NK~Dl~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  148 (168)
T cd01887          82 AADDGVMPQT--IEAIKLAKA--ANVPFIVALNKIDKPNANPE---------RVKNELSELGLQGEDEWGGDVQIVPTSA  148 (168)
T ss_pred             ECCCCccHHH--HHHHHHHHH--cCCCEEEEEEceecccccHH---------HHHHHHHHhhccccccccCcCcEEEeec
Confidence            9987532221  112223333  46899999999998743210         011111111111    1 1237899999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       149 ~~~~gi  154 (168)
T cd01887         149 KTGEGI  154 (168)
T ss_pred             ccCCCH
Confidence            999985

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=99.90  E-value=2.1e-22  Score=133.27  Aligned_cols=144  Identities=40%  Similarity=0.744  Sum_probs=107.8

Q ss_pred             EECCCCCCHHHHHHHHhcCCC-CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCC
Q 030961           13 TVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVS   91 (168)
Q Consensus        13 vvG~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   91 (168)
                      ++|++|+|||||++++.+... .....++....+............+.+||+||...+...+...++.++++++|+|+++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   80 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTIIDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTD   80 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccchhheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcC
Confidence            589999999999999998876 4555555533335566666778899999999998887777788899999999999999


Q ss_pred             hhHHHHHHHhH--HHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHH-HHHHHHHhCCcEEEEecccCccCC
Q 030961           92 RASYENVLKKW--IPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQ-GEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus        92 ~~s~~~~~~~~--~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      +.++... ..|  ...........|+++++||+|+.....          ..... ......... .+++++|+..+.|+
T Consensus        81 ~~~~~~~-~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~~s~~~~~~i  148 (157)
T cd00882          81 RESFENV-KEWLLLILINKEGENIPIILVGNKIDLPEERV----------VSEEELAEQLAKELG-VPYFETSAKTGENV  148 (157)
T ss_pred             HHHHHHH-HHHHHHHHHhhccCCCcEEEEEeccccccccc----------hHHHHHHHHHHhhcC-CcEEEEecCCCCCh
Confidence            9998887 555  222222336899999999999976643          22221 333444444 48999999999875

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

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.90  E-value=1.1e-22  Score=139.72  Aligned_cols=151  Identities=17%  Similarity=0.084  Sum_probs=99.0

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEE-EEECCeEEEEEEEeCCCCcc----------ccc
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSAN-VVAEGTTVNLGLWDTAGQED----------YNR   71 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~D~~g~~~----------~~~   71 (168)
                      +++...++|+++|.+|+|||||++++.+..+...+.++.+.+.... ...++   .+.+|||||...          +..
T Consensus        13 ~~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~~   89 (179)
T TIGR03598        13 LPPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQK   89 (179)
T ss_pred             CCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHHH
Confidence            3457789999999999999999999998764444444443333222 22232   588899999532          222


Q ss_pred             ccccccc---CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHH
Q 030961           72 LRPLSYR---GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL  148 (168)
Q Consensus        72 ~~~~~~~---~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  148 (168)
                      +...+++   .++++++|+|++++.+....  .+...+..  .+.|+++++||+|+..+...        ....+++++.
T Consensus        90 ~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~--~~~~~~~~--~~~pviiv~nK~D~~~~~~~--------~~~~~~i~~~  157 (179)
T TIGR03598        90 LIEEYLEKRENLKGVVLLMDIRHPLKELDL--EMLEWLRE--RGIPVLIVLTKADKLKKSEL--------NKQLKKIKKA  157 (179)
T ss_pred             HHHHHHHhChhhcEEEEEecCCCCCCHHHH--HHHHHHHH--cCCCEEEEEECcccCCHHHH--------HHHHHHHHHH
Confidence            2233333   46799999999876555443  33444443  36899999999999754320        0234445555


Q ss_pred             HHHhCC-cEEEEecccCccCC
Q 030961          149 RKQIGA-SYYIECSSKTQQVC  168 (168)
Q Consensus       149 ~~~~~~-~~~~~~Sa~~~~~i  168 (168)
                      ....+. ..+|++||++|+||
T Consensus       158 l~~~~~~~~v~~~Sa~~g~gi  178 (179)
T TIGR03598       158 LKKDADDPSVQLFSSLKKTGI  178 (179)
T ss_pred             HhhccCCCceEEEECCCCCCC
Confidence            555432 27999999999996

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.

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.89  E-value=2.3e-22  Score=135.05  Aligned_cols=136  Identities=18%  Similarity=0.188  Sum_probs=96.2

Q ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCcccccc------ccccc--cCCcEE
Q 030961           13 TVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRL------RPLSY--RGADVF   83 (168)
Q Consensus        13 vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~------~~~~~--~~~~~~   83 (168)
                      ++|.+|+|||||++++.+..+.....+..+... ...+.+++  ..+.+|||||++.+...      +..++  ..+|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            589999999999999998764443334333333 33455554  46788999999876543      34444  489999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      ++|+|+.++....    .+...+.+  .++|+++++||+|+.....          +. .+...++..++. +++++||.
T Consensus        79 i~v~d~~~~~~~~----~~~~~~~~--~~~~~iiv~NK~Dl~~~~~----------~~-~~~~~~~~~~~~-~~~~iSa~  140 (158)
T cd01879          79 VNVVDATNLERNL----YLTLQLLE--LGLPVVVALNMIDEAEKRG----------IK-IDLDKLSELLGV-PVVPTSAR  140 (158)
T ss_pred             EEEeeCCcchhHH----HHHHHHHH--cCCCEEEEEehhhhccccc----------ch-hhHHHHHHhhCC-CeEEEEcc
Confidence            9999998865432    33334433  3689999999999975532          22 334567777787 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.|+
T Consensus       141 ~~~~~  145 (158)
T cd01879         141 KGEGI  145 (158)
T ss_pred             CCCCH
Confidence            99885

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.89  E-value=2.4e-22  Score=150.22  Aligned_cols=144  Identities=15%  Similarity=0.200  Sum_probs=94.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCC-CCC-ceeeceeEEEEECCeEEEEEEEeCCCCcc-cccccc-------c
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTD-YIP-TVFDNFSANVVAEGTTVNLGLWDTAGQED-YNRLRP-------L   75 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~-~~~-~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~-------~   75 (168)
                      .+..+|+++|.+|||||||+|+|++.++... ..+ +........+..++  .++.+|||||... +..+..       .
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~--~qi~~~DTpG~~~~~~~l~~~~~r~~~~  127 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKD--TQVILYDTPGIFEPKGSLEKAMVRCAWS  127 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCC--eEEEEEECCCcCCCcccHHHHHHHHHHH
Confidence            4567999999999999999999999876421 111 11111223344444  4678899999843 222221       2


Q ss_pred             cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC-C
Q 030961           76 SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG-A  154 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  154 (168)
                      .+.++|++++|+|..+  ++......|+..+...  +.|.++|+||+|+...             ...++.+++.... .
T Consensus       128 ~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~~--~~p~IlViNKiDl~~~-------------~~~~~~~~l~~~~~~  190 (339)
T PRK15494        128 SLHSADLVLLIIDSLK--SFDDITHNILDKLRSL--NIVPIFLLNKIDIESK-------------YLNDIKAFLTENHPD  190 (339)
T ss_pred             HhhhCCEEEEEEECCC--CCCHHHHHHHHHHHhc--CCCEEEEEEhhcCccc-------------cHHHHHHHHHhcCCC
Confidence            3678999999999765  3444434566666542  4677889999998532             1344555555443 2


Q ss_pred             cEEEEecccCccCC
Q 030961          155 SYYIECSSKTQQVC  168 (168)
Q Consensus       155 ~~~~~~Sa~~~~~i  168 (168)
                      ..+|++||++|.|+
T Consensus       191 ~~i~~iSAktg~gv  204 (339)
T PRK15494        191 SLLFPISALSGKNI  204 (339)
T ss_pred             cEEEEEeccCccCH
Confidence            47999999999985

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.89  E-value=3.1e-22  Score=148.69  Aligned_cols=147  Identities=18%  Similarity=0.148  Sum_probs=100.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCcccc----cccccc---ccC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYN----RLRPLS---YRG   79 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~----~~~~~~---~~~   79 (168)
                      ...|+++|.|+||||||++++.+.+......+..+.... ..+.+++ ..++.+||+||.....    .+...+   +..
T Consensus       157 ~adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhier  235 (329)
T TIGR02729       157 LADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIER  235 (329)
T ss_pred             cccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHHh
Confidence            346899999999999999999987532221111111111 1223332 3667889999974321    233333   457


Q ss_pred             CcEEEEEEeCCCh---hHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           80 ADVFVLAFSLVSR---ASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        80 ~~~~i~v~d~~~~---~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      ++++++|+|+++.   ++++.. ..|.+++..+.   .+.|++||+||+|+....           ...+..+.+++.++
T Consensus       236 ad~ll~VvD~s~~~~~~~~e~l-~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~-----------~~~~~~~~l~~~~~  303 (329)
T TIGR02729       236 TRVLLHLIDISPLDGRDPIEDY-EIIRNELKKYSPELAEKPRIVVLNKIDLLDEE-----------ELAELLKELKKALG  303 (329)
T ss_pred             hCEEEEEEcCccccccCHHHHH-HHHHHHHHHhhhhhccCCEEEEEeCccCCChH-----------HHHHHHHHHHHHcC
Confidence            9999999999876   567666 77877776654   478999999999996543           22344566666677


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      . +++++||++++||
T Consensus       304 ~-~vi~iSAktg~GI  317 (329)
T TIGR02729       304 K-PVFPISALTGEGL  317 (329)
T ss_pred             C-cEEEEEccCCcCH
Confidence            6 8999999999985

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.88  E-value=2.8e-22  Score=150.16  Aligned_cols=142  Identities=18%  Similarity=0.124  Sum_probs=96.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeec-eeEEEEECCeEEEEEEEeCCCCcc---------cccccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDN-FSANVVAEGTTVNLGLWDTAGQED---------YNRLRPLS   76 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~~   76 (168)
                      ..++|+++|.+|+|||||+|+|.+........+..+.+ ....+.+++ ...+.+|||+|..+         |...+ ..
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~-~~~i~l~DT~G~~~~l~~~lie~f~~tl-e~  265 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPD-GGEVLLTDTVGFIRDLPHELVAAFRATL-EE  265 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCC-CceEEEEecCcccccCCHHHHHHHHHHH-HH
Confidence            45899999999999999999999876432222211222 234455532 24678899999722         21111 23


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      +.++|++++|+|++++.+.+.. ..|...+.... .+.|+++|+||+|+.....          +     ..... ... 
T Consensus       266 ~~~ADlil~VvD~s~~~~~~~~-~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~----------v-----~~~~~-~~~-  327 (351)
T TIGR03156       266 VREADLLLHVVDASDPDREEQI-EAVEKVLEELGAEDIPQLLVYNKIDLLDEPR----------I-----ERLEE-GYP-  327 (351)
T ss_pred             HHhCCEEEEEEECCCCchHHHH-HHHHHHHHHhccCCCCEEEEEEeecCCChHh----------H-----HHHHh-CCC-
Confidence            6789999999999998887765 55666665544 4789999999999964321          1     11111 122 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|.||
T Consensus       328 ~~i~iSAktg~GI  340 (351)
T TIGR03156       328 EAVFVSAKTGEGL  340 (351)
T ss_pred             CEEEEEccCCCCH
Confidence            6899999999985

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=99.88  E-value=3.1e-22  Score=133.00  Aligned_cols=140  Identities=21%  Similarity=0.222  Sum_probs=96.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccc------cccc--cC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLR------PLSY--RG   79 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~------~~~~--~~   79 (168)
                      ++|+++|.||+|||||+|+|.+.+......|..+.+.. ..+...+  ..+.++|+||...+....      ..++  ..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~--~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~   78 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD--QQVELVDLPGIYSLSSKSEEERVARDYLLSEK   78 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT--EEEEEEE----SSSSSSSHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC--ceEEEEECCCcccCCCCCcHHHHHHHHHhhcC
Confidence            58999999999999999999998865555555555543 3455566  556669999976554332      2222  47


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEE
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIE  159 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      .|++++|+|+++.+   .. -++..++.+  -++|++++.||+|+.....          +. .+...+.+.+++ ++++
T Consensus        79 ~D~ii~VvDa~~l~---r~-l~l~~ql~e--~g~P~vvvlN~~D~a~~~g----------~~-id~~~Ls~~Lg~-pvi~  140 (156)
T PF02421_consen   79 PDLIIVVVDATNLE---RN-LYLTLQLLE--LGIPVVVVLNKMDEAERKG----------IE-IDAEKLSERLGV-PVIP  140 (156)
T ss_dssp             SSEEEEEEEGGGHH---HH-HHHHHHHHH--TTSSEEEEEETHHHHHHTT----------EE-E-HHHHHHHHTS--EEE
T ss_pred             CCEEEEECCCCCHH---HH-HHHHHHHHH--cCCCEEEEEeCHHHHHHcC----------CE-ECHHHHHHHhCC-CEEE
Confidence            99999999998744   32 234444444  3699999999999987654          22 246778888998 9999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++++|+
T Consensus       141 ~sa~~~~g~  149 (156)
T PF02421_consen  141 VSARTGEGI  149 (156)
T ss_dssp             EBTTTTBTH
T ss_pred             EEeCCCcCH
Confidence            999999984

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 ....

>PRK04213 GTP-binding protein; Provisional

Probab=99.88  E-value=1.5e-22  Score=141.38  Aligned_cols=143  Identities=20%  Similarity=0.141  Sum_probs=92.0

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCC-----------Cccccccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG-----------QEDYNRLR   73 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g-----------~~~~~~~~   73 (168)
                      +...++|+++|.+|+|||||+++|.+..+.....+..+.. .......    .+.+|||||           ++.++.++
T Consensus         6 ~~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t~~-~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (201)
T PRK04213          6 PDRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVTRK-PNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEI   80 (201)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCceeeC-ceEEeec----ceEEEeCCccccccccCHHHHHHHHHHH
Confidence            3467899999999999999999999887655444543322 1222222    578899999           34555544


Q ss_pred             ccccc----CCcEEEEEEeCCChhHHH---------HHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcc
Q 030961           74 PLSYR----GADVFVLAFSLVSRASYE---------NVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPV  140 (168)
Q Consensus        74 ~~~~~----~~~~~i~v~d~~~~~s~~---------~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~  140 (168)
                      ..++.    .++++++|+|..+...+.         .....+...+..  .++|+++|+||+|+....            
T Consensus        81 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~p~iiv~NK~Dl~~~~------------  146 (201)
T PRK04213         81 VRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRE--LGIPPIVAVNKMDKIKNR------------  146 (201)
T ss_pred             HHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHH--cCCCeEEEEECccccCcH------------
Confidence            44443    467888888875432220         000122333332  479999999999986432            


Q ss_pred             cHHHHHHHHHHhCC--------cEEEEecccCccCC
Q 030961          141 TTAQGEELRKQIGA--------SYYIECSSKTQQVC  168 (168)
Q Consensus       141 ~~~~~~~~~~~~~~--------~~~~~~Sa~~~~~i  168 (168)
                       .+...+++..++.        .+++++||++| ||
T Consensus       147 -~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi  180 (201)
T PRK04213        147 -DEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GI  180 (201)
T ss_pred             -HHHHHHHHHHhcCCccccccCCcEEEEecccC-CH
Confidence             2344555555554        14799999999 85

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.88  E-value=5.9e-22  Score=154.13  Aligned_cols=141  Identities=18%  Similarity=0.209  Sum_probs=95.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeece-eEEEEECCeEEEEEEEeCCCCcc--------cccccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQED--------YNRLRPLS   76 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~   76 (168)
                      ..++|+++|.+|||||||+|+|++.... ....+..+.+. .......+.  .+.+|||||.+.        +...+..+
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~  114 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGR--RFTVVDTGGWEPDAKGLQASVAEQAEVA  114 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCc--EEEEEeCCCcCCcchhHHHHHHHHHHHH
Confidence            4579999999999999999999987642 22223222222 333444444  467899999763        22234456


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcE
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASY  156 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (168)
                      ++.+|++++|+|++++.++..  ..+...+..  .+.|+++|+||+|+....             .+....+.  .+...
T Consensus       115 ~~~aD~il~VvD~~~~~s~~~--~~i~~~l~~--~~~piilV~NK~Dl~~~~-------------~~~~~~~~--~g~~~  175 (472)
T PRK03003        115 MRTADAVLFVVDATVGATATD--EAVARVLRR--SGKPVILAANKVDDERGE-------------ADAAALWS--LGLGE  175 (472)
T ss_pred             HHhCCEEEEEEECCCCCCHHH--HHHHHHHHH--cCCCEEEEEECccCCccc-------------hhhHHHHh--cCCCC
Confidence            789999999999998876653  456666654  479999999999985421             11222222  34334


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      .+++||++|.||
T Consensus       176 ~~~iSA~~g~gi  187 (472)
T PRK03003        176 PHPVSALHGRGV  187 (472)
T ss_pred             eEEEEcCCCCCc
Confidence            579999999986

>cd01894 EngA1 EngA1 subfamily

Probab=99.87  E-value=1.3e-21  Score=131.15  Aligned_cols=136  Identities=21%  Similarity=0.170  Sum_probs=91.4

Q ss_pred             EEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccc--------cccccccCCc
Q 030961           12 VTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR--------LRPLSYRGAD   81 (168)
Q Consensus        12 ~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~~~~~   81 (168)
                      +++|.+|+|||||++++++...  .....++...........++  ..+.+|||||...+..        .+...++.+|
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d   78 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGG--REFILIDTGGIEPDDEGISKEIREQAELAIEEAD   78 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECC--eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCC
Confidence            4799999999999999998752  22222222222223333433  5678899999887544        2334577899


Q ss_pred             EEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           82 VFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ++++|+|..++.+...  ..+...+.+  .+.|+++++||+|+.....          .     .......+..+++++|
T Consensus        79 ~ii~v~d~~~~~~~~~--~~~~~~~~~--~~~piiiv~nK~D~~~~~~----------~-----~~~~~~~~~~~~~~~S  139 (157)
T cd01894          79 VILFVVDGREGLTPAD--EEIAKYLRK--SKKPVILVVNKVDNIKEED----------E-----AAEFYSLGFGEPIPIS  139 (157)
T ss_pred             EEEEEEeccccCCccH--HHHHHHHHh--cCCCEEEEEECcccCChHH----------H-----HHHHHhcCCCCeEEEe
Confidence            9999999987655443  234444444  3589999999999976532          1     2223345554789999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|.|+
T Consensus       140 a~~~~gv  146 (157)
T cd01894         140 AEHGRGI  146 (157)
T ss_pred             cccCCCH
Confidence            9999985

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.87  E-value=9.9e-22  Score=152.90  Aligned_cols=148  Identities=22%  Similarity=0.210  Sum_probs=98.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeeceeEEEEECCeEEEEEEEeCCCCcc----------ccccc-
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED----------YNRLR-   73 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~~~-   73 (168)
                      ..++|+++|.+|+|||||+++|++..+.  ....++..+.....+..++..+  .+|||||...          +..+. 
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~~--~l~DTaG~~~~~~~~~~~e~~~~~~~  287 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKTW--RFVDTAGLRRRVKQASGHEYYASLRT  287 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCEEE--EEEECCCccccccccchHHHHHHHHH
Confidence            4689999999999999999999988642  2222333333345556666554  6799999532          22221 


Q ss_pred             cccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           74 PLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        74 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      ...++.+|++++|+|++++.++...  .++..+..  .+.|+++|+||+|+......        .....+.........
T Consensus       288 ~~~i~~ad~vilV~Da~~~~s~~~~--~~~~~~~~--~~~piIiV~NK~Dl~~~~~~--------~~~~~~i~~~l~~~~  355 (472)
T PRK03003        288 HAAIEAAEVAVVLIDASEPISEQDQ--RVLSMVIE--AGRALVLAFNKWDLVDEDRR--------YYLEREIDRELAQVP  355 (472)
T ss_pred             HHHHhcCCEEEEEEeCCCCCCHHHH--HHHHHHHH--cCCCEEEEEECcccCChhHH--------HHHHHHHHHhcccCC
Confidence            2346789999999999999888775  35555544  47899999999999653210        011122222222223


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      ..+++++||++|.||
T Consensus       356 ~~~~~~~SAk~g~gv  370 (472)
T PRK03003        356 WAPRVNISAKTGRAV  370 (472)
T ss_pred             CCCEEEEECCCCCCH
Confidence            348899999999986

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.87  E-value=2.3e-21  Score=123.46  Aligned_cols=145  Identities=17%  Similarity=0.241  Sum_probs=114.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .++++|+++|..++||||++.+|.-+.. ....||.+....   .+..+.+.+.+||.+|++..+++|.+++.+.-++||
T Consensus        15 ~KE~~ilmlGLd~aGKTtiLyKLkl~~~-~~~ipTvGFnve---tVtykN~kfNvwdvGGqd~iRplWrhYy~gtqglIF   90 (180)
T KOG0071|consen   15 NKEMRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVGFNVE---TVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   90 (180)
T ss_pred             cccceEEEEecccCCceehhhHHhcCCC-cccccccceeEE---EEEeeeeEEeeeeccCchhhhHHHHhhccCCceEEE
Confidence            4689999999999999999999987643 334566654432   344456778889999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH-----HHhCCcEEEE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR-----KQIGASYYIE  159 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~  159 (168)
                      |+|.++++..++++.++...+.+.- .+.|++|.+||-|+....            ...+.+.+.     +...+ ...+
T Consensus        91 V~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~------------~pqei~d~leLe~~r~~~W-~vqp  157 (180)
T KOG0071|consen   91 VVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAM------------KPQEIQDKLELERIRDRNW-YVQP  157 (180)
T ss_pred             EEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCccccccc------------CHHHHHHHhccccccCCcc-Eeec
Confidence            9999999999999888888887765 689999999999999874            334433333     33344 4577


Q ss_pred             ecccCccC
Q 030961          160 CSSKTQQV  167 (168)
Q Consensus       160 ~Sa~~~~~  167 (168)
                      +||.+|+|
T Consensus       158 ~~a~~gdg  165 (180)
T KOG0071|consen  158 SCALSGDG  165 (180)
T ss_pred             cccccchh
Confidence            99999886

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.87  E-value=1e-20  Score=122.29  Aligned_cols=146  Identities=27%  Similarity=0.350  Sum_probs=121.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEE-CCeEEEEEEEeCCCCccc-cccccccccCCcE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQEDY-NRLRPLSYRGADV   82 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~-~~~~~~~~~~~~~   82 (168)
                      +..|++++|..++|||+++.+++.+.-  ...+.+|+.+.|...+.. .+..-+++++||.|.... ..+-.+++.-+|+
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            578999999999999999999886543  356778888888665544 456678999999998777 4566667888999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      +++||+..|++||+.+ +-+.+.+.+..  ..+|+++++||+|+.+++.          +..+-++.||.+-.. ..+++
T Consensus        88 fVLVYs~~d~eSf~rv-~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~----------vd~d~A~~Wa~rEkv-kl~eV  155 (198)
T KOG3883|consen   88 FVLVYSPMDPESFQRV-ELLKKEIDKHKDKKEVPIVVLANKRDRAEPRE----------VDMDVAQIWAKREKV-KLWEV  155 (198)
T ss_pred             EEEEecCCCHHHHHHH-HHHHHHHhhccccccccEEEEechhhcccchh----------cCHHHHHHHHhhhhe-eEEEE
Confidence            9999999999999987 66666666654  4799999999999988776          899999999998887 89999


Q ss_pred             cccC
Q 030961          161 SSKT  164 (168)
Q Consensus       161 Sa~~  164 (168)
                      +|..
T Consensus       156 ta~d  159 (198)
T KOG3883|consen  156 TAMD  159 (198)
T ss_pred             Eecc
Confidence            9875

>cd04163 Era Era subfamily

Probab=99.87  E-value=2.9e-21  Score=130.27  Aligned_cols=147  Identities=16%  Similarity=0.092  Sum_probs=97.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccc--------cccccccC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR--------LRPLSYRG   79 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~~~   79 (168)
                      ..+|+++|.+|+|||||++++.+..+........................+.+|||||......        .....+..
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~   82 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKD   82 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEEEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHh
Confidence            5789999999999999999999876532211111111222222333456788899999754322        22334678


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEE
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIE  159 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      +|++++|+|++++.+..  ...+...+..  .+.|+++++||+|+.....          ...+....+....+..++++
T Consensus        83 ~d~i~~v~d~~~~~~~~--~~~~~~~~~~--~~~~~iiv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~  148 (168)
T cd04163          83 VDLVLFVVDASEPIGEG--DEFILELLKK--SKTPVILVLNKIDLVKDKE----------DLLPLLEKLKELGPFAEIFP  148 (168)
T ss_pred             CCEEEEEEECCCccCch--HHHHHHHHHH--hCCCEEEEEEchhccccHH----------HHHHHHHHHHhccCCCceEE
Confidence            99999999998872221  1344444544  2589999999999974332          33444555555555558999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +|+++++|+
T Consensus       149 ~s~~~~~~~  157 (168)
T cd04163         149 ISALKGENV  157 (168)
T ss_pred             EEeccCCCh
Confidence            999999885

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.87  E-value=4.3e-21  Score=151.66  Aligned_cols=145  Identities=18%  Similarity=0.228  Sum_probs=101.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      .+..+|+++|++++|||||+++|.+..+.....+.++.... ..+..++. ..+.+|||||++.|..++...+..+|+++
T Consensus        85 ~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDiaI  163 (587)
T TIGR00487        85 ERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIVV  163 (587)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEEE
Confidence            35689999999999999999999988776554444444432 23333332 26788999999999999988899999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH-------hC-CcE
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ-------IG-ASY  156 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~-~~~  156 (168)
                      +|+|+++...-+.. + .+..+..  .++|+++++||+|+....             .++.......       ++ ..+
T Consensus       164 LVVda~dgv~~qT~-e-~i~~~~~--~~vPiIVviNKiDl~~~~-------------~e~v~~~L~~~g~~~~~~~~~~~  226 (587)
T TIGR00487       164 LVVAADDGVMPQTI-E-AISHAKA--ANVPIIVAINKIDKPEAN-------------PDRVKQELSEYGLVPEDWGGDTI  226 (587)
T ss_pred             EEEECCCCCCHhHH-H-HHHHHHH--cCCCEEEEEECcccccCC-------------HHHHHHHHHHhhhhHHhcCCCce
Confidence            99998875432221 2 2222222  468999999999986432             1222222222       22 137


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      ++++||++|+||
T Consensus       227 ~v~iSAktGeGI  238 (587)
T TIGR00487       227 FVPVSALTGDGI  238 (587)
T ss_pred             EEEEECCCCCCh
Confidence            999999999986

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.

>COG1159 Era GTPase [General function prediction only]

Probab=99.87  E-value=1.4e-21  Score=139.65  Aligned_cols=148  Identities=16%  Similarity=0.119  Sum_probs=106.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc--------ccccccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY--------NRLRPLSYR   78 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--------~~~~~~~~~   78 (168)
                      +.--++++|.||+|||||+|++++.+..-......+++......+.....++.++||||-..-        .......+.
T Consensus         5 ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~   84 (298)
T COG1159           5 KSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKPKHALGELMNKAARSALK   84 (298)
T ss_pred             eEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhc
Confidence            455789999999999999999999987544344444444444444444788899999995432        223344577


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      ++|+++||+|+.++..-..  +..++.+++  .+.|++++.||+|...+..          ........+.........+
T Consensus        85 dvDlilfvvd~~~~~~~~d--~~il~~lk~--~~~pvil~iNKID~~~~~~----------~l~~~~~~~~~~~~f~~iv  150 (298)
T COG1159          85 DVDLILFVVDADEGWGPGD--EFILEQLKK--TKTPVILVVNKIDKVKPKT----------VLLKLIAFLKKLLPFKEIV  150 (298)
T ss_pred             cCcEEEEEEeccccCCccH--HHHHHHHhh--cCCCeEEEEEccccCCcHH----------HHHHHHHHHHhhCCcceEE
Confidence            9999999999988766544  566666666  4689999999999987753          2233344444555556789


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|.|+
T Consensus       151 piSA~~g~n~  160 (298)
T COG1159         151 PISALKGDNV  160 (298)
T ss_pred             EeeccccCCH
Confidence            9999999985

>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=1.7e-21  Score=132.99  Aligned_cols=143  Identities=24%  Similarity=0.243  Sum_probs=92.4

Q ss_pred             EECCCCCCHHHHHHHHhcCCCC-CCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc----cccc---cccccCCcEEE
Q 030961           13 TVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY----NRLR---PLSYRGADVFV   84 (168)
Q Consensus        13 vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~~~~---~~~~~~~~~~i   84 (168)
                      ++|++|||||||++++.+.... ..+..+........+.++ ....+.+|||||....    ..++   ...++.+++++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii   79 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVP-DGARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAIL   79 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcC-CCCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEE
Confidence            5899999999999999987642 222122111112223333 1456788999997432    2222   22367899999


Q ss_pred             EEEeCCCh------hHHHHHHHhHHHHHchhC--------CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH
Q 030961           85 LAFSLVSR------ASYENVLKKWIPELQHYS--------PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK  150 (168)
Q Consensus        85 ~v~d~~~~------~s~~~~~~~~~~~l~~~~--------~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (168)
                      +|+|+.++      .++... ..|...+....        .+.|+++++||+|+.....          ...........
T Consensus        80 ~v~d~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~----------~~~~~~~~~~~  148 (176)
T cd01881          80 HVVDASEDDDIGGVDPLEDY-EILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEE----------LEEELVRELAL  148 (176)
T ss_pred             EEEeccCCccccccCHHHHH-HHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhH----------HHHHHHHHHhc
Confidence            99999988      466665 56666665432        3689999999999976543          22222233333


Q ss_pred             HhCCcEEEEecccCccCC
Q 030961          151 QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       151 ~~~~~~~~~~Sa~~~~~i  168 (168)
                      ..+. +++++||+++.|+
T Consensus       149 ~~~~-~~~~~Sa~~~~gl  165 (176)
T cd01881         149 EEGA-EVVPISAKTEEGL  165 (176)
T ss_pred             CCCC-CEEEEehhhhcCH
Confidence            3444 7999999999885

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

>PRK00089 era GTPase Era; Reviewed

Probab=99.87  E-value=4.2e-21  Score=141.27  Aligned_cols=148  Identities=18%  Similarity=0.154  Sum_probs=97.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccc--------cccccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYN--------RLRPLSYR   78 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--------~~~~~~~~   78 (168)
                      +.-.|+++|.||||||||+|+|++.++........++.............++.+|||||.....        ......+.
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~   83 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLK   83 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEcCCceEEEEECCCCCCchhHHHHHHHHHHHHHHh
Confidence            3556999999999999999999998764322111111221111122233788899999975432        12233467


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      ++|++++|+|++++.+-..  ..+...+..  .+.|+++|+||+|+.....          ...+....+....+...++
T Consensus        84 ~~D~il~vvd~~~~~~~~~--~~i~~~l~~--~~~pvilVlNKiDl~~~~~----------~l~~~~~~l~~~~~~~~i~  149 (292)
T PRK00089         84 DVDLVLFVVDADEKIGPGD--EFILEKLKK--VKTPVILVLNKIDLVKDKE----------ELLPLLEELSELMDFAEIV  149 (292)
T ss_pred             cCCEEEEEEeCCCCCChhH--HHHHHHHhh--cCCCEEEEEECCcCCCCHH----------HHHHHHHHHHhhCCCCeEE
Confidence            8999999999988433221  344444443  3689999999999974432          3345566666666656899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||+++.|+
T Consensus       150 ~iSA~~~~gv  159 (292)
T PRK00089        150 PISALKGDNV  159 (292)
T ss_pred             EecCCCCCCH
Confidence            9999999885

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.87  E-value=3.3e-21  Score=134.76  Aligned_cols=117  Identities=17%  Similarity=0.230  Sum_probs=88.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCccccccccccccCC-cEEEEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA-DVFVLAF   87 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~-~~~i~v~   87 (168)
                      +|+++|+++||||||+++|....+...+.++. ..... .....+....+.+||+||++.++..+..+++.+ +++|+|+
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~~-~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~Vv   80 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSIE-PNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVV   80 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcEe-ecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEE
Confidence            68999999999999999999987755543332 22221 122224457788999999999988888888998 9999999


Q ss_pred             eCCCh-hHHHHHHHhHHHHHchh---CCCCcEEEEeeCCccccc
Q 030961           88 SLVSR-ASYENVLKKWIPELQHY---SPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        88 d~~~~-~s~~~~~~~~~~~l~~~---~~~~p~ivv~nK~D~~~~  127 (168)
                      |+.+. .++..+...++..+...   .+.+|+++++||+|+...
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            99987 67777645554444322   258999999999998754

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=99.87  E-value=3.3e-21  Score=152.89  Aligned_cols=145  Identities=17%  Similarity=0.131  Sum_probs=103.7

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC-------CCCCCCCc------eeecee-EE--EEE---CCeEEEEEEEeCCCCcc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNK-------FPTDYIPT------VFDNFS-AN--VVA---EGTTVNLGLWDTAGQED   68 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~-------~~~~~~~~------~~~~~~-~~--~~~---~~~~~~~~i~D~~g~~~   68 (168)
                      .-+++++|+.++|||||+++|+...       +...+..+      .+.++. ..  +..   ++..+.+.+|||||+..
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            5589999999999999999998642       11111111      122221 11  222   46678999999999999


Q ss_pred             ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHH
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL  148 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  148 (168)
                      |...+..+++.+|++++|+|++++.+.+.. ..|...+.   .+.|+++++||+|+....            ..+...++
T Consensus        83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~-~~~~~~~~---~~ipiIiViNKiDl~~~~------------~~~~~~el  146 (595)
T TIGR01393        83 FSYEVSRSLAACEGALLLVDAAQGIEAQTL-ANVYLALE---NDLEIIPVINKIDLPSAD------------PERVKKEI  146 (595)
T ss_pred             HHHHHHHHHHhCCEEEEEecCCCCCCHhHH-HHHHHHHH---cCCCEEEEEECcCCCccC------------HHHHHHHH
Confidence            998889999999999999999998777665 45554443   368999999999986432            12233455


Q ss_pred             HHHhCCc--EEEEecccCccCC
Q 030961          149 RKQIGAS--YYIECSSKTQQVC  168 (168)
Q Consensus       149 ~~~~~~~--~~~~~Sa~~~~~i  168 (168)
                      ...++..  .++++||++|.||
T Consensus       147 ~~~lg~~~~~vi~vSAktG~GI  168 (595)
T TIGR01393       147 EEVIGLDASEAILASAKTGIGI  168 (595)
T ss_pred             HHHhCCCcceEEEeeccCCCCH
Confidence            5555552  4899999999986

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.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.87  E-value=3.2e-21  Score=129.13  Aligned_cols=134  Identities=22%  Similarity=0.242  Sum_probs=92.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeece-eEEEEECCeEEEEEEEeCCCCcccccc--------cccccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRL--------RPLSYR   78 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~~   78 (168)
                      ++|+++|++|+|||||++++.+..... ...+..+..+ ......+  ...+.+|||||...+...        ....+.
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~   79 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIG--GIPVRLIDTAGIRETEDEIEKIGIERAREAIE   79 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeC--CEEEEEEECCCcCCCcchHHHHHHHHHHHHHh
Confidence            589999999999999999999876421 2122222222 2233333  456788999997665322        123567


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      .+|++++|+|++++.+.... ..+..     ..+.|+++++||+|+.....          .       ...... .+++
T Consensus        80 ~~~~~v~v~d~~~~~~~~~~-~~~~~-----~~~~~vi~v~nK~D~~~~~~----------~-------~~~~~~-~~~~  135 (157)
T cd04164          80 EADLVLFVIDASRGLDEEDL-EILEL-----PADKPIIVVLNKSDLLPDSE----------L-------LSLLAG-KPII  135 (157)
T ss_pred             hCCEEEEEEECCCCCCHHHH-HHHHh-----hcCCCEEEEEEchhcCCccc----------c-------ccccCC-CceE
Confidence            89999999999988777664 33222     34789999999999976543          1       223333 3899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||+++.|+
T Consensus       136 ~~Sa~~~~~v  145 (157)
T cd04164         136 AISAKTGEGL  145 (157)
T ss_pred             EEECCCCCCH
Confidence            9999999885

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.87  E-value=5e-21  Score=147.18  Aligned_cols=134  Identities=22%  Similarity=0.213  Sum_probs=96.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccc--------ccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLR--------PLS   76 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~--------~~~   76 (168)
                      ..++|+++|.+|+|||||+|+|++...  ...+.++..+.....+.+++.  .+.+|||||...+...+        ..+
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g~--~v~l~DTaG~~~~~~~ie~~gi~~~~~~  279 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNGI--LIKLLDTAGIREHADFVERLGIEKSFKA  279 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECCE--EEEEeeCCCcccchhHHHHHHHHHHHHH
Confidence            468999999999999999999998653  344434433333555666654  45789999986654322        346


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcE
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASY  156 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (168)
                      ++++|++++|+|++++.+++..   |+..+..  .+.|+++|+||+|+... .               ...++..++. +
T Consensus       280 ~~~aD~il~V~D~s~~~s~~~~---~l~~~~~--~~~piIlV~NK~Dl~~~-~---------------~~~~~~~~~~-~  337 (442)
T TIGR00450       280 IKQADLVIYVLDASQPLTKDDF---LIIDLNK--SKKPFILVLNKIDLKIN-S---------------LEFFVSSKVL-N  337 (442)
T ss_pred             HhhCCEEEEEEECCCCCChhHH---HHHHHhh--CCCCEEEEEECccCCCc-c---------------hhhhhhhcCC-c
Confidence            7899999999999998887652   5555543  46899999999998532 1               1234555666 7


Q ss_pred             EEEecccC
Q 030961          157 YIECSSKT  164 (168)
Q Consensus       157 ~~~~Sa~~  164 (168)
                      ++++||++
T Consensus       338 ~~~vSak~  345 (442)
T TIGR00450       338 SSNLSAKQ  345 (442)
T ss_pred             eEEEEEec
Confidence            89999998

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.

>cd01895 EngA2 EngA2 subfamily

Probab=99.86  E-value=9.8e-21  Score=128.61  Aligned_cols=145  Identities=20%  Similarity=0.231  Sum_probs=92.8

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeec-eeEEEEECCeEEEEEEEeCCCCcccccc-----------cc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDN-FSANVVAEGTTVNLGLWDTAGQEDYNRL-----------RP   74 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----------~~   74 (168)
                      .++|+++|.+|+|||||++++++..... ...+..+.. ....+..++.  .+.+|||||.......           ..
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDGK--KYTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECCe--eEEEEECCCCccccchhccHHHHHHHHHH
Confidence            5789999999999999999999875321 111222111 2233444444  4567999997543211           11


Q ss_pred             ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHH-HHHHHHHhC
Q 030961           75 LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQ-GEELRKQIG  153 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  153 (168)
                      ..+..+|++++|+|++++.+....  .+...+..  .+.|+++++||+|+.....          ...++ ...+.+..+
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~--~~~~~~~~--~~~~~iiv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~  145 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDL--RIAGLILE--EGKALVIVVNKWDLVEKDS----------KTMKEFKKEIRRKLP  145 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHH--HHHHHHHh--cCCCEEEEEeccccCCccH----------HHHHHHHHHHHhhcc
Confidence            235689999999999998776553  33333333  3689999999999976531          11121 222323332


Q ss_pred             ---CcEEEEecccCccCC
Q 030961          154 ---ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ---~~~~~~~Sa~~~~~i  168 (168)
                         ..+++++||++++|+
T Consensus       146 ~~~~~~~~~~Sa~~~~~i  163 (174)
T cd01895         146 FLDYAPIVFISALTGQGV  163 (174)
T ss_pred             cccCCceEEEeccCCCCH
Confidence               348999999999985

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.86  E-value=3.2e-21  Score=132.99  Aligned_cols=147  Identities=16%  Similarity=0.063  Sum_probs=99.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCcee--------------ecee-EEEEECCeEEEEEEEeCCCCcccccccc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVF--------------DNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRP   74 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~--------------~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~   74 (168)
                      +|+++|.+|+|||||++++++.........+..              .... ...........+.+|||||...+...+.
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~   80 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVI   80 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHH
Confidence            489999999999999999998765443222111              0110 0111222346788899999988888888


Q ss_pred             ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh--
Q 030961           75 LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI--  152 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  152 (168)
                      ..++.+|++++|+|+.++.+...  ..++..+..  .+.|+++++||+|+..+...        ....++.++.....  
T Consensus        81 ~~~~~~d~~i~v~d~~~~~~~~~--~~~~~~~~~--~~~~i~iv~nK~D~~~~~~~--------~~~~~~~~~~~~~~~~  148 (189)
T cd00881          81 RGLSVSDGAILVVDANEGVQPQT--REHLRIARE--GGLPIIVAINKIDRVGEEDL--------EEVLREIKELLGLIGF  148 (189)
T ss_pred             HHHHhcCEEEEEEECCCCCcHHH--HHHHHHHHH--CCCCeEEEEECCCCcchhcH--------HHHHHHHHHHHccccc
Confidence            88899999999999987665443  344444444  57999999999999763210        01223333333332  


Q ss_pred             -----------CCcEEEEecccCccCC
Q 030961          153 -----------GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 -----------~~~~~~~~Sa~~~~~i  168 (168)
                                 ...+++++||++|.|+
T Consensus       149 ~~~~~~~~~~~~~~~v~~~Sa~~g~gi  175 (189)
T cd00881         149 ISTKEEGTRNGLLVPIVPGSALTGIGV  175 (189)
T ss_pred             cchhhhhcccCCcceEEEEecccCcCH
Confidence                       2348999999999985

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.86  E-value=1.4e-20  Score=145.27  Aligned_cols=146  Identities=23%  Similarity=0.241  Sum_probs=97.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccc----------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLR----------   73 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~----------   73 (168)
                      ...++++++|.+++|||||+++|++....  ....++..+.....+..++.  .+.+|||||........          
T Consensus       170 ~~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~liDT~G~~~~~~~~~~~e~~~~~~  247 (429)
T TIGR03594       170 DGPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGK--KYLLIDTAGIRRKGKVTEGVEKYSVLR  247 (429)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECCc--EEEEEECCCccccccchhhHHHHHHHH
Confidence            34689999999999999999999987532  22223333333344445554  56779999976554332          


Q ss_pred             -cccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHH-HHHH-
Q 030961           74 -PLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGE-ELRK-  150 (168)
Q Consensus        74 -~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~-  150 (168)
                       ...++.+|++++|+|++++.+....  .+...+..  .+.|+++|+||+|+.....           ..++.. .+.. 
T Consensus       248 ~~~~~~~ad~~ilV~D~~~~~~~~~~--~~~~~~~~--~~~~iiiv~NK~Dl~~~~~-----------~~~~~~~~~~~~  312 (429)
T TIGR03594       248 TLKAIERADVVLLVLDATEGITEQDL--RIAGLILE--AGKALVIVVNKWDLVKDEK-----------TREEFKKELRRK  312 (429)
T ss_pred             HHHHHHhCCEEEEEEECCCCccHHHH--HHHHHHHH--cCCcEEEEEECcccCCCHH-----------HHHHHHHHHHHh
Confidence             2356789999999999988777663  44444444  4689999999999972211           112221 2222 


Q ss_pred             --HhCCcEEEEecccCccCC
Q 030961          151 --QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       151 --~~~~~~~~~~Sa~~~~~i  168 (168)
                        ..+..+++++||++|.||
T Consensus       313 ~~~~~~~~vi~~SA~~g~~v  332 (429)
T TIGR03594       313 LPFLDFAPIVFISALTGQGV  332 (429)
T ss_pred             cccCCCCceEEEeCCCCCCH
Confidence              223348999999999985

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.86  E-value=1.2e-20  Score=143.82  Aligned_cols=142  Identities=21%  Similarity=0.167  Sum_probs=97.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCccc----ccccccc---ccCCc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDY----NRLRPLS---YRGAD   81 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~----~~~~~~~---~~~~~   81 (168)
                      .|+++|.|+||||||++++.+.+......+-.+..... .+.++ ....+.+||+||...-    ..+...+   +..++
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~-~~~~~~laD~PGliega~~~~gLg~~fLrhier~~  238 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETD-DGRSFVMADIPGLIEGASEGVGLGHQFLRHIERTR  238 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEe-CCceEEEEECCCCcccccccchHHHHHHHHHhhCC
Confidence            78999999999999999999876432211211111111 12222 1356788999996431    2233333   45699


Q ss_pred             EEEEEEeCCCh---hHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           82 VFVLAFSLVSR---ASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        82 ~~i~v~d~~~~---~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      ++++|+|+++.   +.++.. ..|..++..+.   .+.|++||+||+|+...              .+....++..++. 
T Consensus       239 llI~VID~s~~~~~dp~e~~-~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~--------------~e~l~~l~~~l~~-  302 (424)
T PRK12297        239 VIVHVIDMSGSEGRDPIEDY-EKINKELKLYNPRLLERPQIVVANKMDLPEA--------------EENLEEFKEKLGP-  302 (424)
T ss_pred             EEEEEEeCCccccCChHHHH-HHHHHHHhhhchhccCCcEEEEEeCCCCcCC--------------HHHHHHHHHHhCC-
Confidence            99999999864   566665 67777777764   36899999999998322              2445666776775 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++++|+
T Consensus       303 ~i~~iSA~tgeGI  315 (424)
T PRK12297        303 KVFPISALTGQGL  315 (424)
T ss_pred             cEEEEeCCCCCCH
Confidence            8999999999985

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.86  E-value=4.6e-21  Score=148.00  Aligned_cols=135  Identities=24%  Similarity=0.258  Sum_probs=95.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccc--------cccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRL--------RPLS   76 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~   76 (168)
                      ..++|+++|.+|+|||||+|+|.+...  ......+..+.....+.+++  ..+.+|||||...+...        ....
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~i~l~DT~G~~~~~~~ie~~gi~~~~~~  291 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG--IPLRLIDTAGIRETDDEVEKIGIERSREA  291 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECC--eEEEEEeCCCCCCCccHHHHHHHHHHHHH
Confidence            458999999999999999999998764  23323333333344555655  45678999998765432        2235


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcE
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASY  156 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (168)
                      ++++|++++|+|++++.+++.. ..|..     ..+.|+++|+||+|+.....          ..        ...+. +
T Consensus       292 ~~~aD~il~VvD~s~~~s~~~~-~~l~~-----~~~~piiiV~NK~DL~~~~~----------~~--------~~~~~-~  346 (449)
T PRK05291        292 IEEADLVLLVLDASEPLTEEDD-EILEE-----LKDKPVIVVLNKADLTGEID----------LE--------EENGK-P  346 (449)
T ss_pred             HHhCCEEEEEecCCCCCChhHH-HHHHh-----cCCCCcEEEEEhhhccccch----------hh--------hccCC-c
Confidence            7889999999999998877754 44433     34689999999999965432          11        22344 7


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      ++++||++|+|+
T Consensus       347 ~i~iSAktg~GI  358 (449)
T PRK05291        347 VIRISAKTGEGI  358 (449)
T ss_pred             eEEEEeeCCCCH
Confidence            899999999985

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.86  E-value=2.8e-21  Score=128.97  Aligned_cols=153  Identities=29%  Similarity=0.476  Sum_probs=131.5

Q ss_pred             CCCCcce--eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCe-EEEEEEEeCCCCccccccccccc
Q 030961            1 MASSASR--FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQEDYNRLRPLSY   77 (168)
Q Consensus         1 m~~~~~~--~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g~~~~~~~~~~~~   77 (168)
                      |.+++..  ..+++++|+.|.||||++.|...+.|...+.+|++..........+. .+.+..|||.|++.+..+...++
T Consensus         1 M~~p~~~~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyy   80 (216)
T KOG0096|consen    1 MTSPPQQGLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYY   80 (216)
T ss_pred             CCCCccccceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccE
Confidence            6655544  89999999999999999999999999999999999887665544444 59999999999999999999999


Q ss_pred             cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEE
Q 030961           78 RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYY  157 (168)
Q Consensus        78 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (168)
                      -++...+++||+..+-++.++ ..|...+.+.+.++|+++-|||.|.....            .......+-+..++ .|
T Consensus        81 I~~qcAiimFdVtsr~t~~n~-~rwhrd~~rv~~NiPiv~cGNKvDi~~r~------------~k~k~v~~~rkknl-~y  146 (216)
T KOG0096|consen   81 IQGQCAIIMFDVTSRFTYKNV-PRWHRDLVRVRENIPIVLCGNKVDIKARK------------VKAKPVSFHRKKNL-QY  146 (216)
T ss_pred             EecceeEEEeeeeehhhhhcc-hHHHHHHHHHhcCCCeeeeccceeccccc------------cccccceeeecccc-ee
Confidence            999999999999999999998 89999999999889999999999986652            23444556666777 89


Q ss_pred             EEecccCccC
Q 030961          158 IECSSKTQQV  167 (168)
Q Consensus       158 ~~~Sa~~~~~  167 (168)
                      ++.||+++.|
T Consensus       147 ~~iSaksn~N  156 (216)
T KOG0096|consen  147 YEISAKSNYN  156 (216)
T ss_pred             EEeecccccc
Confidence            9999999876

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.85  E-value=8.5e-21  Score=146.66  Aligned_cols=139  Identities=21%  Similarity=0.190  Sum_probs=93.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcc--------cccccccccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED--------YNRLRPLSYR   78 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~~   78 (168)
                      ++|+++|.+|+|||||+|+|.+...  .....++..+........++  ..+.+|||||.+.        +......++.
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~   79 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAIE   79 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            5899999999999999999998764  22222222222233455555  6788899999876        2222344678


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      .+|++++|+|+.++.+...  ..+...+.+  .+.|+++++||+|+....              +...++ ..+++..++
T Consensus        80 ~ad~il~vvd~~~~~~~~~--~~~~~~l~~--~~~piilv~NK~D~~~~~--------------~~~~~~-~~lg~~~~~  140 (435)
T PRK00093         80 EADVILFVVDGRAGLTPAD--EEIAKILRK--SNKPVILVVNKVDGPDEE--------------ADAYEF-YSLGLGEPY  140 (435)
T ss_pred             hCCEEEEEEECCCCCCHHH--HHHHHHHHH--cCCcEEEEEECccCccch--------------hhHHHH-HhcCCCCCE
Confidence            9999999999988644432  223333333  268999999999964321              122222 345664589


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|.|+
T Consensus       141 ~iSa~~g~gv  150 (435)
T PRK00093        141 PISAEHGRGI  150 (435)
T ss_pred             EEEeeCCCCH
Confidence            9999999985

>PRK11058 GTPase HflX; Provisional

Probab=99.85  E-value=9.6e-21  Score=144.94  Aligned_cols=144  Identities=17%  Similarity=0.097  Sum_probs=93.8

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccc--cccccc------ccc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDY--NRLRPL------SYR   78 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~--~~~~~~------~~~   78 (168)
                      .++|+++|.+|+|||||+|+|.+..+.....+..+.+. ...+...+. ..+.+|||+|..+.  ..++..      .++
T Consensus       197 ~p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~  275 (426)
T PRK11058        197 VPTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETR  275 (426)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhh
Confidence            36899999999999999999998765332222222222 234444432 25678999997432  122222      357


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEE
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYY  157 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (168)
                      .+|++++|+|++++.++... ..|...+.... .+.|+++|+||+|+.....           ....    ....+...+
T Consensus       276 ~ADlIL~VvDaS~~~~~e~l-~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~-----------~~~~----~~~~~~~~~  339 (426)
T PRK11058        276 QATLLLHVVDAADVRVQENI-EAVNTVLEEIDAHEIPTLLVMNKIDMLDDFE-----------PRID----RDEENKPIR  339 (426)
T ss_pred             cCCEEEEEEeCCCccHHHHH-HHHHHHHHHhccCCCCEEEEEEcccCCCchh-----------HHHH----HHhcCCCce
Confidence            89999999999998877765 44444444433 4789999999999964311           0011    112344235


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|+|+
T Consensus       340 v~ISAktG~GI  350 (426)
T PRK11058        340 VWLSAQTGAGI  350 (426)
T ss_pred             EEEeCCCCCCH
Confidence            88999999985

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.85  E-value=4.6e-21  Score=129.08  Aligned_cols=128  Identities=18%  Similarity=0.129  Sum_probs=87.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccc----cccccCCcEEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLR----PLSYRGADVFVL   85 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~----~~~~~~~~~~i~   85 (168)
                      +|+++|.+++|||||++++.+.. . ....+.+..+      ...    .+|||||.......+    ...+.++|++++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~-~-~~~~~~~v~~------~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il~   70 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNY-T-LARKTQAVEF------NDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLIY   70 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC-c-cCccceEEEE------CCC----CcccCCccccCCHHHHHHHHHHHhcCCEEEE
Confidence            79999999999999999987643 1 1112222222      221    269999974332211    123679999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC-cEEEEecccC
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA-SYYIECSSKT  164 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~  164 (168)
                      |+|+++.+++..   .|+..+   ..+.|+++++||+|+...             ..+.+.+++...+. .+++++||++
T Consensus        71 v~d~~~~~s~~~---~~~~~~---~~~~~ii~v~nK~Dl~~~-------------~~~~~~~~~~~~~~~~p~~~~Sa~~  131 (158)
T PRK15467         71 VHGANDPESRLP---AGLLDI---GVSKRQIAVISKTDMPDA-------------DVAATRKLLLETGFEEPIFELNSHD  131 (158)
T ss_pred             EEeCCCcccccC---HHHHhc---cCCCCeEEEEEccccCcc-------------cHHHHHHHHHHcCCCCCEEEEECCC
Confidence            999998877633   333333   236799999999998542             23556677777775 4899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+||
T Consensus       132 g~gi  135 (158)
T PRK15467        132 PQSV  135 (158)
T ss_pred             ccCH
Confidence            9985

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.85  E-value=2.8e-20  Score=118.71  Aligned_cols=147  Identities=23%  Similarity=0.309  Sum_probs=110.6

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ...+.+||.++|..++|||||+.+|..... ..-.||.+.. .+++..+ ..+.+.+||.+|+...+..|..++.+.|++
T Consensus        13 ~t~rEirilllGldnAGKTT~LKqL~sED~-~hltpT~GFn-~k~v~~~-g~f~LnvwDiGGqr~IRpyWsNYyenvd~l   89 (185)
T KOG0074|consen   13 RTRREIRILLLGLDNAGKTTFLKQLKSEDP-RHLTPTNGFN-TKKVEYD-GTFHLNVWDIGGQRGIRPYWSNYYENVDGL   89 (185)
T ss_pred             CCcceEEEEEEecCCCcchhHHHHHccCCh-hhccccCCcc-eEEEeec-CcEEEEEEecCCccccchhhhhhhhccceE
Confidence            457899999999999999999999987653 2223443332 2334443 457889999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC-------c
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA-------S  155 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~  155 (168)
                      |+|+|.+|+..|+++-+++...+.... ..+|+.|..||.|+.-.               ...++.+...++       .
T Consensus        90 IyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdllta---------------a~~eeia~klnl~~lrdRsw  154 (185)
T KOG0074|consen   90 IYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTA---------------AKVEEIALKLNLAGLRDRSW  154 (185)
T ss_pred             EEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhh---------------cchHHHHHhcchhhhhhceE
Confidence            999999999999988666666666654 68999999999998644               222223322222       3


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      ++-++||.+++|+
T Consensus       155 hIq~csals~eg~  167 (185)
T KOG0074|consen  155 HIQECSALSLEGS  167 (185)
T ss_pred             EeeeCccccccCc
Confidence            6778999998875

>cd01889 SelB_euk SelB subfamily

Probab=99.85  E-value=1e-20  Score=131.33  Aligned_cols=148  Identities=16%  Similarity=0.093  Sum_probs=88.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC----CCCCCC---C--Cceeece-eEEEE----------ECCeEEEEEEEeCCCCcc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN----KFPTDY---I--PTVFDNF-SANVV----------AEGTTVNLGLWDTAGQED   68 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~----~~~~~~---~--~~~~~~~-~~~~~----------~~~~~~~~~i~D~~g~~~   68 (168)
                      ++|+++|++++|||||+++|+..    .+....   .  .|....+ ...+.          ..+....+.+|||||+..
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            58999999999999999999872    121111   1  1222222 11111          123467889999999876


Q ss_pred             ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHH
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL  148 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  148 (168)
                      +..........+|++++|+|+.+....... +.+. ....  .+.|+++++||+|+......        ....++.++.
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~-~~~~-~~~~--~~~~~iiv~NK~Dl~~~~~~--------~~~~~~~~~~  148 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTA-ECLV-IGEI--LCKKLIVVLNKIDLIPEEER--------ERKIEKMKKK  148 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHH-HHHH-HHHH--cCCCEEEEEECcccCCHHHH--------HHHHHHHHHH
Confidence            533333345678999999999875444332 2222 1221  25799999999998643210        0112222221


Q ss_pred             -HHH-----hCCcEEEEecccCccCC
Q 030961          149 -RKQ-----IGASYYIECSSKTQQVC  168 (168)
Q Consensus       149 -~~~-----~~~~~~~~~Sa~~~~~i  168 (168)
                       ...     ....+++++||++|+|+
T Consensus       149 l~~~~~~~~~~~~~vi~iSa~~g~gi  174 (192)
T cd01889         149 LQKTLEKTRFKNSPIIPVSAKPGGGE  174 (192)
T ss_pred             HHHHHHhcCcCCCCEEEEeccCCCCH
Confidence             111     12237999999999986

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

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.85  E-value=2.2e-20  Score=149.92  Aligned_cols=150  Identities=15%  Similarity=0.199  Sum_probs=102.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeec---eeEEEEECCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDN---FSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      .+...|+++|+.++|||||+++|....+.....+..+..   +......++....+.+|||||++.|..++...+..+|+
T Consensus       242 ~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDi  321 (742)
T CHL00189        242 NRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDI  321 (742)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCE
Confidence            467799999999999999999999876654433333322   22233344556888999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH---HHHHhC-CcEEE
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE---LRKQIG-ASYYI  158 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~-~~~~~  158 (168)
                      +++|+|++++...... +. +..+..  .++|+++++||+|+.....         ....+++..   +...++ ..+++
T Consensus       322 aILVVDA~dGv~~QT~-E~-I~~~k~--~~iPiIVViNKiDl~~~~~---------e~v~~eL~~~~ll~e~~g~~vpvv  388 (742)
T CHL00189        322 AILIIAADDGVKPQTI-EA-INYIQA--ANVPIIVAINKIDKANANT---------ERIKQQLAKYNLIPEKWGGDTPMI  388 (742)
T ss_pred             EEEEEECcCCCChhhH-HH-HHHHHh--cCceEEEEEECCCccccCH---------HHHHHHHHHhccchHhhCCCceEE
Confidence            9999999875433322 22 222322  4689999999999965321         001111111   122233 34899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       389 ~VSAktG~GI  398 (742)
T CHL00189        389 PISASQGTNI  398 (742)
T ss_pred             EEECCCCCCH
Confidence            9999999986

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.84  E-value=6.6e-20  Score=148.31  Aligned_cols=148  Identities=18%  Similarity=0.237  Sum_probs=101.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      .+.+.|+++|+.++|||||+++|.+..+.....+.++.... ..+..++  ..+.+|||||++.|..++...+..+|+++
T Consensus       288 ~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDiaI  365 (787)
T PRK05306        288 PRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDIVV  365 (787)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCEEE
Confidence            46789999999999999999999887765544444433332 2333343  56788999999999999988899999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHH---HHHHHHhC-CcEEEEe
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQG---EELRKQIG-ASYYIEC  160 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~-~~~~~~~  160 (168)
                      +|+|+++...-... +.| .....  .++|++|++||+|+...+..        .+ ..+.   ..++..++ ..+++++
T Consensus       366 LVVdAddGv~~qT~-e~i-~~a~~--~~vPiIVviNKiDl~~a~~e--------~V-~~eL~~~~~~~e~~g~~vp~vpv  432 (787)
T PRK05306        366 LVVAADDGVMPQTI-EAI-NHAKA--AGVPIIVAINKIDKPGANPD--------RV-KQELSEYGLVPEEWGGDTIFVPV  432 (787)
T ss_pred             EEEECCCCCCHhHH-HHH-HHHHh--cCCcEEEEEECccccccCHH--------HH-HHHHHHhcccHHHhCCCceEEEE
Confidence            99999875322221 222 22222  46899999999999643210        01 1111   11233333 2489999


Q ss_pred             cccCccCC
Q 030961          161 SSKTQQVC  168 (168)
Q Consensus       161 Sa~~~~~i  168 (168)
                      ||++|+||
T Consensus       433 SAktG~GI  440 (787)
T PRK05306        433 SAKTGEGI  440 (787)
T ss_pred             eCCCCCCc
Confidence            99999986

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.84  E-value=2.9e-20  Score=147.39  Aligned_cols=143  Identities=21%  Similarity=0.211  Sum_probs=101.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC---CCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN---KFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~---~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +.|+++|++++|||||+++|.+.   .+...+.+.++.+.. ..+..++  ..+.+||+||++.|...+...+.++|+++
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aI   78 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAAL   78 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEE
Confidence            46899999999999999999863   333344444444432 2344444  77889999999998887777889999999


Q ss_pred             EEEeCCCh---hHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC---CcEE
Q 030961           85 LAFSLVSR---ASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG---ASYY  157 (168)
Q Consensus        85 ~v~d~~~~---~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~  157 (168)
                      +|+|++++   .+.+.+     ..+..  .++| ++|++||+|+.+...        .....++.+.+...++   ..++
T Consensus        79 LVVDa~~G~~~qT~ehl-----~il~~--lgi~~iIVVlNK~Dlv~~~~--------~~~~~~ei~~~l~~~~~~~~~~i  143 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHL-----AVLDL--LGIPHTIVVITKADRVNEEE--------IKRTEMFMKQILNSYIFLKNAKI  143 (581)
T ss_pred             EEEECCCCCcHHHHHHH-----HHHHH--cCCCeEEEEEECCCCCCHHH--------HHHHHHHHHHHHHHhCCCCCCcE
Confidence            99999884   444332     22332  2577 999999999975432        0023445666665553   2489


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|+||
T Consensus       144 i~vSA~tG~GI  154 (581)
T TIGR00475       144 FKTSAKTGQGI  154 (581)
T ss_pred             EEEeCCCCCCc
Confidence            99999999986

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.84  E-value=2.6e-20  Score=129.41  Aligned_cols=150  Identities=20%  Similarity=0.085  Sum_probs=93.8

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCc----------cccccc
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQE----------DYNRLR   73 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~~~~~   73 (168)
                      ..+..++|+++|.+|+|||||+++|++..+...+.++.+.+.......  ....+.+|||||..          .+..+.
T Consensus        20 ~~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~--~~~~l~l~DtpG~~~~~~~~~~~~~~~~~~   97 (196)
T PRK00454         20 PPDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFE--VNDKLRLVDLPGYGYAKVSKEEKEKWQKLI   97 (196)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEe--cCCeEEEeCCCCCCCcCCCchHHHHHHHHH
Confidence            345678999999999999999999998765444444444333222111  13678899999953          222233


Q ss_pred             ccccc---CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH
Q 030961           74 PLSYR---GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK  150 (168)
Q Consensus        74 ~~~~~---~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (168)
                      ..+++   .++++++++|.+++.+...  ..+...+..  .+.|+++++||+|+.....        .....+++.....
T Consensus        98 ~~~~~~~~~~~~~~~v~d~~~~~~~~~--~~i~~~l~~--~~~~~iiv~nK~Dl~~~~~--------~~~~~~~i~~~l~  165 (196)
T PRK00454         98 EEYLRTRENLKGVVLLIDSRHPLKELD--LQMIEWLKE--YGIPVLIVLTKADKLKKGE--------RKKQLKKVRKALK  165 (196)
T ss_pred             HHHHHhCccceEEEEEEecCCCCCHHH--HHHHHHHHH--cCCcEEEEEECcccCCHHH--------HHHHHHHHHHHHH
Confidence            33333   3468888999877554332  122233332  3689999999999965432        0012233444444


Q ss_pred             HhCCcEEEEecccCccCC
Q 030961          151 QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       151 ~~~~~~~~~~Sa~~~~~i  168 (168)
                      .... .++++||++++|+
T Consensus       166 ~~~~-~~~~~Sa~~~~gi  182 (196)
T PRK00454        166 FGDD-EVILFSSLKKQGI  182 (196)
T ss_pred             hcCC-ceEEEEcCCCCCH
Confidence            4344 7899999999885

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.84  E-value=3e-20  Score=143.09  Aligned_cols=159  Identities=12%  Similarity=0.040  Sum_probs=99.5

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCC--CCCC----------------------CCC-----ceeece-eEEEEEC
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNK--FPTD----------------------YIP-----TVFDNF-SANVVAE   52 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~--~~~~----------------------~~~-----~~~~~~-~~~~~~~   52 (168)
                      +++.+.++|+++|++++|||||+++|+...  ....                      .+.     ..+.+. .....+.
T Consensus         1 ~~~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~   80 (425)
T PRK12317          1 AKEKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFE   80 (425)
T ss_pred             CCCCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEe
Confidence            345678999999999999999999998432  1100                      000     001111 1122334


Q ss_pred             CeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh
Q 030961           53 GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA  132 (168)
Q Consensus        53 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~  132 (168)
                      ...+.+.+|||||++.|.......+..+|++++|+|++++.++.....+++..+... ...|+++++||+|+....... 
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~-~~~~iivviNK~Dl~~~~~~~-  158 (425)
T PRK12317         81 TDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL-GINQLIVAINKMDAVNYDEKR-  158 (425)
T ss_pred             cCCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc-CCCeEEEEEEccccccccHHH-
Confidence            456788999999998876655555789999999999987322222112233333222 234689999999997521100 


Q ss_pred             cCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          133 DHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                           .....++...+....+.    .+++++||++|+||
T Consensus       159 -----~~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi  193 (425)
T PRK12317        159 -----YEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNV  193 (425)
T ss_pred             -----HHHHHHHHHHHHHhhCCCcCcceEEEeecccCCCc
Confidence                 00234556666665653    37999999999986

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.84  E-value=2.7e-20  Score=143.39  Aligned_cols=156  Identities=13%  Similarity=0.036  Sum_probs=100.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--CCCCC-----------------------------CCCceeeceeEEEEECC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--KFPTD-----------------------------YIPTVFDNFSANVVAEG   53 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--~~~~~-----------------------------~~~~~~~~~~~~~~~~~   53 (168)
                      +.+.++|+++|+.++|||||+.+|+..  .+...                             .....+.+.. ......
T Consensus         4 ~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~-~~~~~~   82 (426)
T TIGR00483         4 EKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVA-HWKFET   82 (426)
T ss_pred             CCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEE-EEEEcc
Confidence            456799999999999999999999852  22110                             0011111111 122344


Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHH-HHhHHHHHchhCCCCcEEEEeeCCcccccchhhh
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENV-LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA  132 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~  132 (168)
                      ..+.+.+|||||++.|.......+..+|++++|+|++++++.... ...+.... +.....|++|++||+|+.+....  
T Consensus        83 ~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~-~~~~~~~iIVviNK~Dl~~~~~~--  159 (426)
T TIGR00483        83 DKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLA-RTLGINQLIVAINKMDSVNYDEE--  159 (426)
T ss_pred             CCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHH-HHcCCCeEEEEEEChhccCccHH--
Confidence            457889999999988876666667899999999999987533111 01112222 22233579999999999642110  


Q ss_pred             cCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          133 DHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                          ......++.+.++...++    .+++++||++|+||
T Consensus       160 ----~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni  195 (426)
T TIGR00483       160 ----EFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNV  195 (426)
T ss_pred             ----HHHHHHHHHHHHHHHcCCCcccceEEEeeccccccc
Confidence                001234566777776663    47999999999986

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.84  E-value=5.2e-20  Score=139.45  Aligned_cols=146  Identities=17%  Similarity=0.140  Sum_probs=97.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCccccc----cc---cccccCCc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDYNR----LR---PLSYRGAD   81 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~~~----~~---~~~~~~~~   81 (168)
                      .|.+||.||||||||+|++.+.+......+..+..... .+.. +....+.++||||...-..    +.   ..++..++
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~-~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~rad  239 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRV-DDERSFVVADIPGLIEGASEGAGLGIRFLKHLERCR  239 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEe-CCCcEEEEEeCCCccccccchhhHHHHHHHHHHhCC
Confidence            68999999999999999999876433222222222222 2222 2234578899999743211    11   12467899


Q ss_pred             EEEEEEeCC---ChhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC-
Q 030961           82 VFVLAFSLV---SRASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA-  154 (168)
Q Consensus        82 ~~i~v~d~~---~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  154 (168)
                      ++++|+|++   +.+.++.. ..|++++..+.   .+.|+++|+||+|+.....           ..+....+....+. 
T Consensus       240 vlL~VVD~s~~~~~d~~e~~-~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~e-----------l~~~l~~l~~~~~~~  307 (390)
T PRK12298        240 VLLHLIDIAPIDGSDPVENA-RIIINELEKYSPKLAEKPRWLVFNKIDLLDEEE-----------AEERAKAIVEALGWE  307 (390)
T ss_pred             EEEEEeccCcccccChHHHH-HHHHHHHHhhhhhhcCCCEEEEEeCCccCChHH-----------HHHHHHHHHHHhCCC
Confidence            999999988   45566665 67777777754   3689999999999965432           23444555555553 


Q ss_pred             cEEEEecccCccCC
Q 030961          155 SYYIECSSKTQQVC  168 (168)
Q Consensus       155 ~~~~~~Sa~~~~~i  168 (168)
                      .+++++||++++||
T Consensus       308 ~~Vi~ISA~tg~GI  321 (390)
T PRK12298        308 GPVYLISAASGLGV  321 (390)
T ss_pred             CCEEEEECCCCcCH
Confidence            26899999999885

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.83  E-value=3.9e-20  Score=142.77  Aligned_cols=138  Identities=22%  Similarity=0.245  Sum_probs=93.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeeceeEEEEECCeEEEEEEEeCCCCcc--------ccccccccccC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED--------YNRLRPLSYRG   79 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~~~   79 (168)
                      +|+++|.+|+|||||+|+|.+....  ..+.++..+........++.  .+.+|||||...        +......+++.
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~~--~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~   78 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGGR--EFILIDTGGIEEDDDGLDKQIREQAEIAIEE   78 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECCe--EEEEEECCCCCCcchhHHHHHHHHHHHHHhh
Confidence            5899999999999999999987632  22222222222334444444  577899999632        33344556789


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEE
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIE  159 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      +|++++|+|+.++.+...  ..+...+.+  .+.|+++|+||+|+.....          .    ..+ ...++..++++
T Consensus        79 ad~vl~vvD~~~~~~~~d--~~i~~~l~~--~~~piilVvNK~D~~~~~~----------~----~~~-~~~lg~~~~~~  139 (429)
T TIGR03594        79 ADVILFVVDGREGLTPED--EEIAKWLRK--SGKPVILVANKIDGKKEDA----------V----AAE-FYSLGFGEPIP  139 (429)
T ss_pred             CCEEEEEEeCCCCCCHHH--HHHHHHHHH--hCCCEEEEEECccCCcccc----------c----HHH-HHhcCCCCeEE
Confidence            999999999987655443  334444544  3689999999999865432          1    111 34567667999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|.|+
T Consensus       140 vSa~~g~gv  148 (429)
T TIGR03594       140 ISAEHGRGI  148 (429)
T ss_pred             EeCCcCCCh
Confidence            999999985

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.83  E-value=1.5e-19  Score=139.50  Aligned_cols=146  Identities=16%  Similarity=0.111  Sum_probs=92.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccc----cccc---cccccC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDY----NRLR---PLSYRG   79 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~----~~~~---~~~~~~   79 (168)
                      ...|++||.||||||||+++|.+.+......+-.+... .-.+...+  ..+.+||+||...-    ..+.   ..++..
T Consensus       159 ~adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~~~--~~f~laDtPGliegas~g~gLg~~fLrhier  236 (500)
T PRK12296        159 VADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQAGD--TRFTVADVPGLIPGASEGKGLGLDFLRHIER  236 (500)
T ss_pred             cceEEEEEcCCCCHHHHHHHHhcCCccccccCcccccceEEEEEECC--eEEEEEECCCCccccchhhHHHHHHHHHHHh
Confidence            44789999999999999999998764322222222221 11233333  56888999996321    1111   223567


Q ss_pred             CcEEEEEEeCCCh----hHHHHHHHhHHHHHchhC------------CCCcEEEEeeCCcccccchhhhcCCCCCcccHH
Q 030961           80 ADVFVLAFSLVSR----ASYENVLKKWIPELQHYS------------PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTA  143 (168)
Q Consensus        80 ~~~~i~v~d~~~~----~s~~~~~~~~~~~l~~~~------------~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~  143 (168)
                      ++++++|+|+++.    +.+... ..+..+|..+.            .+.|++||+||+|+.....          + .+
T Consensus       237 advLv~VVD~s~~e~~rdp~~d~-~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~e----------l-~e  304 (500)
T PRK12296        237 CAVLVHVVDCATLEPGRDPLSDI-DALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARE----------L-AE  304 (500)
T ss_pred             cCEEEEEECCcccccccCchhhH-HHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHH----------H-HH
Confidence            9999999999753    334443 44444444332            3689999999999965432          1 22


Q ss_pred             HHHHHHHHhCCcEEEEecccCccCC
Q 030961          144 QGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       144 ~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      .........++ ++|++||++++|+
T Consensus       305 ~l~~~l~~~g~-~Vf~ISA~tgeGL  328 (500)
T PRK12296        305 FVRPELEARGW-PVFEVSAASREGL  328 (500)
T ss_pred             HHHHHHHHcCC-eEEEEECCCCCCH
Confidence            22333344566 8999999999985

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.83  E-value=1.2e-19  Score=143.38  Aligned_cols=113  Identities=20%  Similarity=0.145  Sum_probs=79.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcee----eceeEEEE-------------ECCeEEEEEEEeCCCCccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVF----DNFSANVV-------------AEGTTVNLGLWDTAGQEDY   69 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~----~~~~~~~~-------------~~~~~~~~~i~D~~g~~~~   69 (168)
                      +..-|+++|++++|||||+++|.+..+.....+..+    ..+.....             +......+.+|||||++.|
T Consensus         3 r~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f   82 (590)
T TIGR00491         3 RSPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAF   82 (590)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhH
Confidence            456799999999999999999998876443222221    11110000             0111123789999999999


Q ss_pred             cccccccccCCcEEEEEEeCCC---hhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           70 NRLRPLSYRGADVFVLAFSLVS---RASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      ..++...++.+|++++|+|+++   +.+++.+     ..+..  .++|+++++||+|+..
T Consensus        83 ~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i-----~~l~~--~~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        83 TNLRKRGGALADLAILIVDINEGFKPQTQEAL-----NILRM--YKTPFVVAANKIDRIP  135 (590)
T ss_pred             HHHHHHHHhhCCEEEEEEECCcCCCHhHHHHH-----HHHHH--cCCCEEEEEECCCccc
Confidence            9998888999999999999987   4444443     22222  3689999999999964

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.82  E-value=3.7e-19  Score=144.40  Aligned_cols=142  Identities=15%  Similarity=0.138  Sum_probs=101.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccccc----------cc-
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRP----------LS-   76 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~----------~~-   76 (168)
                      .++|+++|+||||||||+|++.+.+......+..+.+ .+...+.....++.+|||||...+.....          .+ 
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve-~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l   81 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVE-RKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYI   81 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEe-eEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHHH
Confidence            5789999999999999999999876543333333322 22333455567788899999987754221          12 


Q ss_pred             -ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           77 -YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        77 -~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                       ...+|++++|+|+++.+...    .+..++.+  .++|+++++||+|+.+.+.          + ..+.+++.+.+++ 
T Consensus        82 ~~~~aD~vI~VvDat~ler~l----~l~~ql~e--~giPvIvVlNK~Dl~~~~~----------i-~id~~~L~~~LG~-  143 (772)
T PRK09554         82 LSGDADLLINVVDASNLERNL----YLTLQLLE--LGIPCIVALNMLDIAEKQN----------I-RIDIDALSARLGC-  143 (772)
T ss_pred             hccCCCEEEEEecCCcchhhH----HHHHHHHH--cCCCEEEEEEchhhhhccC----------c-HHHHHHHHHHhCC-
Confidence             23799999999998865432    23344444  3699999999999875433          2 4567788888998 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|+|+
T Consensus       144 pVvpiSA~~g~GI  156 (772)
T PRK09554        144 PVIPLVSTRGRGI  156 (772)
T ss_pred             CEEEEEeecCCCH
Confidence            8999999999984

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.82  E-value=1.6e-19  Score=143.34  Aligned_cols=134  Identities=17%  Similarity=0.206  Sum_probs=96.3

Q ss_pred             CCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccc------cccc--cCCcEEEE
Q 030961           15 GDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLR------PLSY--RGADVFVL   85 (168)
Q Consensus        15 G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~------~~~~--~~~~~~i~   85 (168)
                      |++|+|||||+|++.+..+.....+..+.+.. ..+..++.  ++++|||||++++....      ..++  ..+|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~~--~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQGE--DIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECCe--EEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            89999999999999998765555555554442 34455554  46789999998876542      2222  37899999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |+|+++.+..    ..+..++.+  .+.|+++++||+|+.+.+.          + ..+.+.+++..+. +++++||++|
T Consensus        79 VvDat~ler~----l~l~~ql~~--~~~PiIIVlNK~Dl~~~~~----------i-~~d~~~L~~~lg~-pvv~tSA~tg  140 (591)
T TIGR00437        79 VVDASNLERN----LYLTLQLLE--LGIPMILALNLVDEAEKKG----------I-RIDEEKLEERLGV-PVVPTSATEG  140 (591)
T ss_pred             EecCCcchhh----HHHHHHHHh--cCCCEEEEEehhHHHHhCC----------C-hhhHHHHHHHcCC-CEEEEECCCC
Confidence            9999874432    223333333  4689999999999965432          2 2456788888897 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +|+
T Consensus       141 ~Gi  143 (591)
T TIGR00437       141 RGI  143 (591)
T ss_pred             CCH
Confidence            985

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.82  E-value=1.9e-19  Score=139.15  Aligned_cols=148  Identities=20%  Similarity=0.182  Sum_probs=94.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC-C-CCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccc-----------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF-P-TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLR-----------   73 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-----------   73 (168)
                      ..++|+++|.+|+|||||+++|++... . ....++..+........++  ..+.+|||||........           
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~lvDT~G~~~~~~~~~~~e~~~~~~~  249 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDG--QKYTLIDTAGIRRKGKVTEGVEKYSVIRT  249 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECC--eeEEEEECCCCCCCcchhhHHHHHHHHHH
Confidence            468999999999999999999997652 1 2222222222233333444  445679999964432211           


Q ss_pred             cccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           74 PLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        74 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      ...++.+|++++|+|++++.+....  .+...+.+  .+.|+++++||+|+......        ....++........+
T Consensus       250 ~~~~~~ad~~ilViD~~~~~~~~~~--~i~~~~~~--~~~~~ivv~NK~Dl~~~~~~--------~~~~~~~~~~l~~~~  317 (435)
T PRK00093        250 LKAIERADVVLLVIDATEGITEQDL--RIAGLALE--AGRALVIVVNKWDLVDEKTM--------EEFKKELRRRLPFLD  317 (435)
T ss_pred             HHHHHHCCEEEEEEeCCCCCCHHHH--HHHHHHHH--cCCcEEEEEECccCCCHHHH--------HHHHHHHHHhccccc
Confidence            1356789999999999988776653  44444444  36899999999999743210        011111222222223


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      ..+++++||++|.||
T Consensus       318 ~~~i~~~SA~~~~gv  332 (435)
T PRK00093        318 YAPIVFISALTGQGV  332 (435)
T ss_pred             CCCEEEEeCCCCCCH
Confidence            348999999999985

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.82  E-value=9.7e-20  Score=127.88  Aligned_cols=150  Identities=16%  Similarity=0.054  Sum_probs=91.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCC------------------------CCCc-----eeecee-EEEEECCeEEEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTD------------------------YIPT-----VFDNFS-ANVVAEGTTVNLG   59 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~------------------------~~~~-----~~~~~~-~~~~~~~~~~~~~   59 (168)
                      +|+++|++++|||||+++|+...-...                        .+..     .+.... ....+.....++.
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~   80 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFI   80 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEE
Confidence            589999999999999999975321100                        0000     000110 1112223345778


Q ss_pred             EEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCc
Q 030961           60 LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVP  139 (168)
Q Consensus        60 i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~  139 (168)
                      +|||||++.|.......++.+|++++|+|++++..-..  ......+... ...++++++||+|+........      .
T Consensus        81 liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~--~~~~~~~~~~-~~~~iIvviNK~D~~~~~~~~~------~  151 (208)
T cd04166          81 IADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT--RRHSYILSLL-GIRHVVVAVNKMDLVDYSEEVF------E  151 (208)
T ss_pred             EEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhH--HHHHHHHHHc-CCCcEEEEEEchhcccCCHHHH------H
Confidence            89999998876655667889999999999987643222  2222222221 2245788999999864321000      0


Q ss_pred             ccHHHHHHHHHHhCC--cEEEEecccCccCC
Q 030961          140 VTTAQGEELRKQIGA--SYYIECSSKTQQVC  168 (168)
Q Consensus       140 ~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i  168 (168)
                      ....+.+.+...++.  .+++++||++|.||
T Consensus       152 ~i~~~~~~~~~~~~~~~~~ii~iSA~~g~ni  182 (208)
T cd04166         152 EIVADYLAFAAKLGIEDITFIPISALDGDNV  182 (208)
T ss_pred             HHHHHHHHHHHHcCCCCceEEEEeCCCCCCC
Confidence            123455666666664  35899999999986

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.82  E-value=1.8e-19  Score=143.16  Aligned_cols=147  Identities=16%  Similarity=0.114  Sum_probs=101.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCC--CCC-----CC-C-----Cceeecee-EEEEE-----CCeEEEEEEEeCCCC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNK--FPT-----DY-I-----PTVFDNFS-ANVVA-----EGTTVNLGLWDTAGQ   66 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~--~~~-----~~-~-----~~~~~~~~-~~~~~-----~~~~~~~~i~D~~g~   66 (168)
                      +..-+++++|+.++|||||+.+|+...  +..     .+ +     ...+.++. .....     ++..+.+.+|||||+
T Consensus         5 ~~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh   84 (600)
T PRK05433          5 KNIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGH   84 (600)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCc
Confidence            456689999999999999999998631  111     00 0     01111111 11111     556789999999999


Q ss_pred             ccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHH
Q 030961           67 EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGE  146 (168)
Q Consensus        67 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~  146 (168)
                      ..|...+...++.+|++++|+|++++...... ..|.....   .+.|+++++||+|+.....            .+...
T Consensus        85 ~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~-~~~~~~~~---~~lpiIvViNKiDl~~a~~------------~~v~~  148 (600)
T PRK05433         85 VDFSYEVSRSLAACEGALLVVDASQGVEAQTL-ANVYLALE---NDLEIIPVLNKIDLPAADP------------ERVKQ  148 (600)
T ss_pred             HHHHHHHHHHHHHCCEEEEEEECCCCCCHHHH-HHHHHHHH---CCCCEEEEEECCCCCcccH------------HHHHH
Confidence            99988888999999999999999987666554 44544332   3689999999999864321            22233


Q ss_pred             HHHHHhCCc--EEEEecccCccCC
Q 030961          147 ELRKQIGAS--YYIECSSKTQQVC  168 (168)
Q Consensus       147 ~~~~~~~~~--~~~~~Sa~~~~~i  168 (168)
                      ++...+++.  .++++||++|.||
T Consensus       149 ei~~~lg~~~~~vi~iSAktG~GI  172 (600)
T PRK05433        149 EIEDVIGIDASDAVLVSAKTGIGI  172 (600)
T ss_pred             HHHHHhCCCcceEEEEecCCCCCH
Confidence            444445542  4899999999985

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.82  E-value=1.4e-19  Score=146.82  Aligned_cols=144  Identities=22%  Similarity=0.230  Sum_probs=96.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc----------cccc-
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY----------NRLR-   73 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----------~~~~-   73 (168)
                      ..++|+++|.+|+|||||+|+|++...  ...+.+|..+.+...+.+++..  +.+|||||...-          ..+. 
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~~--~~liDTaG~~~~~~~~~~~e~~~~~r~  526 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGED--WLFIDTAGIKRRQHKLTGAEYYSSLRT  526 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCCE--EEEEECCCcccCcccchhHHHHHHHHH
Confidence            458999999999999999999998864  2333444433344455666655  457999996421          1111 


Q ss_pred             cccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH-HHH--
Q 030961           74 PLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE-LRK--  150 (168)
Q Consensus        74 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-~~~--  150 (168)
                      ...++.+|++++|+|++++.+....  .+...+..  .+.|+++|+||+|+.+...            .+.... +..  
T Consensus       527 ~~~i~~advvilViDat~~~s~~~~--~i~~~~~~--~~~piIiV~NK~DL~~~~~------------~~~~~~~~~~~l  590 (712)
T PRK09518        527 QAAIERSELALFLFDASQPISEQDL--KVMSMAVD--AGRALVLVFNKWDLMDEFR------------RQRLERLWKTEF  590 (712)
T ss_pred             HHHhhcCCEEEEEEECCCCCCHHHH--HHHHHHHH--cCCCEEEEEEchhcCChhH------------HHHHHHHHHHhc
Confidence            2236789999999999998887765  34444443  4689999999999965321            111111 112  


Q ss_pred             -HhCCcEEEEecccCccCC
Q 030961          151 -QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       151 -~~~~~~~~~~Sa~~~~~i  168 (168)
                       .....+.+++||++|.||
T Consensus       591 ~~~~~~~ii~iSAktg~gv  609 (712)
T PRK09518        591 DRVTWARRVNLSAKTGWHT  609 (712)
T ss_pred             cCCCCCCEEEEECCCCCCH
Confidence             123346789999999985

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.82  E-value=5.9e-20  Score=119.67  Aligned_cols=128  Identities=22%  Similarity=0.212  Sum_probs=93.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccc----cccccccCCcEEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR----LRPLSYRGADVFVL   85 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----~~~~~~~~~~~~i~   85 (168)
                      ||++||+.|||||||+++|.+...  .+..|....|.           =.++||||...-..    ..-....+||++++
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~~-----------~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~l   69 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEYY-----------DNTIDTPGEYIENPRFYHALIVTAQDADVVLL   69 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEec-----------ccEEECChhheeCHHHHHHHHHHHhhCCEEEE
Confidence            799999999999999999988653  33333332222           13499999643222    12222458999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      +.|++++.+.-.  ..+...+     +.|+|-|.||+|+....           ...+.++++.+..|+.++|++|+.+|
T Consensus        70 l~dat~~~~~~p--P~fa~~f-----~~pvIGVITK~Dl~~~~-----------~~i~~a~~~L~~aG~~~if~vS~~~~  131 (143)
T PF10662_consen   70 LQDATEPRSVFP--PGFASMF-----NKPVIGVITKIDLPSDD-----------ANIERAKKWLKNAGVKEIFEVSAVTG  131 (143)
T ss_pred             EecCCCCCccCC--chhhccc-----CCCEEEEEECccCccch-----------hhHHHHHHHHHHcCCCCeEEEECCCC
Confidence            999998876544  3333333     46999999999998432           35678899999999988999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +||
T Consensus       132 eGi  134 (143)
T PF10662_consen  132 EGI  134 (143)
T ss_pred             cCH
Confidence            986

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

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.82  E-value=5.6e-19  Score=117.76  Aligned_cols=147  Identities=21%  Similarity=0.219  Sum_probs=108.2

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCCCC--------CCCCC----ceeeceeEEEEECCeEEEEEEEeCCCCcccc
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNKFP--------TDYIP----TVFDNFSANVVAEGTTVNLGLWDTAGQEDYN   70 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~--------~~~~~----~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   70 (168)
                      +.+.+..||++.|+.++||||++..++.....        ..+..    |...+|......+  ...+.+++||||++|.
T Consensus         5 ~~k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~--~~~v~LfgtPGq~RF~   82 (187)
T COG2229           5 ANKMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDE--DTGVHLFGTPGQERFK   82 (187)
T ss_pred             cccccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcC--cceEEEecCCCcHHHH
Confidence            34567899999999999999999999887531        11111    2222222222222  2455669999999999


Q ss_pred             ccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH
Q 030961           71 RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK  150 (168)
Q Consensus        71 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (168)
                      -+|...++++.++++++|.+++..+ .. .+++..+....+ +|++|++||.|+....            +.++.+++..
T Consensus        83 fm~~~l~~ga~gaivlVDss~~~~~-~a-~~ii~f~~~~~~-ip~vVa~NK~DL~~a~------------ppe~i~e~l~  147 (187)
T COG2229          83 FMWEILSRGAVGAIVLVDSSRPITF-HA-EEIIDFLTSRNP-IPVVVAINKQDLFDAL------------PPEKIREALK  147 (187)
T ss_pred             HHHHHHhCCcceEEEEEecCCCcch-HH-HHHHHHHhhccC-CCEEEEeeccccCCCC------------CHHHHHHHHH
Confidence            9999999999999999999999988 33 567776666433 9999999999998873            4555555554


Q ss_pred             Hh--CCcEEEEecccCccC
Q 030961          151 QI--GASYYIECSSKTQQV  167 (168)
Q Consensus       151 ~~--~~~~~~~~Sa~~~~~  167 (168)
                      .-  .. +.++.+|..+++
T Consensus       148 ~~~~~~-~vi~~~a~e~~~  165 (187)
T COG2229         148 LELLSV-PVIEIDATEGEG  165 (187)
T ss_pred             hccCCC-ceeeeecccchh
Confidence            43  44 889999998775

>cd00880 Era_like Era (E

Probab=99.81  E-value=3.5e-19  Score=118.94  Aligned_cols=140  Identities=21%  Similarity=0.182  Sum_probs=91.9

Q ss_pred             EECCCCCCHHHHHHHHhcCCCC-CCCCCceeece-eEEEEECCeEEEEEEEeCCCCcccccccc-------ccccCCcEE
Q 030961           13 TVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRP-------LSYRGADVF   83 (168)
Q Consensus        13 vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~-------~~~~~~~~~   83 (168)
                      ++|.+|+|||||++++.+.... ....+...... ....... ....+.+||+||.........       ..++.+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELG-PLGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEec-CCCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            5899999999999999986543 22222222111 2222222 156788899999876654333       367889999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHH---HHHHHHHHhCCcEEEEe
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTA---QGEELRKQIGASYYIEC  160 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~  160 (168)
                      ++|+|+.+..+.... . +......  .+.|+++++||+|+.....          ....   .........+ .+++++
T Consensus        80 l~v~~~~~~~~~~~~-~-~~~~~~~--~~~~~ivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~~~-~~~~~~  144 (163)
T cd00880          80 LFVVDADLRADEEEE-K-LLELLRE--RGKPVLLVLNKIDLLPEEE----------EEELLELRLLILLLLLG-LPVIAV  144 (163)
T ss_pred             EEEEeCCCCCCHHHH-H-HHHHHHh--cCCeEEEEEEccccCChhh----------HHHHHHHHHhhcccccC-CceEEE
Confidence            999999998877764 2 3344433  4789999999999976543          1111   1122223333 489999


Q ss_pred             cccCccCC
Q 030961          161 SSKTQQVC  168 (168)
Q Consensus       161 Sa~~~~~i  168 (168)
                      ||+++.|+
T Consensus       145 sa~~~~~v  152 (163)
T cd00880         145 SALTGEGI  152 (163)
T ss_pred             eeeccCCH
Confidence            99999885

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.81  E-value=2.5e-19  Score=145.34  Aligned_cols=141  Identities=20%  Similarity=0.182  Sum_probs=92.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeece-eEEEEECCeEEEEEEEeCCCCccc--------ccccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDY--------NRLRPLS   76 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~--------~~~~~~~   76 (168)
                      ...+|+++|.+++|||||+|+|++.+... ...+..+.+. ......++  ..+.+|||||.+..        .......
T Consensus       274 ~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~  351 (712)
T PRK09518        274 AVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG--TDFKLVDTGGWEADVEGIDSAIASQAQIA  351 (712)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC--EEEEEEeCCCcCCCCccHHHHHHHHHHHH
Confidence            45789999999999999999999876421 2223222222 22233333  45777999997632        2223345


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcE
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASY  156 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (168)
                      ++.+|++++|+|+++......  ..|...+.+  .+.|+++|+||+|+.....             .....+  ..+...
T Consensus       352 ~~~aD~iL~VvDa~~~~~~~d--~~i~~~Lr~--~~~pvIlV~NK~D~~~~~~-------------~~~~~~--~lg~~~  412 (712)
T PRK09518        352 VSLADAVVFVVDGQVGLTSTD--ERIVRMLRR--AGKPVVLAVNKIDDQASEY-------------DAAEFW--KLGLGE  412 (712)
T ss_pred             HHhCCEEEEEEECCCCCCHHH--HHHHHHHHh--cCCCEEEEEECcccccchh-------------hHHHHH--HcCCCC
Confidence            789999999999987533322  456666654  5799999999999854311             112222  234334


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      .+++||++|.||
T Consensus       413 ~~~iSA~~g~GI  424 (712)
T PRK09518        413 PYPISAMHGRGV  424 (712)
T ss_pred             eEEEECCCCCCc
Confidence            679999999986

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.81  E-value=1.4e-20  Score=123.93  Aligned_cols=149  Identities=20%  Similarity=0.274  Sum_probs=106.4

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCC---C----CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccccccc
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNK---F----PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLS   76 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~---~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~   76 (168)
                      .+...+-++++|..++|||||+-..-...   +    +....+|.+.... ++.+.  ...+.+||.+|++..+++|..+
T Consensus        13 ~~Ke~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig-~i~v~--~~~l~fwdlgGQe~lrSlw~~y   89 (197)
T KOG0076|consen   13 FKKEDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIG-TIEVC--NAPLSFWDLGGQESLRSLWKKY   89 (197)
T ss_pred             hhhhhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeec-ceeec--cceeEEEEcCChHHHHHHHHHH
Confidence            34567889999999999999998764321   1    1223344444332 11222  4567779999999999999999


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH-----
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK-----  150 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----  150 (168)
                      +..+|++++++|++|++.|+.....+-..+..-. .+.|+++.+||.|+.+.-            ...+......     
T Consensus        90 Y~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~------------~~~El~~~~~~~e~~  157 (197)
T KOG0076|consen   90 YWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAM------------EAAELDGVFGLAELI  157 (197)
T ss_pred             HHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhh------------hHHHHHHHhhhhhhc
Confidence            9999999999999999999987444433333332 689999999999998773            3333333322     


Q ss_pred             -HhCCcEEEEecccCccCC
Q 030961          151 -QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       151 -~~~~~~~~~~Sa~~~~~i  168 (168)
                       +..+ ++.++||.+|+||
T Consensus       158 ~~rd~-~~~pvSal~gegv  175 (197)
T KOG0076|consen  158 PRRDN-PFQPVSALTGEGV  175 (197)
T ss_pred             CCccC-ccccchhhhcccH
Confidence             2233 7899999999986

>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=99.80  E-value=8.4e-20  Score=126.32  Aligned_cols=148  Identities=20%  Similarity=0.210  Sum_probs=98.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCC-------------C-----CceeeceeEEEEE--CCeEEEEEEEeCCCC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDY-------------I-----PTVFDNFSANVVA--EGTTVNLGLWDTAGQ   66 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~-------------~-----~~~~~~~~~~~~~--~~~~~~~~i~D~~g~   66 (168)
                      +.++|+++|+.++|||||+.+|+...-....             .     ...+.. ......  ......+.++|+||+
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~-~~~~~~~~~~~~~~i~~iDtPG~   80 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITID-LSFISFEKNENNRKITLIDTPGH   80 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSS-SEEEEEEBTESSEEEEEEEESSS
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccc-cccccccccccccceeecccccc
Confidence            4689999999999999999999854311100             0     000111 111222  255677888999999


Q ss_pred             ccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHH
Q 030961           67 EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGE  146 (168)
Q Consensus        67 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~  146 (168)
                      ..|.......+..+|++++|+|+.++.....  .+.+..+..  .++|+++++||+|+...+.         ....++..
T Consensus        81 ~~f~~~~~~~~~~~D~ailvVda~~g~~~~~--~~~l~~~~~--~~~p~ivvlNK~D~~~~~~---------~~~~~~~~  147 (188)
T PF00009_consen   81 EDFIKEMIRGLRQADIAILVVDANDGIQPQT--EEHLKILRE--LGIPIIVVLNKMDLIEKEL---------EEIIEEIK  147 (188)
T ss_dssp             HHHHHHHHHHHTTSSEEEEEEETTTBSTHHH--HHHHHHHHH--TT-SEEEEEETCTSSHHHH---------HHHHHHHH
T ss_pred             cceeecccceecccccceeeeeccccccccc--ccccccccc--cccceEEeeeeccchhhhH---------HHHHHHHH
Confidence            9888877778999999999999987755443  455555555  3688999999999983321         01122222


Q ss_pred             -HHHHHhC-----CcEEEEecccCccCC
Q 030961          147 -ELRKQIG-----ASYYIECSSKTQQVC  168 (168)
Q Consensus       147 -~~~~~~~-----~~~~~~~Sa~~~~~i  168 (168)
                       .+.+.++     ..+++++||++|.|+
T Consensus       148 ~~l~~~~~~~~~~~~~vi~~Sa~~g~gi  175 (188)
T PF00009_consen  148 EKLLKEYGENGEEIVPVIPISALTGDGI  175 (188)
T ss_dssp             HHHHHHTTSTTTSTEEEEEEBTTTTBTH
T ss_pred             HHhccccccCccccceEEEEecCCCCCH
Confidence             3433342     357999999999985

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=99.80  E-value=4.6e-19  Score=133.21  Aligned_cols=139  Identities=19%  Similarity=0.162  Sum_probs=100.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccc---------ccccccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYN---------RLRPLSY   77 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~---------~~~~~~~   77 (168)
                      ..|+++|.||+|||||+|||++.+..  ..+..+..+.........+..  +.++||+|-+...         ......+
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~~--f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai   81 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGRE--FILIDTGGLDDGDEDELQELIREQALIAI   81 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcCce--EEEEECCCCCcCCchHHHHHHHHHHHHHH
Confidence            67999999999999999999998753  444444455545555555555  7779999976432         1223346


Q ss_pred             cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEE
Q 030961           78 RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYY  157 (168)
Q Consensus        78 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (168)
                      ..||+++||+|....-+-.+  +...+.|.+  .+.|+++|+||+|....               ++...-..++|....
T Consensus        82 ~eADvilfvVD~~~Git~~D--~~ia~~Lr~--~~kpviLvvNK~D~~~~---------------e~~~~efyslG~g~~  142 (444)
T COG1160          82 EEADVILFVVDGREGITPAD--EEIAKILRR--SKKPVILVVNKIDNLKA---------------EELAYEFYSLGFGEP  142 (444)
T ss_pred             HhCCEEEEEEeCCCCCCHHH--HHHHHHHHh--cCCCEEEEEEcccCchh---------------hhhHHHHHhcCCCCc
Confidence            78999999999877665554  456666664  56999999999998532               333344455777788


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +.+||..|.|+
T Consensus       143 ~~ISA~Hg~Gi  153 (444)
T COG1160         143 VPISAEHGRGI  153 (444)
T ss_pred             eEeehhhccCH
Confidence            99999999885

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.80  E-value=5.5e-19  Score=123.63  Aligned_cols=149  Identities=15%  Similarity=0.109  Sum_probs=89.2

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCC---CCC--CCCceeeceeE-EEE-----------------------EC--C----
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKF---PTD--YIPTVFDNFSA-NVV-----------------------AE--G----   53 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~---~~~--~~~~~~~~~~~-~~~-----------------------~~--~----   53 (168)
                      ++|.++|+.|+|||||+..+.+...   ...  ...++...+.. ...                       ..  +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            4789999999999999999865311   000  00011111000 000                       00  1    


Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD  133 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~  133 (168)
                      ...++.+|||||++.|...+...+..+|++++|+|++++...... ...+..+... ...|+++++||+|+......   
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t-~~~l~~~~~~-~~~~iiivvNK~Dl~~~~~~---  155 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQT-SEHLAALEIM-GLKHIIIVQNKIDLVKEEQA---  155 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcch-HHHHHHHHHc-CCCcEEEEEEchhccCHHHH---
Confidence            126788999999998877777778889999999999874211111 1122222221 23579999999999753210   


Q ss_pred             CCCCCcccHHHHHHHHHHh---CCcEEEEecccCccCC
Q 030961          134 HPGLVPVTTAQGEELRKQI---GASYYIECSSKTQQVC  168 (168)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~Sa~~~~~i  168 (168)
                           ....++.+++...+   +. +++++||++|+||
T Consensus       156 -----~~~~~~i~~~~~~~~~~~~-~i~~vSA~~g~gi  187 (203)
T cd01888         156 -----LENYEQIKKFVKGTIAENA-PIIPISAQLKYNI  187 (203)
T ss_pred             -----HHHHHHHHHHHhccccCCC-cEEEEeCCCCCCH
Confidence                 01223444444433   33 7999999999985

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

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.80  E-value=1.1e-21  Score=130.63  Aligned_cols=152  Identities=29%  Similarity=0.459  Sum_probs=127.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEE-EEC-CeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV-VAE-GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      .-+|+.++|.-|+|||+++.|++...|...|..+++.++..++ .-+ ...+++++||..||+++-.|...+++.+++.+
T Consensus        24 hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~~~  103 (229)
T KOG4423|consen   24 HLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHGAF  103 (229)
T ss_pred             hhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcceE
Confidence            4678999999999999999999999888888888888885433 333 34578899999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEE
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIE  159 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      +|||+++..+|+.+ ..|.+.+....     ..+|++++.||||+.+...         .......-+++++.|....++
T Consensus       104 iVfdvt~s~tfe~~-skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~---------~~~~~~~d~f~kengf~gwte  173 (229)
T KOG4423|consen  104 IVFDVTRSLTFEPV-SKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAK---------NEATRQFDNFKKENGFEGWTE  173 (229)
T ss_pred             EEEEccccccccHH-HHHHHhccCcccCCCCCcchheeccchhccChHhh---------hhhHHHHHHHHhccCccceee
Confidence            99999999999998 88999887765     2478899999999986632         011355677888899988999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +|++.+.||
T Consensus       174 ts~Kenkni  182 (229)
T KOG4423|consen  174 TSAKENKNI  182 (229)
T ss_pred             eccccccCh
Confidence            999998875

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.79  E-value=1.3e-18  Score=120.78  Aligned_cols=150  Identities=20%  Similarity=0.190  Sum_probs=97.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCC--C-----C----CCCC---ceeece-eEEEEECCeEEEEEEEeCCCCcccccc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKF--P-----T----DYIP---TVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRL   72 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~--~-----~----~~~~---~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~   72 (168)
                      .++|+++|+.++|||||+++|++..-  .     .    ...+   ..+... ...........++.++||||...|...
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~   81 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKN   81 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHH
Confidence            47899999999999999999986310  0     0    0000   001111 112223444567788999999887766


Q ss_pred             ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH
Q 030961           73 RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ  151 (168)
Q Consensus        73 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (168)
                      ....+..+|++++|+|+..+..-..  ...+..+..  .++| ++++.||+|+..... .      .....++.+.+...
T Consensus        82 ~~~~~~~~D~~ilVvda~~g~~~~~--~~~~~~~~~--~~~~~iIvviNK~D~~~~~~-~------~~~~~~~i~~~l~~  150 (195)
T cd01884          82 MITGAAQMDGAILVVSATDGPMPQT--REHLLLARQ--VGVPYIVVFLNKADMVDDEE-L------LELVEMEVRELLSK  150 (195)
T ss_pred             HHHHhhhCCEEEEEEECCCCCcHHH--HHHHHHHHH--cCCCcEEEEEeCCCCCCcHH-H------HHHHHHHHHHHHHH
Confidence            6777889999999999987543332  344445544  3466 778899999864321 0      01233456666655


Q ss_pred             hCC----cEEEEecccCccCC
Q 030961          152 IGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       152 ~~~----~~~~~~Sa~~~~~i  168 (168)
                      .+.    ++++++||++|.|+
T Consensus       151 ~g~~~~~v~iipiSa~~g~n~  171 (195)
T cd01884         151 YGFDGDNTPIVRGSALKALEG  171 (195)
T ss_pred             hcccccCCeEEEeeCccccCC
Confidence            543    58999999999874

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.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.78  E-value=5.5e-19  Score=135.42  Aligned_cols=153  Identities=22%  Similarity=0.345  Sum_probs=113.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      -...+||+++|+.|+||||||-.+....|+.. .|..-.+......+....+...+.|++..+.-+......++.||+++
T Consensus         6 t~kdVRIvliGD~G~GKtSLImSL~~eef~~~-VP~rl~~i~IPadvtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi~   84 (625)
T KOG1707|consen    6 TLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDA-VPRRLPRILIPADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVIC   84 (625)
T ss_pred             CccceEEEEECCCCccHHHHHHHHHhhhcccc-ccccCCccccCCccCcCcCceEEEecccccchhHHHHHHHhhcCEEE
Confidence            35689999999999999999999999988654 22222222222233444556788999877665555667789999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHH-HHHHHHHh-CCcEEEE
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQ-GEELRKQI-GASYYIE  159 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-~~~~~~~  159 (168)
                      ++|+++++++++.+...|+..+.+..   .++|+|+||||+|......          .+.+. ...+..++ .+...|+
T Consensus        85 lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~----------~s~e~~~~pim~~f~EiEtcie  154 (625)
T KOG1707|consen   85 LVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNEN----------NSDEVNTLPIMIAFAEIETCIE  154 (625)
T ss_pred             EEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccc----------cchhHHHHHHHHHhHHHHHHHh
Confidence            99999999999999999999999988   6899999999999987754          22222 23333323 3335688


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      |||++-.|+
T Consensus       155 cSA~~~~n~  163 (625)
T KOG1707|consen  155 CSALTLANV  163 (625)
T ss_pred             hhhhhhhhh
Confidence            999886653

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.77  E-value=8.6e-18  Score=126.41  Aligned_cols=150  Identities=20%  Similarity=0.182  Sum_probs=105.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccccc----------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRP----------   74 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~----------   74 (168)
                      ..+||+++|.|++|||||+|++++...  ......|..+.....+..++..+.+  +||.|...-....+          
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~~~l--iDTAGiRrk~ki~e~~E~~Sv~rt  254 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRKYVL--IDTAGIRRKGKITESVEKYSVART  254 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCeEEEE--EECCCCCcccccccceEEEeehhh
Confidence            469999999999999999999998753  3344445555556666677776666  99999543222111          


Q ss_pred             -ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           75 -LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        75 -~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                       ..+..++++++|+|++.+.+-+.  ......+.+  ...+++||.||+|+...+....+      ...++........+
T Consensus       255 ~~aI~~a~vvllviDa~~~~~~qD--~~ia~~i~~--~g~~~vIvvNKWDl~~~~~~~~~------~~k~~i~~~l~~l~  324 (444)
T COG1160         255 LKAIERADVVLLVIDATEGISEQD--LRIAGLIEE--AGRGIVIVVNKWDLVEEDEATME------EFKKKLRRKLPFLD  324 (444)
T ss_pred             HhHHhhcCEEEEEEECCCCchHHH--HHHHHHHHH--cCCCeEEEEEccccCCchhhHHH------HHHHHHHHHhcccc
Confidence             23567999999999998887766  456666666  47999999999999776331100      22334444445556


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      +.+.+++||++|.|+
T Consensus       325 ~a~i~~iSA~~~~~i  339 (444)
T COG1160         325 FAPIVFISALTGQGL  339 (444)
T ss_pred             CCeEEEEEecCCCCh
Confidence            678899999999885

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.77  E-value=6.7e-18  Score=133.85  Aligned_cols=113  Identities=22%  Similarity=0.224  Sum_probs=78.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCC----ceeeceeEEEEE---CCeE-----E-----EEEEEeCCCCcc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIP----TVFDNFSANVVA---EGTT-----V-----NLGLWDTAGQED   68 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~----~~~~~~~~~~~~---~~~~-----~-----~~~i~D~~g~~~   68 (168)
                      .+.+.|+++|++++|||||+++|.+.........    +++..+......   .+..     .     .+.+|||||++.
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            4566899999999999999999987654333222    222111100000   0111     1     167899999999


Q ss_pred             ccccccccccCCcEEEEEEeCCC---hhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccc
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVS---RASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR  125 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~  125 (168)
                      |..++...++.+|++++|+|+++   +.++..+ .    .+..  .++|+++++||+|+.
T Consensus        84 f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i-~----~~~~--~~vpiIvviNK~D~~  136 (586)
T PRK04004         84 FTNLRKRGGALADIAILVVDINEGFQPQTIEAI-N----ILKR--RKTPFVVAANKIDRI  136 (586)
T ss_pred             HHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHH-H----HHHH--cCCCEEEEEECcCCc
Confidence            99888888889999999999987   5555443 2    2222  468999999999985

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.77  E-value=6.3e-18  Score=134.65  Aligned_cols=147  Identities=17%  Similarity=0.174  Sum_probs=93.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC---CCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN---KFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      -|.++|+.++|||||+++|.+.   .+.+.....++.+.............+.+|||||++.|.......+.++|++++|
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLV   81 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLV   81 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECCCHHHHHHHHHHHhhcCCEEEEE
Confidence            4789999999999999999863   3333322222222211111111233478899999998876666668899999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC--cEEEEeccc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA--SYYIECSSK  163 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~  163 (168)
                      +|++++..-..  .+.+..+...  ++| ++||+||+|+.+...        .....++..++....++  .+++++||+
T Consensus        82 Vda~eg~~~qT--~ehl~il~~l--gi~~iIVVlNKiDlv~~~~--------~~~v~~ei~~~l~~~~~~~~~ii~VSA~  149 (614)
T PRK10512         82 VACDDGVMAQT--REHLAILQLT--GNPMLTVALTKADRVDEAR--------IAEVRRQVKAVLREYGFAEAKLFVTAAT  149 (614)
T ss_pred             EECCCCCcHHH--HHHHHHHHHc--CCCeEEEEEECCccCCHHH--------HHHHHHHHHHHHHhcCCCCCcEEEEeCC
Confidence            99987433222  2233333332  355 579999999965321        00123455555555442  479999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+|+
T Consensus       150 tG~gI  154 (614)
T PRK10512        150 EGRGI  154 (614)
T ss_pred             CCCCC
Confidence            99986

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.77  E-value=2.1e-18  Score=122.03  Aligned_cols=153  Identities=13%  Similarity=-0.001  Sum_probs=90.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC--CCC--------------C--------CCCce-----eece-eEEEEECCeEEEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK--FPT--------------D--------YIPTV-----FDNF-SANVVAEGTTVNLG   59 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~--~~~--------------~--------~~~~~-----~~~~-~~~~~~~~~~~~~~   59 (168)
                      +|+++|+.++|||||+.+|+...  ...              .        .+.+.     +... .....+......+.
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~   80 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFT   80 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEE
Confidence            48999999999999999987421  100              0        00000     0001 11122333457788


Q ss_pred             EEeCCCCccccccccccccCCcEEEEEEeCCChhH-----H-HHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc
Q 030961           60 LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRAS-----Y-ENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD  133 (168)
Q Consensus        60 i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s-----~-~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~  133 (168)
                      +|||||+..|...+...+..+|++++|+|++++..     . ... ......... ....|+++++||+|+........ 
T Consensus        81 liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~iiivvNK~Dl~~~~~~~~-  157 (219)
T cd01883          81 ILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQT-REHALLART-LGVKQLIVAVNKMDDVTVNWSEE-  157 (219)
T ss_pred             EEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccch-HHHHHHHHH-cCCCeEEEEEEccccccccccHH-
Confidence            89999998776666666788999999999988421     1 111 122222222 22368999999999973210000 


Q ss_pred             CCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          134 HPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                         ......+++..+....+.    .+++++||++|+||
T Consensus       158 ---~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi  193 (219)
T cd01883         158 ---RYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNL  193 (219)
T ss_pred             ---HHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCC
Confidence               000122334444455543    47999999999986

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

>cd04167 Snu114p Snu114p subfamily

Probab=99.77  E-value=4e-18  Score=120.12  Aligned_cols=112  Identities=21%  Similarity=0.232  Sum_probs=79.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCC-----------CCc------eeecee-E--EEEE---CCeEEEEEEEeCCCC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDY-----------IPT------VFDNFS-A--NVVA---EGTTVNLGLWDTAGQ   66 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~-----------~~~------~~~~~~-~--~~~~---~~~~~~~~i~D~~g~   66 (168)
                      +|+++|+.++|||||+++|+........           ..+      .+..+. .  ....   ++..+.+.+|||||+
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            6899999999999999999875432110           000      011110 1  1111   355788999999999


Q ss_pred             ccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccc
Q 030961           67 EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR  125 (168)
Q Consensus        67 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~  125 (168)
                      ..|.......+..+|++++|+|+.+..+...  ..++..+..  .+.|+++++||+|+.
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            9988777888899999999999988776643  344444433  358999999999985

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.

>PRK10218 GTP-binding protein; Provisional

Probab=99.77  E-value=1.3e-17  Score=132.31  Aligned_cols=147  Identities=12%  Similarity=0.048  Sum_probs=100.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc--CCCCCCCC------------Cceeece-eEEEEECCeEEEEEEEeCCCCccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS--NKFPTDYI------------PTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR   71 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~--~~~~~~~~------------~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~   71 (168)
                      ...+|+++|+.++|||||+.+|+.  +.+.....            .+.+..+ .+...+....+.+.+|||||+..|..
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~   83 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGG   83 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHH
Confidence            467899999999999999999996  33322211            1122222 23344556678899999999999999


Q ss_pred             cccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH
Q 030961           72 LRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ  151 (168)
Q Consensus        72 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (168)
                      .+...++.+|++++|+|+.+......  ..++..+..  .++|.++++||+|+...+..         ...++...+...
T Consensus        84 ~v~~~l~~aDg~ILVVDa~~G~~~qt--~~~l~~a~~--~gip~IVviNKiD~~~a~~~---------~vl~ei~~l~~~  150 (607)
T PRK10218         84 EVERVMSMVDSVLLVVDAFDGPMPQT--RFVTKKAFA--YGLKPIVVINKVDRPGARPD---------WVVDQVFDLFVN  150 (607)
T ss_pred             HHHHHHHhCCEEEEEEecccCccHHH--HHHHHHHHH--cCCCEEEEEECcCCCCCchh---------HHHHHHHHHHhc
Confidence            99999999999999999987654433  333343333  36899999999998754320         112233333211


Q ss_pred             -------hCCcEEEEecccCccC
Q 030961          152 -------IGASYYIECSSKTQQV  167 (168)
Q Consensus       152 -------~~~~~~~~~Sa~~~~~  167 (168)
                             ..+ +++++||++|.|
T Consensus       151 l~~~~~~~~~-PVi~~SA~~G~~  172 (607)
T PRK10218        151 LDATDEQLDF-PIVYASALNGIA  172 (607)
T ss_pred             cCccccccCC-CEEEeEhhcCcc
Confidence                   233 789999999974

>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=99.77  E-value=4e-17  Score=116.39  Aligned_cols=82  Identities=21%  Similarity=0.214  Sum_probs=54.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeeceeEEEEECCeEEEEEEEeCCCCccccc-------cccccccCCc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR-------LRPLSYRGAD   81 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-------~~~~~~~~~~   81 (168)
                      +++++|.+|+|||||+++|.+..... .+..+........+.+++  ..+++||+||......       .....++++|
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~~--~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad   79 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYKG--AKIQLLDLPGIIEGAADGKGRGRQVIAVARTAD   79 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEECC--eEEEEEECCCcccccccchhHHHHHHHhhccCC
Confidence            68999999999999999999875322 111111111122333443  5677899999754331       1224578999


Q ss_pred             EEEEEEeCCChh
Q 030961           82 VFVLAFSLVSRA   93 (168)
Q Consensus        82 ~~i~v~d~~~~~   93 (168)
                      ++++|+|++++.
T Consensus        80 ~il~V~D~t~~~   91 (233)
T cd01896          80 LILMVLDATKPE   91 (233)
T ss_pred             EEEEEecCCcch
Confidence            999999998765

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.

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.76  E-value=2.7e-18  Score=122.94  Aligned_cols=122  Identities=17%  Similarity=0.180  Sum_probs=89.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc------------ccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY------------NRL   72 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~------------~~~   72 (168)
                      ..+.++|+++|.||+|||||.|.+++.+.......+-+++......+.....++.++||||.-.-            ..-
T Consensus        69 ~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~  148 (379)
T KOG1423|consen   69 AQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQN  148 (379)
T ss_pred             cceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCceEEEEecCCcccccchhhhHHHHHHhhhC
Confidence            35789999999999999999999999987665555555555555566777889999999994221            111


Q ss_pred             ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccch
Q 030961           73 RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH  129 (168)
Q Consensus        73 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~  129 (168)
                      ....+..||.+++++|+++.-....  ...+..+.++ ..+|-++|.||+|......
T Consensus       149 ~~~a~q~AD~vvVv~Das~tr~~l~--p~vl~~l~~y-s~ips~lvmnkid~~k~k~  202 (379)
T KOG1423|consen  149 PRDAAQNADCVVVVVDASATRTPLH--PRVLHMLEEY-SKIPSILVMNKIDKLKQKR  202 (379)
T ss_pred             HHHHHhhCCEEEEEEeccCCcCccC--hHHHHHHHHH-hcCCceeeccchhcchhhh
Confidence            2233567999999999987332222  3455556555 4789999999999887654

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.76  E-value=1.5e-18  Score=111.21  Aligned_cols=146  Identities=16%  Similarity=0.150  Sum_probs=111.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      ++..+++++|..|+||||+..++.-+.. ..+.|+++....   .+..+..++++||..|+-..++.|..++.+.+++|+
T Consensus        16 e~e~rililgldGaGkttIlyrlqvgev-vttkPtigfnve---~v~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIy   91 (182)
T KOG0072|consen   16 EREMRILILGLDGAGKTTILYRLQVGEV-VTTKPTIGFNVE---TVPYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIY   91 (182)
T ss_pred             ccceEEEEeeccCCCeeEEEEEcccCcc-cccCCCCCcCcc---ccccccccceeeEccCcccccHHHHHHhcccceEEE
Confidence            4789999999999999999988876543 344676665443   344467888999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH-----HHHHhCCcEEEE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE-----LRKQIGASYYIE  159 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~  159 (168)
                      |+|.+|++.......+++..+.+.. ....+++++||.|....            ....++..     -.+..- ..+|+
T Consensus        92 VVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~------------~t~~E~~~~L~l~~Lk~r~-~~Iv~  158 (182)
T KOG0072|consen   92 VVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGA------------LTRSEVLKMLGLQKLKDRI-WQIVK  158 (182)
T ss_pred             EEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhh------------hhHHHHHHHhChHHHhhhe-eEEEe
Confidence            9999998877766567777777755 56888999999998654            22222211     112222 47899


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||.+|+|+
T Consensus       159 tSA~kg~Gl  167 (182)
T KOG0072|consen  159 TSAVKGEGL  167 (182)
T ss_pred             eccccccCC
Confidence            999999985

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.75  E-value=8e-18  Score=128.83  Aligned_cols=152  Identities=17%  Similarity=0.085  Sum_probs=93.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCC---CC--CCceeecee-----------------EEEEECC------eEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPT---DY--IPTVFDNFS-----------------ANVVAEG------TTVN   57 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~---~~--~~~~~~~~~-----------------~~~~~~~------~~~~   57 (168)
                      .+.++|+++|+.++|||||+.+|.+.....   ..  .-|....+.                 .....++      ....
T Consensus         2 ~~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (406)
T TIGR03680         2 QPEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRR   81 (406)
T ss_pred             CceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccE
Confidence            457899999999999999999996532111   00  001111110                 0000011      1467


Q ss_pred             EEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCC
Q 030961           58 LGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGL  137 (168)
Q Consensus        58 ~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~  137 (168)
                      +.+||+||++.|...+...+..+|++++|+|++++...... .+.+..+... .-.|+++++||+|+.......      
T Consensus        82 i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt-~e~l~~l~~~-gi~~iIVvvNK~Dl~~~~~~~------  153 (406)
T TIGR03680        82 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQT-KEHLMALEII-GIKNIVIVQNKIDLVSKEKAL------  153 (406)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccch-HHHHHHHHHc-CCCeEEEEEEccccCCHHHHH------
Confidence            88999999999887777777889999999999865311111 2222333222 235789999999997543200      


Q ss_pred             CcccHHHHHHHHHHh---CCcEEEEecccCccCC
Q 030961          138 VPVTTAQGEELRKQI---GASYYIECSSKTQQVC  168 (168)
Q Consensus       138 ~~~~~~~~~~~~~~~---~~~~~~~~Sa~~~~~i  168 (168)
                        ...++...+....   ++ +++++||++|+|+
T Consensus       154 --~~~~~i~~~l~~~~~~~~-~ii~vSA~~g~gi  184 (406)
T TIGR03680       154 --ENYEEIKEFVKGTVAENA-PIIPVSALHNANI  184 (406)
T ss_pred             --HHHHHHHhhhhhcccCCC-eEEEEECCCCCCh
Confidence              1223444444433   44 8999999999986

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.75  E-value=1.4e-17  Score=118.85  Aligned_cols=114  Identities=18%  Similarity=0.099  Sum_probs=81.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC-----C-CCCCce----------eece-eEEEEECCeEEEEEEEeCCCCcccccc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFP-----T-DYIPTV----------FDNF-SANVVAEGTTVNLGLWDTAGQEDYNRL   72 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~-----~-~~~~~~----------~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~   72 (168)
                      +|+++|++|+|||||+++|+...-.     . ....+.          +... .....+.....++.+|||||+..|...
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~   80 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAE   80 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHH
Confidence            4899999999999999999863110     0 000010          0111 112333445678889999999999888


Q ss_pred             ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           73 RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        73 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      +...++.+|++++|+|+.+......  +.+...+.+  .++|+++++||+|+...
T Consensus        81 ~~~~l~~aD~~IlVvd~~~g~~~~~--~~~~~~~~~--~~~P~iivvNK~D~~~a  131 (237)
T cd04168          81 VERSLSVLDGAILVISAVEGVQAQT--RILWRLLRK--LNIPTIIFVNKIDRAGA  131 (237)
T ss_pred             HHHHHHHhCeEEEEEeCCCCCCHHH--HHHHHHHHH--cCCCEEEEEECccccCC
Confidence            8889999999999999988765433  455565555  36899999999999764

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.74  E-value=2e-17  Score=131.22  Aligned_cols=144  Identities=13%  Similarity=0.069  Sum_probs=97.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC--CCCCCCCC------------ceeece-eEEEEECCeEEEEEEEeCCCCccccccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN--KFPTDYIP------------TVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLR   73 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~--~~~~~~~~------------~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~   73 (168)
                      -+|+++|+.++|||||+.+|+..  .+......            ..+.+. .+...+....+.+.+|||||+..|...+
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev   81 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEV   81 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHH
Confidence            37999999999999999999862  23221100            011222 2233445556888899999999998888


Q ss_pred             cccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH---
Q 030961           74 PLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK---  150 (168)
Q Consensus        74 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~---  150 (168)
                      ...++.+|++++|+|+.+...-. . ..|+..+..  .++|+++++||+|+...+..         ...++...+..   
T Consensus        82 ~~~l~~aD~alLVVDa~~G~~~q-T-~~~l~~a~~--~~ip~IVviNKiD~~~a~~~---------~v~~ei~~l~~~~g  148 (594)
T TIGR01394        82 ERVLGMVDGVLLLVDASEGPMPQ-T-RFVLKKALE--LGLKPIVVINKIDRPSARPD---------EVVDEVFDLFAELG  148 (594)
T ss_pred             HHHHHhCCEEEEEEeCCCCCcHH-H-HHHHHHHHH--CCCCEEEEEECCCCCCcCHH---------HHHHHHHHHHHhhc
Confidence            88999999999999998754322 2 456565555  36899999999998654320         11233333332   


Q ss_pred             ----HhCCcEEEEecccCcc
Q 030961          151 ----QIGASYYIECSSKTQQ  166 (168)
Q Consensus       151 ----~~~~~~~~~~Sa~~~~  166 (168)
                          ...+ +++++||++|.
T Consensus       149 ~~~e~l~~-pvl~~SA~~g~  167 (594)
T TIGR01394       149 ADDEQLDF-PIVYASGRAGW  167 (594)
T ss_pred             cccccccC-cEEechhhcCc
Confidence                2234 78999999985

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.

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.74  E-value=2.8e-17  Score=116.41  Aligned_cols=114  Identities=19%  Similarity=0.202  Sum_probs=74.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCc-----------------------eeeceeEE--------------EEEC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPT-----------------------VFDNFSAN--------------VVAE   52 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~-----------------------~~~~~~~~--------------~~~~   52 (168)
                      |++++|+.++|||||+.+|..+.+.......                       .+.+....              ....
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            6899999999999999999976553211100                       00000000              0011


Q ss_pred             CeEEEEEEEeCCCCccccccccccc--cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           53 GTTVNLGLWDTAGQEDYNRLRPLSY--RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        53 ~~~~~~~i~D~~g~~~~~~~~~~~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      .....+.++||||++.|.......+  ..+|++++|+|+..+..-..  ..++..+..  .++|++++.||+|+.+.
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d--~~~l~~l~~--~~ip~ivvvNK~D~~~~  153 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMT--KEHLGLALA--LNIPVFVVVTKIDLAPA  153 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHH--HHHHHHHHH--cCCCEEEEEECccccCH
Confidence            1235678899999988865433334  36899999999877654332  455555555  35899999999998654

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=99.74  E-value=2.6e-17  Score=111.13  Aligned_cols=144  Identities=17%  Similarity=0.065  Sum_probs=85.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCcc----------cccccccccc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQED----------YNRLRPLSYR   78 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~----------~~~~~~~~~~   78 (168)
                      .|+++|.+|+|||||++.+.+..+.....++.+..... ....++   .+.+||+||...          +......++.
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~   77 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLE   77 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHH
Confidence            37999999999999999999665544444444333222 222222   788899999533          2222222332


Q ss_pred             ---CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH-HhCC
Q 030961           79 ---GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK-QIGA  154 (168)
Q Consensus        79 ---~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  154 (168)
                         .++.+++++|..+..+...  ....+.+..  .+.|+++++||+|+.....        ............. ....
T Consensus        78 ~~~~~~~~~~v~d~~~~~~~~~--~~~~~~l~~--~~~~vi~v~nK~D~~~~~~--------~~~~~~~~~~~l~~~~~~  145 (170)
T cd01876          78 NRENLKGVVLLIDSRHGPTEID--LEMLDWLEE--LGIPFLVVLTKADKLKKSE--------LAKALKEIKKELKLFEID  145 (170)
T ss_pred             hChhhhEEEEEEEcCcCCCHhH--HHHHHHHHH--cCCCEEEEEEchhcCChHH--------HHHHHHHHHHHHHhccCC
Confidence               4678899999876532222  122233333  2489999999999854321        0011222222222 2333


Q ss_pred             cEEEEecccCccCC
Q 030961          155 SYYIECSSKTQQVC  168 (168)
Q Consensus       155 ~~~~~~Sa~~~~~i  168 (168)
                      .+++++||+++.|+
T Consensus       146 ~~~~~~Sa~~~~~~  159 (170)
T cd01876         146 PPIILFSSLKGQGI  159 (170)
T ss_pred             CceEEEecCCCCCH
Confidence            47899999999874

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.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.74  E-value=3.9e-17  Score=124.72  Aligned_cols=151  Identities=19%  Similarity=0.145  Sum_probs=96.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC-------CCC--CCCCc-----eeece-eEEEEECCeEEEEEEEeCCCCccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK-------FPT--DYIPT-----VFDNF-SANVVAEGTTVNLGLWDTAGQEDY   69 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~-------~~~--~~~~~-----~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~   69 (168)
                      .++.++|+++|+.++|||||+++|++..       +..  ..+..     .+.+. ......+....++.+|||||++.|
T Consensus         9 ~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~~f   88 (394)
T TIGR00485         9 TKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHADY   88 (394)
T ss_pred             CCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchHHH
Confidence            4678999999999999999999997420       000  00000     01111 112334445567889999999988


Q ss_pred             cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEE-EEeeCCcccccchhhhcCCCCCcccHHHHHHH
Q 030961           70 NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVV-LVGTKLDLREDKHYLADHPGLVPVTTAQGEEL  148 (168)
Q Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~i-vv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  148 (168)
                      .......+..+|++++|+|+.++.....  .+.+..+..  .++|.+ +++||+|+.+.....       ....++.+.+
T Consensus        89 ~~~~~~~~~~~D~~ilVvda~~g~~~qt--~e~l~~~~~--~gi~~iIvvvNK~Dl~~~~~~~-------~~~~~~i~~~  157 (394)
T TIGR00485        89 VKNMITGAAQMDGAILVVSATDGPMPQT--REHILLARQ--VGVPYIVVFLNKCDMVDDEELL-------ELVEMEVREL  157 (394)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCcHHH--HHHHHHHHH--cCCCEEEEEEEecccCCHHHHH-------HHHHHHHHHH
Confidence            6655556678999999999987433322  233344443  256755 689999987532200       0223467777


Q ss_pred             HHHhCC----cEEEEecccCcc
Q 030961          149 RKQIGA----SYYIECSSKTQQ  166 (168)
Q Consensus       149 ~~~~~~----~~~~~~Sa~~~~  166 (168)
                      +..++.    .+++++||.+|.
T Consensus       158 l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       158 LSEYDFPGDDTPIIRGSALKAL  179 (394)
T ss_pred             HHhcCCCccCccEEECcccccc
Confidence            777763    489999999875

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.

>cd04169 RF3 RF3 subfamily

Probab=99.73  E-value=8.2e-17  Score=116.78  Aligned_cols=115  Identities=17%  Similarity=0.142  Sum_probs=79.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCC--CCCC--------CCCcee----------ece-eEEEEECCeEEEEEEEeCCCCc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNK--FPTD--------YIPTVF----------DNF-SANVVAEGTTVNLGLWDTAGQE   67 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~--~~~~--------~~~~~~----------~~~-~~~~~~~~~~~~~~i~D~~g~~   67 (168)
                      -+|+++|++|+|||||+++++...  ....        ...+..          ..+ .....+....+++.+|||||+.
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~   82 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHE   82 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCch
Confidence            479999999999999999997521  1100        000110          011 1123455667888999999999


Q ss_pred             cccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           68 DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        68 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      .|.......++.+|++++|+|++++.....  +.+......  .++|+++++||+|+...
T Consensus        83 df~~~~~~~l~~aD~~IlVvda~~g~~~~~--~~i~~~~~~--~~~P~iivvNK~D~~~a  138 (267)
T cd04169          83 DFSEDTYRTLTAVDSAVMVIDAAKGVEPQT--RKLFEVCRL--RGIPIITFINKLDREGR  138 (267)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCccHHH--HHHHHHHHh--cCCCEEEEEECCccCCC
Confidence            887766777899999999999987654332  344444433  36899999999998655

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.73  E-value=4e-17  Score=124.63  Aligned_cols=152  Identities=18%  Similarity=0.149  Sum_probs=97.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC-------CCCC--CCCCce-----eecee-EEEEECCeEEEEEEEeCCCCccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN-------KFPT--DYIPTV-----FDNFS-ANVVAEGTTVNLGLWDTAGQEDY   69 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~-------~~~~--~~~~~~-----~~~~~-~~~~~~~~~~~~~i~D~~g~~~~   69 (168)
                      .++.++|+++|++++|||||+++|++.       .+..  ..+.+.     +.+.. ..........++.++||||++.|
T Consensus         9 ~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~~f   88 (396)
T PRK12735          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADY   88 (396)
T ss_pred             CCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHHHH
Confidence            457889999999999999999999862       1100  000000     11111 11223334557788999999887


Q ss_pred             cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEE-EEeeCCcccccchhhhcCCCCCcccHHHHHHH
Q 030961           70 NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVV-LVGTKLDLREDKHYLADHPGLVPVTTAQGEEL  148 (168)
Q Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~i-vv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  148 (168)
                      .......+..+|++++|+|+.+...-..  .+++..+..  .++|.+ +++||+|+.....       ......++.+.+
T Consensus        89 ~~~~~~~~~~aD~~llVvda~~g~~~qt--~e~l~~~~~--~gi~~iivvvNK~Dl~~~~~-------~~~~~~~ei~~~  157 (396)
T PRK12735         89 VKNMITGAAQMDGAILVVSAADGPMPQT--REHILLARQ--VGVPYIVVFLNKCDMVDDEE-------LLELVEMEVREL  157 (396)
T ss_pred             HHHHHhhhccCCEEEEEEECCCCCchhH--HHHHHHHHH--cCCCeEEEEEEecCCcchHH-------HHHHHHHHHHHH
Confidence            6655666789999999999987543322  334444443  357865 5799999964321       001233456667


Q ss_pred             HHHhCC----cEEEEecccCccC
Q 030961          149 RKQIGA----SYYIECSSKTQQV  167 (168)
Q Consensus       149 ~~~~~~----~~~~~~Sa~~~~~  167 (168)
                      ...++.    .+++++||++|.|
T Consensus       158 l~~~~~~~~~~~ii~~Sa~~g~n  180 (396)
T PRK12735        158 LSKYDFPGDDTPIIRGSALKALE  180 (396)
T ss_pred             HHHcCCCcCceeEEecchhcccc
Confidence            766653    4799999999865

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.73  E-value=2.2e-17  Score=108.25  Aligned_cols=117  Identities=21%  Similarity=0.331  Sum_probs=92.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.=|++++|..|+|||||++.|.+++. ..+.||.--. +..+.+.+  .+++.+|.+|+...+..|..++..+|++++.
T Consensus        19 K~gKllFlGLDNAGKTTLLHMLKdDrl-~qhvPTlHPT-SE~l~Ig~--m~ftt~DLGGH~qArr~wkdyf~~v~~iv~l   94 (193)
T KOG0077|consen   19 KFGKLLFLGLDNAGKTTLLHMLKDDRL-GQHVPTLHPT-SEELSIGG--MTFTTFDLGGHLQARRVWKDYFPQVDAIVYL   94 (193)
T ss_pred             cCceEEEEeecCCchhhHHHHHccccc-cccCCCcCCC-hHHheecC--ceEEEEccccHHHHHHHHHHHHhhhceeEee
Confidence            345899999999999999999988876 3445554222 22334444  4556699999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCccccc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLRED  127 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~  127 (168)
                      +|+.|.+.|.+.+.++-..+.... .+.|+++++||+|...+
T Consensus        95 vda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a  136 (193)
T KOG0077|consen   95 VDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYA  136 (193)
T ss_pred             eehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCc
Confidence            999999999998555555544443 68999999999999876

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.73  E-value=4.2e-17  Score=123.06  Aligned_cols=140  Identities=23%  Similarity=0.243  Sum_probs=96.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccccc--------c
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRP--------L   75 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~--------~   75 (168)
                      +..+|++++|.||+|||||+|.|.+...  .+.-..|..+-....+.++|..  +.+.||.|..+-....+        .
T Consensus       215 r~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G~p--v~l~DTAGiRet~d~VE~iGIeRs~~  292 (454)
T COG0486         215 REGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNGIP--VRLVDTAGIRETDDVVERIGIERAKK  292 (454)
T ss_pred             hcCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECCEE--EEEEecCCcccCccHHHHHHHHHHHH
Confidence            3478999999999999999999998764  3444455555556667777654  55599999765433322        2


Q ss_pred             cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           76 SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      .+++||.+++|+|++.+.+-...  ..+.   ....+.|+++|.||.|+.....               ........+. 
T Consensus       293 ~i~~ADlvL~v~D~~~~~~~~d~--~~~~---~~~~~~~~i~v~NK~DL~~~~~---------------~~~~~~~~~~-  351 (454)
T COG0486         293 AIEEADLVLFVLDASQPLDKEDL--ALIE---LLPKKKPIIVVLNKADLVSKIE---------------LESEKLANGD-  351 (454)
T ss_pred             HHHhCCEEEEEEeCCCCCchhhH--HHHH---hcccCCCEEEEEechhcccccc---------------cchhhccCCC-
Confidence            36789999999999986433332  2233   2235799999999999987642               1111111222 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++.+||++|+|+
T Consensus       352 ~~i~iSa~t~~Gl  364 (454)
T COG0486         352 AIISISAKTGEGL  364 (454)
T ss_pred             ceEEEEecCccCH
Confidence            6899999999885

>cd01850 CDC_Septin CDC/Septin

Probab=99.73  E-value=2.3e-16  Score=114.96  Aligned_cols=142  Identities=15%  Similarity=0.108  Sum_probs=89.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCC----------CCCceeece-eEEEEECCeEEEEEEEeCCCCccc------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTD----------YIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDY------   69 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~----------~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~------   69 (168)
                      ..++|+++|.+|+|||||+|+|++..+...          ..+|..... ...+..++..+.+.+|||||....      
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~   82 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDC   82 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhh
Confidence            368999999999999999999999876433          233333332 334556778899999999994221      


Q ss_pred             --------------------ccccccccc--CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           70 --------------------NRLRPLSYR--GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        70 --------------------~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                                          .......+.  .+|+++++++.+.. .+.....++++.+..   .+|+++|+||+|+...
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 WKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGH-GLKPLDIEFMKRLSK---RVNIIPVIAKADTLTP  158 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCC-CCCHHHHHHHHHHhc---cCCEEEEEECCCcCCH
Confidence                                111112233  46778888876541 222211344555543   5899999999999653


Q ss_pred             chhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961          128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ...        ........+.+..+++ ++|...
T Consensus       159 ~e~--------~~~k~~i~~~l~~~~i-~~~~~~  183 (276)
T cd01850         159 EEL--------KEFKQRIMEDIEEHNI-KIYKFP  183 (276)
T ss_pred             HHH--------HHHHHHHHHHHHHcCC-ceECCC
Confidence            220        0334556666666776 555543

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.

>CHL00071 tufA elongation factor Tu

Probab=99.73  E-value=5.2e-17  Score=124.51  Aligned_cols=152  Identities=20%  Similarity=0.142  Sum_probs=98.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCC------C----------CCCceeeceeEEEEECCeEEEEEEEeCCCCcc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPT------D----------YIPTVFDNFSANVVAEGTTVNLGLWDTAGQED   68 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~------~----------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   68 (168)
                      +.+.++|+++|++++|||||+++|++..-..      .          .....+.+. ..........++.+.||||+..
T Consensus         9 ~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~-~~~~~~~~~~~~~~iDtPGh~~   87 (409)
T CHL00071          9 KKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINT-AHVEYETENRHYAHVDCPGHAD   87 (409)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEc-cEEEEccCCeEEEEEECCChHH
Confidence            4678999999999999999999998642100      0          001111111 1112233445677899999987


Q ss_pred             ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHH
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE  147 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  147 (168)
                      |.......+..+|++++|+|+.....-..  .+.+..+..  .++| ++++.||+|+..... .      .....+++..
T Consensus        88 ~~~~~~~~~~~~D~~ilVvda~~g~~~qt--~~~~~~~~~--~g~~~iIvvvNK~D~~~~~~-~------~~~~~~~l~~  156 (409)
T CHL00071         88 YVKNMITGAAQMDGAILVVSAADGPMPQT--KEHILLAKQ--VGVPNIVVFLNKEDQVDDEE-L------LELVELEVRE  156 (409)
T ss_pred             HHHHHHHHHHhCCEEEEEEECCCCCcHHH--HHHHHHHHH--cCCCEEEEEEEccCCCCHHH-H------HHHHHHHHHH
Confidence            76666667789999999999886543322  344444444  3578 778999999975322 0      0023345666


Q ss_pred             HHHHhCC----cEEEEecccCccCC
Q 030961          148 LRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       148 ~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      +....+.    .+++++||.+|.|+
T Consensus       157 ~l~~~~~~~~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        157 LLSKYDFPGDDIPIVSGSALLALEA  181 (409)
T ss_pred             HHHHhCCCCCcceEEEcchhhcccc
Confidence            6666553    58999999999763

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.72  E-value=1.6e-16  Score=114.38  Aligned_cols=146  Identities=17%  Similarity=0.167  Sum_probs=100.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc----ccccccc---ccCCc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY----NRLRPLS---YRGAD   81 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~~~~~~~---~~~~~   81 (168)
                      ..+.+||-|++|||||++.+...+-..-..+-.+..-.....-.+...++.+-|.||.-+-    +.+-..+   +..|+
T Consensus       197 advGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf~q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~  276 (366)
T KOG1489|consen  197 ADVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDFSQITVADIPGIIEGAHMNKGLGYKFLRHIERCK  276 (366)
T ss_pred             cccceecCCCCcHHHHHHHhhccCCcccccceeeeccccceeeccccceeEeccCccccccccccCcccHHHHHHHHhhc
Confidence            3578999999999999999998875332222222221222222233445888999995432    2233333   45799


Q ss_pred             EEEEEEeCCCh---hHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           82 VFVLAFSLVSR---ASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        82 ~~i~v~d~~~~---~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      .++||+|.+.+   ..++.+ +.+..++..+.   .+.|.+||+||+|+.+..             ...++++++.+.-.
T Consensus       277 ~l~fVvD~s~~~~~~p~~~~-~lL~~ELe~yek~L~~rp~liVaNKiD~~eae-------------~~~l~~L~~~lq~~  342 (366)
T KOG1489|consen  277 GLLFVVDLSGKQLRNPWQQL-QLLIEELELYEKGLADRPALIVANKIDLPEAE-------------KNLLSSLAKRLQNP  342 (366)
T ss_pred             eEEEEEECCCcccCCHHHHH-HHHHHHHHHHhhhhccCceEEEEeccCchhHH-------------HHHHHHHHHHcCCC
Confidence            99999999987   666665 55555555543   689999999999996432             23357888888876


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++++|+
T Consensus       343 ~V~pvsA~~~egl  355 (366)
T KOG1489|consen  343 HVVPVSAKSGEGL  355 (366)
T ss_pred             cEEEeeeccccch
Confidence            7999999999874

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.72  E-value=1.5e-16  Score=124.70  Aligned_cols=141  Identities=17%  Similarity=0.188  Sum_probs=106.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCcccccccccc------c--c
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDYNRLRPLS------Y--R   78 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~~~~~~~~------~--~   78 (168)
                      .++++++|+||+|||||+|++.+.+....+.|-.+.+.+. .....+..  +++.|+||...+.......      +  .
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~~--i~ivDLPG~YSL~~~S~DE~Var~~ll~~   80 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGHE--IEIVDLPGTYSLTAYSEDEKVARDFLLEG   80 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCce--EEEEeCCCcCCCCCCCchHHHHHHHHhcC
Confidence            4569999999999999999999998877778877766533 34444444  6779999987765543332      2  3


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      .+|+++.|+|++|-+.--.+   .+ ++.+  -+.|++++.|++|..+.+.           ..-+.+++.+.+|+ +.+
T Consensus        81 ~~D~ivnVvDAtnLeRnLyl---tl-QLlE--~g~p~ilaLNm~D~A~~~G-----------i~ID~~~L~~~LGv-PVv  142 (653)
T COG0370          81 KPDLIVNVVDATNLERNLYL---TL-QLLE--LGIPMILALNMIDEAKKRG-----------IRIDIEKLSKLLGV-PVV  142 (653)
T ss_pred             CCCEEEEEcccchHHHHHHH---HH-HHHH--cCCCeEEEeccHhhHHhcC-----------CcccHHHHHHHhCC-CEE
Confidence            57999999999886644332   22 2333  3689999999999987653           34556788889998 999


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+|+
T Consensus       143 ~tvA~~g~G~  152 (653)
T COG0370         143 PTVAKRGEGL  152 (653)
T ss_pred             EEEeecCCCH
Confidence            9999999984

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.72  E-value=5e-17  Score=124.48  Aligned_cols=155  Identities=16%  Similarity=0.071  Sum_probs=92.8

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCCCC---CC--CCCceeece-----------------eEEEEEC--C----e
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNKFP---TD--YIPTVFDNF-----------------SANVVAE--G----T   54 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~---~~--~~~~~~~~~-----------------~~~~~~~--~----~   54 (168)
                      ....+.++|+++|+.++|||||+.+|.+....   .+  ...|+...+                 ......+  +    .
T Consensus         4 ~~~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (411)
T PRK04000          4 EKVQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETEL   83 (411)
T ss_pred             ccCCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccccccccc
Confidence            44667899999999999999999988653111   10  011111111                 0000011  0    1


Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD  133 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~  133 (168)
                      ...+.+|||||++.|.......+..+|++++|+|++++. .-..  ...+..+... ...|+++++||+|+.+....   
T Consensus        84 ~~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t--~~~l~~l~~~-~i~~iiVVlNK~Dl~~~~~~---  157 (411)
T PRK04000         84 LRRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQT--KEHLMALDII-GIKNIVIVQNKIDLVSKERA---  157 (411)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhH--HHHHHHHHHc-CCCcEEEEEEeeccccchhH---
Confidence            367889999999887665555566789999999998643 1211  1122222221 22478999999999754320   


Q ss_pred             CCCCCcccHHHHHHHHHHh--CCcEEEEecccCccCC
Q 030961          134 HPGLVPVTTAQGEELRKQI--GASYYIECSSKTQQVC  168 (168)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~i  168 (168)
                           ....++...+...+  ...+++++||++|+|+
T Consensus       158 -----~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gI  189 (411)
T PRK04000        158 -----LENYEQIKEFVKGTVAENAPIIPVSALHKVNI  189 (411)
T ss_pred             -----HHHHHHHHHHhccccCCCCeEEEEECCCCcCH
Confidence                 01123444444332  1238999999999985

>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=99.72  E-value=1.3e-17  Score=113.31  Aligned_cols=117  Identities=15%  Similarity=0.113  Sum_probs=76.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEE-CCeEEEEEEEeCCCCccccccccc---cccCCcEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQEDYNRLRPL---SYRGADVF   83 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~---~~~~~~~~   83 (168)
                      ...|+++|++|+|||+|+.+|..+......... ..  .....+ ......+.++|+||+++++.....   ++..+.++
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e~--n~~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~I   79 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-EN--NIAYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGI   79 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B---S-SE--EEECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEE
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-cC--CceEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEE
Confidence            457999999999999999999998553322222 11  111112 233445778999999998864333   47789999


Q ss_pred             EEEEeCCC-hhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCccccc
Q 030961           84 VLAFSLVS-RASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLRED  127 (168)
Q Consensus        84 i~v~d~~~-~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~  127 (168)
                      |||+|.+. +..+..+.+.++..|....   ..+|++|++||.|+...
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            99999874 5567777677777766544   57899999999999865

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.71  E-value=2.6e-16  Score=111.10  Aligned_cols=112  Identities=17%  Similarity=0.150  Sum_probs=78.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC--CCCCCCCce------------eece--e-EEEEEC--------CeEEEEEEEeCC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK--FPTDYIPTV------------FDNF--S-ANVVAE--------GTTVNLGLWDTA   64 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~--~~~~~~~~~------------~~~~--~-~~~~~~--------~~~~~~~i~D~~   64 (168)
                      +|+++|+.++|||||+.+|+...  .........            +...  . ......        +..+.+.+||||
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            68999999999999999997532  111000000            0000  0 011122        447889999999


Q ss_pred             CCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccc
Q 030961           65 GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR  125 (168)
Q Consensus        65 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~  125 (168)
                      |+..|.......++.+|++++|+|+.++.+...  +..+.....  .++|+++++||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t--~~~l~~~~~--~~~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQT--ETVLRQALK--ERVKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHH--HHHHHHHHH--cCCCEEEEEECCCcc
Confidence            999999888889999999999999998776654  333333333  358999999999986

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

>PRK12736 elongation factor Tu; Reviewed

Probab=99.71  E-value=1.4e-16  Score=121.54  Aligned_cols=151  Identities=19%  Similarity=0.151  Sum_probs=95.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCC---------CCCC-----ceeecee-EEEEECCeEEEEEEEeCCCCccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPT---------DYIP-----TVFDNFS-ANVVAEGTTVNLGLWDTAGQEDY   69 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~---------~~~~-----~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~   69 (168)
                      .++.++|+++|+.++|||||+.+|++.....         ..+.     ..+.+.. ...........+.++||||++.|
T Consensus         9 ~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~~f   88 (394)
T PRK12736          9 SKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADY   88 (394)
T ss_pred             CCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHHHH
Confidence            4567899999999999999999998631100         0000     0011111 12223334567788999999888


Q ss_pred             cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHHH
Q 030961           70 NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL  148 (168)
Q Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  148 (168)
                      .......+..+|++++|+|+.++..-..  .+++..+..  .++| +++++||+|+..... .      .....++...+
T Consensus        89 ~~~~~~~~~~~d~~llVvd~~~g~~~~t--~~~~~~~~~--~g~~~~IvviNK~D~~~~~~-~------~~~i~~~i~~~  157 (394)
T PRK12736         89 VKNMITGAAQMDGAILVVAATDGPMPQT--REHILLARQ--VGVPYLVVFLNKVDLVDDEE-L------LELVEMEVREL  157 (394)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCchhH--HHHHHHHHH--cCCCEEEEEEEecCCcchHH-H------HHHHHHHHHHH
Confidence            6655566778999999999987533322  334444444  3577 678899999864322 0      00123456666


Q ss_pred             HHHhCC----cEEEEecccCcc
Q 030961          149 RKQIGA----SYYIECSSKTQQ  166 (168)
Q Consensus       149 ~~~~~~----~~~~~~Sa~~~~  166 (168)
                      ....++    .+++++||++|.
T Consensus       158 l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T PRK12736        158 LSEYDFPGDDIPVIRGSALKAL  179 (394)
T ss_pred             HHHhCCCcCCccEEEeeccccc
Confidence            666653    489999999983

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.69  E-value=2.1e-16  Score=114.75  Aligned_cols=143  Identities=15%  Similarity=0.007  Sum_probs=89.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC--CCC---CCCCce-----------eece-eEEEEECCeEEEEEEEeCCCCcccccc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK--FPT---DYIPTV-----------FDNF-SANVVAEGTTVNLGLWDTAGQEDYNRL   72 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~--~~~---~~~~~~-----------~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~   72 (168)
                      +|+++|++++|||||+++|+...  ...   ....+.           +... .....+.....++.+|||||...+...
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~df~~~   80 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIE   80 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHHHHHH
Confidence            48999999999999999997421  100   000000           0111 111122334567888999999888888


Q ss_pred             ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh
Q 030961           73 RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI  152 (168)
Q Consensus        73 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (168)
                      +...++.+|++++|+|+.+...-..  ..++..+..  .++|+++++||+|+...+.         ....++.+......
T Consensus        81 ~~~~l~~aD~ailVVDa~~g~~~~t--~~~~~~~~~--~~~p~ivviNK~D~~~a~~---------~~~~~~l~~~l~~~  147 (270)
T cd01886          81 VERSLRVLDGAVAVFDAVAGVEPQT--ETVWRQADR--YNVPRIAFVNKMDRTGADF---------FRVVEQIREKLGAN  147 (270)
T ss_pred             HHHHHHHcCEEEEEEECCCCCCHHH--HHHHHHHHH--cCCCEEEEEECCCCCCCCH---------HHHHHHHHHHhCCC
Confidence            8888999999999999987654332  344444444  3689999999999875421         01223333333323


Q ss_pred             CCcEEEEecccCc
Q 030961          153 GASYYIECSSKTQ  165 (168)
Q Consensus       153 ~~~~~~~~Sa~~~  165 (168)
                      .....+++|+..+
T Consensus       148 ~~~~~~Pisa~~~  160 (270)
T cd01886         148 PVPLQLPIGEEDD  160 (270)
T ss_pred             ceEEEeccccCCC
Confidence            3334677888644

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

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.69  E-value=3.5e-16  Score=113.87  Aligned_cols=141  Identities=19%  Similarity=0.164  Sum_probs=88.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCC-----CCc-eee----------ce-eEEEEECCeEEEEEEEeCCCCcccccc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDY-----IPT-VFD----------NF-SANVVAEGTTVNLGLWDTAGQEDYNRL   72 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~-----~~~-~~~----------~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~   72 (168)
                      +|+++|++|+|||||+++++...-....     ..+ ..+          .. .....+....+.+.+|||||...+...
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~~f~~~   80 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYADFVGE   80 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECCEEEEEEECcCHHHHHHH
Confidence            4899999999999999999753211000     001 000          00 011122334567888999999887777


Q ss_pred             ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh
Q 030961           73 RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI  152 (168)
Q Consensus        73 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (168)
                      +...++.+|++++|+|+++.......  ..+..+..  .++|.++++||+|+....            ..+....+...+
T Consensus        81 ~~~~l~~aD~~i~Vvd~~~g~~~~~~--~~~~~~~~--~~~p~iivvNK~D~~~~~------------~~~~~~~l~~~~  144 (268)
T cd04170          81 TRAALRAADAALVVVSAQSGVEVGTE--KLWEFADE--AGIPRIIFINKMDRERAD------------FDKTLAALQEAF  144 (268)
T ss_pred             HHHHHHHCCEEEEEEeCCCCCCHHHH--HHHHHHHH--cCCCEEEEEECCccCCCC------------HHHHHHHHHHHh
Confidence            77889999999999999887655432  23333333  368999999999987652            233344555555


Q ss_pred             CCcEEE--EecccCccC
Q 030961          153 GASYYI--ECSSKTQQV  167 (168)
Q Consensus       153 ~~~~~~--~~Sa~~~~~  167 (168)
                      +. +++  .+...+|.|
T Consensus       145 ~~-~~~~~~ip~~~~~~  160 (268)
T cd04170         145 GR-PVVPLQLPIGEGDD  160 (268)
T ss_pred             CC-CeEEEEecccCCCc
Confidence            55 333  344555544

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

>PLN03126 Elongation factor Tu; Provisional

Probab=99.69  E-value=2.3e-16  Score=122.37  Aligned_cols=152  Identities=20%  Similarity=0.146  Sum_probs=98.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC------CCCCC---CCc-----eeecee-EEEEECCeEEEEEEEeCCCCccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK------FPTDY---IPT-----VFDNFS-ANVVAEGTTVNLGLWDTAGQEDY   69 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~------~~~~~---~~~-----~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~   69 (168)
                      +.+.++|+++|+.++|||||+++|+...      ....+   +.+     .+.... ...........+.++|+||++.|
T Consensus        78 ~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~f  157 (478)
T PLN03126         78 KKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADY  157 (478)
T ss_pred             cCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHHH
Confidence            4568899999999999999999998521      11100   000     011111 11122334457788999999988


Q ss_pred             cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHHH
Q 030961           70 NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL  148 (168)
Q Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  148 (168)
                      .......+..+|++++|+|+.+...-..  .+++..+..  .++| ++++.||+|+.+....       .....++...+
T Consensus       158 ~~~~~~g~~~aD~ailVVda~~G~~~qt--~e~~~~~~~--~gi~~iIvvvNK~Dl~~~~~~-------~~~i~~~i~~~  226 (478)
T PLN03126        158 VKNMITGAAQMDGAILVVSGADGPMPQT--KEHILLAKQ--VGVPNMVVFLNKQDQVDDEEL-------LELVELEVREL  226 (478)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCcHHH--HHHHHHHHH--cCCCeEEEEEecccccCHHHH-------HHHHHHHHHHH
Confidence            7766667788999999999987654433  344555544  3577 7789999999753220       01223455666


Q ss_pred             HHHhC----CcEEEEecccCccC
Q 030961          149 RKQIG----ASYYIECSSKTQQV  167 (168)
Q Consensus       149 ~~~~~----~~~~~~~Sa~~~~~  167 (168)
                      ....+    ..+++++||.+|.|
T Consensus       227 l~~~g~~~~~~~~vp~Sa~~g~n  249 (478)
T PLN03126        227 LSSYEFPGDDIPIISGSALLALE  249 (478)
T ss_pred             HHhcCCCcCcceEEEEEcccccc
Confidence            65543    24799999999864

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.69  E-value=2.2e-16  Score=120.95  Aligned_cols=151  Identities=17%  Similarity=0.099  Sum_probs=91.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCC--CCCCC----------CCc---------e----------eeceeE-EEEECCeEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNK--FPTDY----------IPT---------V----------FDNFSA-NVVAEGTTV   56 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~--~~~~~----------~~~---------~----------~~~~~~-~~~~~~~~~   56 (168)
                      ++|+++|+.++|||||+.+|+...  .....          ..+         .          +..... .........
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~~   80 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDKR   80 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCCe
Confidence            589999999999999999997432  11100          000         0          000100 111223345


Q ss_pred             EEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCC
Q 030961           57 NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPG  136 (168)
Q Consensus        57 ~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~  136 (168)
                      ++.++||||++.|.......+..+|++++|+|+..+..-..  .+....+... ...++++++||+|+...+...     
T Consensus        81 ~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt--~~~~~~~~~~-~~~~iivviNK~D~~~~~~~~-----  152 (406)
T TIGR02034        81 KFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQT--RRHSYIASLL-GIRHVVLAVNKMDLVDYDEEV-----  152 (406)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCcccc--HHHHHHHHHc-CCCcEEEEEEecccccchHHH-----
Confidence            78899999998886655567889999999999876643322  2222222222 134688999999997432100     


Q ss_pred             CCcccHHHHHHHHHHhCC--cEEEEecccCccCC
Q 030961          137 LVPVTTAQGEELRKQIGA--SYYIECSSKTQQVC  168 (168)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i  168 (168)
                       .....++...+....+.  .+++++||++|+|+
T Consensus       153 -~~~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni  185 (406)
T TIGR02034       153 -FENIKKDYLAFAEQLGFRDVTFIPLSALKGDNV  185 (406)
T ss_pred             -HHHHHHHHHHHHHHcCCCCccEEEeecccCCCC
Confidence             00122334444454443  36999999999985

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=99.68  E-value=4.9e-16  Score=120.87  Aligned_cols=155  Identities=13%  Similarity=0.064  Sum_probs=92.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC--CCCCC----------CCce-------------------eeceeE-EEEEC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK--FPTDY----------IPTV-------------------FDNFSA-NVVAE   52 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~--~~~~~----------~~~~-------------------~~~~~~-~~~~~   52 (168)
                      .+..++|+++|+.++|||||+.+|+...  .....          ..+.                   +..... .....
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            4567999999999999999999998542  11100          0000                   000111 11123


Q ss_pred             CeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh
Q 030961           53 GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA  132 (168)
Q Consensus        53 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~  132 (168)
                      ....++.++||||++.|.......+..+|++++|+|+..+..-..  .+....+... ...|+++++||+|+...+... 
T Consensus       104 ~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt--~~~~~l~~~l-g~~~iIvvvNKiD~~~~~~~~-  179 (474)
T PRK05124        104 TEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQT--RRHSFIATLL-GIKHLVVAVNKMDLVDYSEEV-  179 (474)
T ss_pred             cCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccc--hHHHHHHHHh-CCCceEEEEEeeccccchhHH-
Confidence            345678889999998876544555789999999999876542211  1111222221 124789999999997432100 


Q ss_pred             cCCCCCcccHHHHHHHHHHhC---CcEEEEecccCccCC
Q 030961          133 DHPGLVPVTTAQGEELRKQIG---ASYYIECSSKTQQVC  168 (168)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~i  168 (168)
                           .....++...+....+   ..+++++||++|+||
T Consensus       180 -----~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni  213 (474)
T PRK05124        180 -----FERIREDYLTFAEQLPGNLDIRFVPLSALEGDNV  213 (474)
T ss_pred             -----HHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCc
Confidence                 0011223333333333   247999999999986

>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=99.68  E-value=2.1e-16  Score=111.74  Aligned_cols=149  Identities=21%  Similarity=0.289  Sum_probs=88.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCC---CceeeceeEEEEECCeEEEEEEEeCCCCcccccc-----ccccccCCc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYI---PTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRL-----RPLSYRGAD   81 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----~~~~~~~~~   81 (168)
                      ||+++|+.+|||||+.+.++....+..+.   +|..  ..+...-....+.+.+||.||+..+...     ....++++.
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~--ve~~~v~~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~   78 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTID--VEKSHVRFLSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVG   78 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----S--EEEEEEECTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTES
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCC--ceEEEEecCCCcEEEEEEcCCccccccccccccHHHHHhccC
Confidence            79999999999999999888764332221   1221  1222221233457888999999766443     344578999


Q ss_pred             EEEEEEeCCChh---HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC--CcE
Q 030961           82 VFVLAFSLVSRA---SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG--ASY  156 (168)
Q Consensus        82 ~~i~v~d~~~~~---s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~  156 (168)
                      ++|+|+|+.+.+   .+... ..++..+.+.+++..+-|+.+|+|+..+..+..-    .+...+...+.+...+  ...
T Consensus        79 ~LIyV~D~qs~~~~~~l~~~-~~~i~~l~~~sp~~~v~vfiHK~D~l~~~~r~~~----~~~~~~~i~~~~~~~~~~~~~  153 (232)
T PF04670_consen   79 VLIYVFDAQSDDYDEDLAYL-SDCIEALRQYSPNIKVFVFIHKMDLLSEDEREEI----FRDIQQRIRDELEDLGIEDIT  153 (232)
T ss_dssp             EEEEEEETT-STCHHHHHHH-HHHHHHHHHHSTT-EEEEEEE-CCCS-HHHHHHH----HHHHHHHHHHHHHHTT-TSEE
T ss_pred             EEEEEEEcccccHHHHHHHH-HHHHHHHHHhCCCCeEEEEEeecccCCHHHHHHH----HHHHHHHHHHHhhhccccceE
Confidence            999999998443   33443 5666677777799999999999999765431110    0112333444444444  237


Q ss_pred             EEEecccCc
Q 030961          157 YIECSSKTQ  165 (168)
Q Consensus       157 ~~~~Sa~~~  165 (168)
                      |+.||...+
T Consensus       154 ~~~TSI~D~  162 (232)
T PF04670_consen  154 FFLTSIWDE  162 (232)
T ss_dssp             EEEE-TTST
T ss_pred             EEeccCcCc
Confidence            888887653

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.

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.68  E-value=3.4e-16  Score=125.89  Aligned_cols=154  Identities=16%  Similarity=0.102  Sum_probs=93.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCC--CCC----------CCCce-------------------eecee-EEEEECC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKF--PTD----------YIPTV-------------------FDNFS-ANVVAEG   53 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~--~~~----------~~~~~-------------------~~~~~-~~~~~~~   53 (168)
                      ...++|+++|++++|||||+++|+...-  ...          ...+.                   +.... .......
T Consensus        22 ~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~~  101 (632)
T PRK05506         22 KSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFAT  101 (632)
T ss_pred             CCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEcc
Confidence            4578999999999999999999986421  100          00110                   00000 0112223


Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD  133 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~  133 (168)
                      ...++.++||||++.|.......+..+|++++|+|+..+..-..  .+....+... ...+++|++||+|+.+.....  
T Consensus       102 ~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t--~e~~~~~~~~-~~~~iivvvNK~D~~~~~~~~--  176 (632)
T PRK05506        102 PKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQT--RRHSFIASLL-GIRHVVLAVNKMDLVDYDQEV--  176 (632)
T ss_pred             CCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccC--HHHHHHHHHh-CCCeEEEEEEecccccchhHH--
Confidence            34567789999998876555556789999999999976543221  1222223222 235788999999996422100  


Q ss_pred             CCCCCcccHHHHHHHHHHhCC--cEEEEecccCccCC
Q 030961          134 HPGLVPVTTAQGEELRKQIGA--SYYIECSSKTQQVC  168 (168)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i  168 (168)
                          ......+...+...++.  .+++++||++|+|+
T Consensus       177 ----~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni  209 (632)
T PRK05506        177 ----FDEIVADYRAFAAKLGLHDVTFIPISALKGDNV  209 (632)
T ss_pred             ----HHHHHHHHHHHHHHcCCCCccEEEEecccCCCc
Confidence                00122334444455554  36899999999986

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.68  E-value=9.3e-16  Score=106.85  Aligned_cols=114  Identities=17%  Similarity=0.217  Sum_probs=70.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceee---ceeEEEEECCeEEEEEEEeCCCCccccc-----cccccccC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFD---NFSANVVAEGTTVNLGLWDTAGQEDYNR-----LRPLSYRG   79 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----~~~~~~~~   79 (168)
                      .+||+++|.+|+|||||+|.+.+.........+.+.   .......-......+.+||+||......     +....+.+
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~   80 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGIGSTAFPPDDYLEEMKFSE   80 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCCCcccCCHHHHHHHhCccC
Confidence            378999999999999999999986543322222111   1010111111233678899999754322     12223567


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      +|+++++.+  +  ++......|++.+.+.  ..|+++|+||+|+...
T Consensus        81 ~d~~l~v~~--~--~~~~~d~~~~~~l~~~--~~~~ilV~nK~D~~~~  122 (197)
T cd04104          81 YDFFIIISS--T--RFSSNDVKLAKAIQCM--GKKFYFVRTKVDRDLS  122 (197)
T ss_pred             cCEEEEEeC--C--CCCHHHHHHHHHHHHh--CCCEEEEEecccchhh
Confidence            899888854  2  2333335667777664  5899999999999543

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

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.66  E-value=1e-15  Score=118.24  Aligned_cols=156  Identities=15%  Similarity=0.062  Sum_probs=99.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC--CCCC----------------------CCCce-----eeceeE-EEEECCe
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK--FPTD----------------------YIPTV-----FDNFSA-NVVAEGT   54 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~--~~~~----------------------~~~~~-----~~~~~~-~~~~~~~   54 (168)
                      ..+.++++++|+.++|||||+-+|+...  ....                      .+...     +..... .......
T Consensus         4 ~k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~   83 (447)
T PLN00043          4 EKVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETT   83 (447)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCC
Confidence            4567899999999999999999987421  1000                      00000     000100 1123445


Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHH-------HHHHhHHHHHchhCCCC-cEEEEeeCCcccc
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYE-------NVLKKWIPELQHYSPGV-PVVLVGTKLDLRE  126 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~-------~~~~~~~~~l~~~~~~~-p~ivv~nK~D~~~  126 (168)
                      ...+.++|+||++.|.......+..+|++++|+|+.+. .++       .. .+....+..  .++ ++++++||+|+..
T Consensus        84 ~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT-~eh~~~~~~--~gi~~iIV~vNKmD~~~  159 (447)
T PLN00043         84 KYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQT-REHALLAFT--LGVKQMICCCNKMDATT  159 (447)
T ss_pred             CEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchH-HHHHHHHHH--cCCCcEEEEEEcccCCc
Confidence            67888999999999988888889999999999999873 221       22 223333332  356 4788999999762


Q ss_pred             cchhhhcCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          127 DKHYLADHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      ... .   ........++++.++...++    .+|+++||++|+|+
T Consensus       160 ~~~-~---~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni  201 (447)
T PLN00043        160 PKY-S---KARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNM  201 (447)
T ss_pred             hhh-h---HHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccc
Confidence            110 0   00001235667777777763    47999999999986

>PRK00049 elongation factor Tu; Reviewed

Probab=99.66  E-value=2e-15  Score=115.36  Aligned_cols=151  Identities=19%  Similarity=0.162  Sum_probs=95.6

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCC---CC-------------CCCceeeceeEEEEECCeEEEEEEEeCCCCcc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFP---TD-------------YIPTVFDNFSANVVAEGTTVNLGLWDTAGQED   68 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~---~~-------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   68 (168)
                      ..+.++|+++|+.++|||||+++|++....   ..             .....+.+. ..........++.+.||||+..
T Consensus         9 ~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~-~~~~~~~~~~~i~~iDtPG~~~   87 (396)
T PRK00049          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINT-AHVEYETEKRHYAHVDCPGHAD   87 (396)
T ss_pred             CCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEee-eEEEEcCCCeEEEEEECCCHHH
Confidence            357899999999999999999999863110   00             001111111 1222333455678899999987


Q ss_pred             ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEE-EEeeCCcccccchhhhcCCCCCcccHHHHHH
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVV-LVGTKLDLREDKHYLADHPGLVPVTTAQGEE  147 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~i-vv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  147 (168)
                      |.......+..+|++++|+|+.++..-..  .+++..+..  .++|.+ ++.||+|+..... .      ......+...
T Consensus        88 f~~~~~~~~~~aD~~llVVDa~~g~~~qt--~~~~~~~~~--~g~p~iiVvvNK~D~~~~~~-~------~~~~~~~i~~  156 (396)
T PRK00049         88 YVKNMITGAAQMDGAILVVSAADGPMPQT--REHILLARQ--VGVPYIVVFLNKCDMVDDEE-L------LELVEMEVRE  156 (396)
T ss_pred             HHHHHHhhhccCCEEEEEEECCCCCchHH--HHHHHHHHH--cCCCEEEEEEeecCCcchHH-H------HHHHHHHHHH
Confidence            76655666789999999999987543332  344455544  357876 5899999964321 0      0012234455


Q ss_pred             HHHHhCC----cEEEEecccCccC
Q 030961          148 LRKQIGA----SYYIECSSKTQQV  167 (168)
Q Consensus       148 ~~~~~~~----~~~~~~Sa~~~~~  167 (168)
                      +....+.    .+++++||++|.+
T Consensus       157 ~l~~~~~~~~~~~iv~iSa~~g~~  180 (396)
T PRK00049        157 LLSKYDFPGDDTPIIRGSALKALE  180 (396)
T ss_pred             HHHhcCCCccCCcEEEeecccccC
Confidence            5554433    4899999998753

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.64  E-value=3.6e-15  Score=121.04  Aligned_cols=145  Identities=15%  Similarity=0.072  Sum_probs=93.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC--CC---CCCCCce-----------eece-eEEEEECCeEEEEEEEeCCCCc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK--FP---TDYIPTV-----------FDNF-SANVVAEGTTVNLGLWDTAGQE   67 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~--~~---~~~~~~~-----------~~~~-~~~~~~~~~~~~~~i~D~~g~~   67 (168)
                      .+...+|+++|++++|||||+++|+...  ..   .....+.           +... .....+.....++.+|||||+.
T Consensus         7 ~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~   86 (689)
T TIGR00484         7 LNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHV   86 (689)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCc
Confidence            4457799999999999999999997421  10   0000000           1111 1112223345678889999998


Q ss_pred             cccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH
Q 030961           68 DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE  147 (168)
Q Consensus        68 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  147 (168)
                      .+...+...++.+|++++|+|+.+......  ..++..+.+  .++|+++++||+|+.....            .+....
T Consensus        87 ~~~~~~~~~l~~~D~~ilVvda~~g~~~~~--~~~~~~~~~--~~~p~ivviNK~D~~~~~~------------~~~~~~  150 (689)
T TIGR00484        87 DFTVEVERSLRVLDGAVAVLDAVGGVQPQS--ETVWRQANR--YEVPRIAFVNKMDKTGANF------------LRVVNQ  150 (689)
T ss_pred             chhHHHHHHHHHhCEEEEEEeCCCCCChhH--HHHHHHHHH--cCCCEEEEEECCCCCCCCH------------HHHHHH
Confidence            887777888999999999999988765554  334444444  3689999999999976431            222334


Q ss_pred             HHHHhCC---cEEEEecccCc
Q 030961          148 LRKQIGA---SYYIECSSKTQ  165 (168)
Q Consensus       148 ~~~~~~~---~~~~~~Sa~~~  165 (168)
                      +...++.   ...+++|+..+
T Consensus       151 i~~~l~~~~~~~~ipis~~~~  171 (689)
T TIGR00484       151 IKQRLGANAVPIQLPIGAEDN  171 (689)
T ss_pred             HHHHhCCCceeEEeccccCCC
Confidence            4444443   22567777665

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.

>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=99.64  E-value=1.1e-15  Score=97.65  Aligned_cols=105  Identities=22%  Similarity=0.274  Sum_probs=67.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeece-eEEEEECCeEEEEEEEeCCCCcccc---------cccccccc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYN---------RLRPLSYR   78 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~---------~~~~~~~~   78 (168)
                      +|+++|.+|+|||||+|.|++..... ...+..+... ...+.+++..+  .++||||-..-.         ......+.
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~~~--~~vDtpG~~~~~~~~~~~~~~~~~~~~~~   78 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNKKF--ILVDTPGINDGESQDNDGKEIRKFLEQIS   78 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTEEE--EEEESSSCSSSSHHHHHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeeceeeE--EEEeCCCCcccchhhHHHHHHHHHHHHHH
Confidence            68999999999999999999864321 1111111111 22334555555  579999964321         11222347


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeC
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK  121 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK  121 (168)
                      .+|++++|+|.+++.. +. ...+++.++   .+.|+++|.||
T Consensus        79 ~~d~ii~vv~~~~~~~-~~-~~~~~~~l~---~~~~~i~v~NK  116 (116)
T PF01926_consen   79 KSDLIIYVVDASNPIT-ED-DKNILRELK---NKKPIILVLNK  116 (116)
T ss_dssp             TESEEEEEEETTSHSH-HH-HHHHHHHHH---TTSEEEEEEES
T ss_pred             HCCEEEEEEECCCCCC-HH-HHHHHHHHh---cCCCEEEEEcC
Confidence            8999999999877432 12 245555563   57899999998

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 ....

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.64  E-value=2.2e-15  Score=102.64  Aligned_cols=146  Identities=18%  Similarity=0.160  Sum_probs=93.7

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCC----------ccccccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQ----------EDYNRLR   73 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~----------~~~~~~~   73 (168)
                      ++...-|+++|.+|+|||||+|.+++.+--..+..|.+.+... .+.+++.   +.+.|.||-          +.+..+.
T Consensus        21 ~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~~i   97 (200)
T COG0218          21 EDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKKLI   97 (200)
T ss_pred             CCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHHHH
Confidence            4456789999999999999999999976323333444433322 3344443   777999992          3333444


Q ss_pred             cccccC---CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH
Q 030961           74 PLSYRG---ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK  150 (168)
Q Consensus        74 ~~~~~~---~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (168)
                      ..++..   ..++++++|+..+..-.+  .++++.+..  .++|++|++||+|..+...           -.......++
T Consensus        98 ~~YL~~R~~L~~vvlliD~r~~~~~~D--~em~~~l~~--~~i~~~vv~tK~DKi~~~~-----------~~k~l~~v~~  162 (200)
T COG0218          98 EEYLEKRANLKGVVLLIDARHPPKDLD--REMIEFLLE--LGIPVIVVLTKADKLKKSE-----------RNKQLNKVAE  162 (200)
T ss_pred             HHHHhhchhheEEEEEEECCCCCcHHH--HHHHHHHHH--cCCCeEEEEEccccCChhH-----------HHHHHHHHHH
Confidence            445443   468888999877665544  456666666  4799999999999987643           1222333333


Q ss_pred             Hh----CCc-EEEEecccCccCC
Q 030961          151 QI----GAS-YYIECSSKTQQVC  168 (168)
Q Consensus       151 ~~----~~~-~~~~~Sa~~~~~i  168 (168)
                      ..    .+. .++.+|+.++.|+
T Consensus       163 ~l~~~~~~~~~~~~~ss~~k~Gi  185 (200)
T COG0218         163 ELKKPPPDDQWVVLFSSLKKKGI  185 (200)
T ss_pred             HhcCCCCccceEEEEecccccCH
Confidence            33    221 1667888888774

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.64  E-value=3.6e-15  Score=115.24  Aligned_cols=155  Identities=14%  Similarity=0.056  Sum_probs=96.7

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--CCCCC----------------------CCCce-----eecee-EEEEECCe
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--KFPTD----------------------YIPTV-----FDNFS-ANVVAEGT   54 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--~~~~~----------------------~~~~~-----~~~~~-~~~~~~~~   54 (168)
                      +.+.++|+++|+.++|||||+.+|+..  .....                      .+...     +.... ........
T Consensus         4 ~k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~   83 (446)
T PTZ00141          4 EKTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETP   83 (446)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccC
Confidence            356789999999999999999998752  11100                      00000     00000 11223445


Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhH---H---HHHHHhHHHHHchhCCCCc-EEEEeeCCccccc
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRAS---Y---ENVLKKWIPELQHYSPGVP-VVLVGTKLDLRED  127 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s---~---~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~  127 (168)
                      ...+.++|+||+.+|.......+..+|++++|+|+..+.-   +   ... .+.+..+..  -++| ++++.||+|....
T Consensus        84 ~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT-~eh~~~~~~--~gi~~iiv~vNKmD~~~~  160 (446)
T PTZ00141         84 KYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQT-REHALLAFT--LGVKQMIVCINKMDDKTV  160 (446)
T ss_pred             CeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccH-HHHHHHHHH--cCCCeEEEEEEccccccc
Confidence            6788899999999987777777889999999999987531   1   122 233333333  2565 6789999995321


Q ss_pred             --chhhhcCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          128 --KHYLADHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       128 --~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                        ...      ......++...+....++    .+++++||.+|+|+
T Consensus       161 ~~~~~------~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni  201 (446)
T PTZ00141        161 NYSQE------RYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNM  201 (446)
T ss_pred             hhhHH------HHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCc
Confidence              110      001234455555554444    57999999999986

>PLN03127 Elongation factor Tu; Provisional

Probab=99.62  E-value=7.5e-15  Score=113.39  Aligned_cols=148  Identities=20%  Similarity=0.154  Sum_probs=90.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC------CCC----------CCCCCceeeceeEEEEECCeEEEEEEEeCCCCcc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN------KFP----------TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED   68 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~------~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   68 (168)
                      ..+.++|+++|+.++|||||+++|.+.      ...          ++..+..+.+ ...........++.++||||+..
T Consensus        58 ~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~-~~~~~~~~~~~~i~~iDtPGh~~  136 (447)
T PLN03127         58 TKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIA-TAHVEYETAKRHYAHVDCPGHAD  136 (447)
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceee-eeEEEEcCCCeEEEEEECCCccc
Confidence            456789999999999999999999632      100          0000111111 11223344456778899999987


Q ss_pred             ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHH
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE  147 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  147 (168)
                      |.......+..+|++++|+|+.+...-+.  .+.+..+..  .++| ++++.||+|+..... ..      ....++.++
T Consensus       137 f~~~~~~g~~~aD~allVVda~~g~~~qt--~e~l~~~~~--~gip~iIvviNKiDlv~~~~-~~------~~i~~~i~~  205 (447)
T PLN03127        137 YVKNMITGAAQMDGGILVVSAPDGPMPQT--KEHILLARQ--VGVPSLVVFLNKVDVVDDEE-LL------ELVEMELRE  205 (447)
T ss_pred             hHHHHHHHHhhCCEEEEEEECCCCCchhH--HHHHHHHHH--cCCCeEEEEEEeeccCCHHH-HH------HHHHHHHHH
Confidence            76544455677999999999877543322  344455544  3578 578899999975322 00      011223444


Q ss_pred             HHHHhCC----cEEEEecccC
Q 030961          148 LRKQIGA----SYYIECSSKT  164 (168)
Q Consensus       148 ~~~~~~~----~~~~~~Sa~~  164 (168)
                      +...++.    .+++++||.+
T Consensus       206 ~l~~~~~~~~~vpiip~Sa~s  226 (447)
T PLN03127        206 LLSFYKFPGDEIPIIRGSALS  226 (447)
T ss_pred             HHHHhCCCCCcceEEEeccce
Confidence            4443332    4788988864

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.62  E-value=3.7e-15  Score=117.03  Aligned_cols=118  Identities=13%  Similarity=0.074  Sum_probs=81.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCC--CCC--C-----CCCce-----------eecee-EEEEECCeEEEEEEEeCC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNK--FPT--D-----YIPTV-----------FDNFS-ANVVAEGTTVNLGLWDTA   64 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~--~~~--~-----~~~~~-----------~~~~~-~~~~~~~~~~~~~i~D~~   64 (168)
                      .+..+|+++|++++|||||+.+|+...  ...  .     ...+.           +..+. ....+....+.+.+||||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTP   87 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTP   87 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECC
Confidence            356789999999999999999997411  100  0     00000           11111 123344456788899999


Q ss_pred             CCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           65 GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        65 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      |+..|.......++.+|++++|+|+++......  +.++.....  .++|+++++||+|+...
T Consensus        88 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t--~~l~~~~~~--~~iPiiv~iNK~D~~~a  146 (526)
T PRK00741         88 GHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQT--RKLMEVCRL--RDTPIFTFINKLDRDGR  146 (526)
T ss_pred             CchhhHHHHHHHHHHCCEEEEEEecCCCCCHHH--HHHHHHHHh--cCCCEEEEEECCccccc
Confidence            999888777778899999999999987643322  344444443  47999999999998764

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

Probab=99.61  E-value=1.3e-14  Score=111.07  Aligned_cols=146  Identities=18%  Similarity=0.205  Sum_probs=102.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEEC-CeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAE-GTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .+.+-|+++|+-..|||||+..+-+......-...++...- ..+..+ +..-.+.+.||||++.|..|...-..-+|.+
T Consensus         3 ~R~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIa   82 (509)
T COG0532           3 LRPPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIA   82 (509)
T ss_pred             CCCCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEE
Confidence            35677999999999999999999887776554555554442 233333 1334566799999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC--------c
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA--------S  155 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~  155 (168)
                      ++|+++++.-.-+..  +-++.++.  .++|++|..||+|..+.+.             .....-..++|+        .
T Consensus        83 ILVVa~dDGv~pQTi--EAI~hak~--a~vP~iVAiNKiDk~~~np-------------~~v~~el~~~gl~~E~~gg~v  145 (509)
T COG0532          83 ILVVAADDGVMPQTI--EAINHAKA--AGVPIVVAINKIDKPEANP-------------DKVKQELQEYGLVPEEWGGDV  145 (509)
T ss_pred             EEEEEccCCcchhHH--HHHHHHHH--CCCCEEEEEecccCCCCCH-------------HHHHHHHHHcCCCHhhcCCce
Confidence            999999885443332  11222332  5899999999999985532             222222222222        5


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      .++++||++|+||
T Consensus       146 ~~VpvSA~tg~Gi  158 (509)
T COG0532         146 IFVPVSAKTGEGI  158 (509)
T ss_pred             EEEEeeccCCCCH
Confidence            7899999999996

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.60  E-value=9.2e-15  Score=105.98  Aligned_cols=145  Identities=19%  Similarity=0.181  Sum_probs=90.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcc-ccc-cccc------ccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED-YNR-LRPL------SYR   78 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~-~~~~------~~~   78 (168)
                      ...-|++.|.||||||||++++.+.+......|-.+-... -...+....+++++||||--. -.. +.+.      .++
T Consensus       167 ~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~-vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~  245 (346)
T COG1084         167 DLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIH-VGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALR  245 (346)
T ss_pred             CCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCcccccee-EeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHH
Confidence            3567999999999999999999998754332332111111 112344456788899999422 111 1111      122


Q ss_pred             -CCcEEEEEEeCCC--hhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           79 -GADVFVLAFSLVS--RASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        79 -~~~~~i~v~d~~~--~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                       -.++++|++|.+.  .-+++.. ..++..+..... .|+++|.||+|......            .+++......-+..
T Consensus       246 hl~~~IlF~~D~Se~cgy~lE~Q-~~L~~eIk~~f~-~p~v~V~nK~D~~~~e~------------~~~~~~~~~~~~~~  311 (346)
T COG1084         246 HLAGVILFLFDPSETCGYSLEEQ-ISLLEEIKELFK-APIVVVINKIDIADEEK------------LEEIEASVLEEGGE  311 (346)
T ss_pred             HhcCeEEEEEcCccccCCCHHHH-HHHHHHHHHhcC-CCeEEEEecccccchhH------------HHHHHHHHHhhccc
Confidence             2678999999864  4567775 678888888775 89999999999986533            33344334444443


Q ss_pred             EEEEecccCcc
Q 030961          156 YYIECSSKTQQ  166 (168)
Q Consensus       156 ~~~~~Sa~~~~  166 (168)
                      ....+++..+.
T Consensus       312 ~~~~~~~~~~~  322 (346)
T COG1084         312 EPLKISATKGC  322 (346)
T ss_pred             cccceeeeehh
Confidence            34455555543

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.60  E-value=2.6e-14  Score=105.83  Aligned_cols=80  Identities=21%  Similarity=0.191  Sum_probs=53.9

Q ss_pred             EEEECCCCCCHHHHHHHHhcCCCCC------CCCCceeeceeEE----------------EEECC-eEEEEEEEeCCCC-
Q 030961           11 CVTVGDGAVGKTCMLICYTSNKFPT------DYIPTVFDNFSAN----------------VVAEG-TTVNLGLWDTAGQ-   66 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~~~~~------~~~~~~~~~~~~~----------------~~~~~-~~~~~~i~D~~g~-   66 (168)
                      |.++|.|++|||||+++|.+.....      ...|+.+..+...                ...++ ..+.+++||+||. 
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            5799999999999999999876432      1123332222100                00122 3477999999997 


Q ss_pred             ---cccccccccc---ccCCcEEEEEEeCC
Q 030961           67 ---EDYNRLRPLS---YRGADVFVLAFSLV   90 (168)
Q Consensus        67 ---~~~~~~~~~~---~~~~~~~i~v~d~~   90 (168)
                         .+...+...+   +++||++++|+|+.
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence               4444454443   78999999999986

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.

>PRK13351 elongation factor G; Reviewed

Probab=99.60  E-value=7.2e-15  Score=119.39  Aligned_cols=119  Identities=19%  Similarity=0.199  Sum_probs=83.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC--CC------C-----CCCCc---eeece-eEEEEECCeEEEEEEEeCCCCc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK--FP------T-----DYIPT---VFDNF-SANVVAEGTTVNLGLWDTAGQE   67 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~--~~------~-----~~~~~---~~~~~-~~~~~~~~~~~~~~i~D~~g~~   67 (168)
                      .+...+|+++|+.++|||||+++|+...  ..      .     .+.+.   .+... ...........++.+|||||+.
T Consensus         5 ~~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~   84 (687)
T PRK13351          5 LMQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHI   84 (687)
T ss_pred             cccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcH
Confidence            3457899999999999999999998531  00      0     00000   00011 1112233346788899999999


Q ss_pred             cccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           68 DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        68 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      .|...+...++.+|++++|+|++++...... ..| ..+..  .++|+++++||+|+...
T Consensus        85 df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~-~~~-~~~~~--~~~p~iiviNK~D~~~~  140 (687)
T PRK13351         85 DFTGEVERSLRVLDGAVVVFDAVTGVQPQTE-TVW-RQADR--YGIPRLIFINKMDRVGA  140 (687)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCCCCCCHHHH-HHH-HHHHh--cCCCEEEEEECCCCCCC
Confidence            9888888899999999999999987766553 333 44443  36899999999998765

>COG2262 HflX GTPases [General function prediction only]

Probab=99.59  E-value=2.7e-14  Score=106.36  Aligned_cols=144  Identities=19%  Similarity=0.111  Sum_probs=96.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCC--CCCceeeceeEEEEECCeEEEEEEEeCCCCcccc--cccccc-----
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTD--YIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYN--RLRPLS-----   76 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--~~~~~~-----   76 (168)
                      .....|.++|-.|+|||||+|++.+......  ...|.. .....+.+.+ +..+.+-||.|.-.-.  .+...|     
T Consensus       190 ~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLd-pttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFksTLE  267 (411)
T COG2262         190 SGIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLD-PTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKSTLE  267 (411)
T ss_pred             cCCCeEEEEeeccccHHHHHHHHhccCeecccccccccc-CceeEEEeCC-CceEEEecCccCcccCChHHHHHHHHHHH
Confidence            4578899999999999999999997653322  122221 1233444554 4556679999954321  122222     


Q ss_pred             -ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC
Q 030961           77 -YRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA  154 (168)
Q Consensus        77 -~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (168)
                       ...+|.++.|+|++++.....+ +.....|.... .++|+++|.||+|+..+.               ..........-
T Consensus       268 E~~~aDlllhVVDaSdp~~~~~~-~~v~~vL~el~~~~~p~i~v~NKiD~~~~~---------------~~~~~~~~~~~  331 (411)
T COG2262         268 EVKEADLLLHVVDASDPEILEKL-EAVEDVLAEIGADEIPIILVLNKIDLLEDE---------------EILAELERGSP  331 (411)
T ss_pred             HhhcCCEEEEEeecCChhHHHHH-HHHHHHHHHcCCCCCCEEEEEecccccCch---------------hhhhhhhhcCC
Confidence             3579999999999999777766 66777777765 679999999999986542               11122222221


Q ss_pred             cEEEEecccCccCC
Q 030961          155 SYYIECSSKTQQVC  168 (168)
Q Consensus       155 ~~~~~~Sa~~~~~i  168 (168)
                       ..+.+||++|.|+
T Consensus       332 -~~v~iSA~~~~gl  344 (411)
T COG2262         332 -NPVFISAKTGEGL  344 (411)
T ss_pred             -CeEEEEeccCcCH
Confidence             4789999999985

>TIGR00503 prfC peptide chain release factor 3

Probab=99.59  E-value=2.4e-14  Score=112.56  Aligned_cols=118  Identities=14%  Similarity=0.074  Sum_probs=80.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc-CCC-CCC--C--C----Cce----------eece-eEEEEECCeEEEEEEEeCC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS-NKF-PTD--Y--I----PTV----------FDNF-SANVVAEGTTVNLGLWDTA   64 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~-~~~-~~~--~--~----~~~----------~~~~-~~~~~~~~~~~~~~i~D~~   64 (168)
                      .+..+|+++|++++|||||+.+|+. ... ...  -  .    .+.          +..+ .....++...+++.+||||
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTP   88 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTP   88 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECC
Confidence            4567999999999999999999863 211 100  0  0    011          1112 1223456667889999999


Q ss_pred             CCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           65 GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        65 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      |+..|.......++.+|++++|+|+++...-.  .+.++..+..  .++|+++++||+|+...
T Consensus        89 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~--t~~l~~~~~~--~~~PiivviNKiD~~~~  147 (527)
T TIGR00503        89 GHEDFSEDTYRTLTAVDNCLMVIDAAKGVETR--TRKLMEVTRL--RDTPIFTFMNKLDRDIR  147 (527)
T ss_pred             ChhhHHHHHHHHHHhCCEEEEEEECCCCCCHH--HHHHHHHHHh--cCCCEEEEEECccccCC
Confidence            99888776667789999999999998753222  1444444433  46899999999998643

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.

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.59  E-value=2.2e-14  Score=109.95  Aligned_cols=144  Identities=17%  Similarity=0.173  Sum_probs=103.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      .+.+-|.+||+-..|||||+..|-+..........++... ...+..+ .+-.+.+.||||+..|..|...-..-.|.++
T Consensus       151 ~RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p-~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvV  229 (683)
T KOG1145|consen  151 PRPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLP-SGKSITFLDTPGHAAFSAMRARGANVTDIVV  229 (683)
T ss_pred             CCCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecC-CCCEEEEecCCcHHHHHHHHhccCccccEEE
Confidence            4677899999999999999999988776554444444443 2233333 3355666999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH--------HhCCc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK--------QIGAS  155 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~  155 (168)
                      +|+.+.|.-.-+.+     +.+++.. .++|++|.+||||....+.             +...+-.-        --|.+
T Consensus       230 LVVAadDGVmpQT~-----EaIkhAk~A~VpiVvAinKiDkp~a~p-------------ekv~~eL~~~gi~~E~~GGdV  291 (683)
T KOG1145|consen  230 LVVAADDGVMPQTL-----EAIKHAKSANVPIVVAINKIDKPGANP-------------EKVKRELLSQGIVVEDLGGDV  291 (683)
T ss_pred             EEEEccCCccHhHH-----HHHHHHHhcCCCEEEEEeccCCCCCCH-------------HHHHHHHHHcCccHHHcCCce
Confidence            99998886543332     3333333 6899999999999875532             33222222        22346


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      ..+++||++|+|+
T Consensus       292 QvipiSAl~g~nl  304 (683)
T KOG1145|consen  292 QVIPISALTGENL  304 (683)
T ss_pred             eEEEeecccCCCh
Confidence            7899999999985

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.59  E-value=3.1e-14  Score=103.75  Aligned_cols=147  Identities=19%  Similarity=0.128  Sum_probs=95.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCccc----ccccccc---ccCCc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDY----NRLRPLS---YRGAD   81 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~----~~~~~~~---~~~~~   81 (168)
                      -|.+||.|++|||||++.+...+......+-.+..-.. .+.+ ...-.+.+-|.||.-+=    ..+-..+   +..+.
T Consensus       161 DVGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~-~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~  239 (369)
T COG0536         161 DVGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRV-DGGESFVVADIPGLIEGASEGVGLGLRFLRHIERTR  239 (369)
T ss_pred             ccccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEe-cCCCcEEEecCcccccccccCCCccHHHHHHHHhhh
Confidence            36799999999999999999876543322221111111 1222 33445777999995432    1233333   45789


Q ss_pred             EEEEEEeCCChhH---HHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           82 VFVLAFSLVSRAS---YENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        82 ~~i~v~d~~~~~s---~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      ++++|+|++..+.   .+.. +.+..+|.++.   .+.|.+||+||+|+....+          ...+..+.+.+..++.
T Consensus       240 vL~hviD~s~~~~~dp~~~~-~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e----------~~~~~~~~l~~~~~~~  308 (369)
T COG0536         240 VLLHVIDLSPIDGRDPIEDY-QTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEE----------ELEELKKALAEALGWE  308 (369)
T ss_pred             eeEEEEecCcccCCCHHHHH-HHHHHHHHHhhHHhccCceEEEEeccCCCcCHH----------HHHHHHHHHHHhcCCC
Confidence            9999999985543   4444 67777787775   5799999999999765543          3344455555666663


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      .++.+||.+++|+
T Consensus       309 ~~~~ISa~t~~g~  321 (369)
T COG0536         309 VFYLISALTREGL  321 (369)
T ss_pred             cceeeehhcccCH
Confidence            3333999998875

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.58  E-value=2.3e-14  Score=106.79  Aligned_cols=157  Identities=16%  Similarity=0.093  Sum_probs=99.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC--CCC---------------C-------CCCce-----eecee-EEEEECCe
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK--FPT---------------D-------YIPTV-----FDNFS-ANVVAEGT   54 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~--~~~---------------~-------~~~~~-----~~~~~-~~~~~~~~   54 (168)
                      ..+-++++++|+..+|||||+-||+.+.  +..               .       .+.+-     +.+.. ........
T Consensus         4 ~Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~   83 (428)
T COG5256           4 EKPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETD   83 (428)
T ss_pred             CCCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecC
Confidence            4567899999999999999999998641  110               0       01111     11111 11223445


Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChh---H--HHHHHHhHHHHHchhCCCCcEEEEeeCCcccccch
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRA---S--YENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH  129 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s--~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~  129 (168)
                      .+.+.|+|+||+..|-...-.-.++||+.++|+|+++.+   .  ......+.. .|.+...-..++|+.||+|+..-++
T Consensus        84 k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~-~La~tlGi~~lIVavNKMD~v~wde  162 (428)
T COG5256          84 KYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHA-FLARTLGIKQLIVAVNKMDLVSWDE  162 (428)
T ss_pred             CceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHH-HHHHhcCCceEEEEEEcccccccCH
Confidence            577899999998877666666678999999999998763   1  111111111 2222223456889999999986443


Q ss_pred             hhhcCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          130 YLADHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      ...+      ....+...+.+..|.    ++|+++|+.+|+|+
T Consensus       163 ~rf~------ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl  199 (428)
T COG5256         163 ERFE------EIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNL  199 (428)
T ss_pred             HHHH------HHHHHHHHHHHHcCCCccCCeEEecccccCCcc
Confidence            1111      334445556665555    36999999999986

>PRK00007 elongation factor G; Reviewed

Probab=99.55  E-value=6.8e-14  Score=113.61  Aligned_cols=145  Identities=16%  Similarity=0.075  Sum_probs=92.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhc--CCCCC---CCC--------C---ceeece-eEEEEECCeEEEEEEEeCCCCc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTS--NKFPT---DYI--------P---TVFDNF-SANVVAEGTTVNLGLWDTAGQE   67 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~--~~~~~---~~~--------~---~~~~~~-~~~~~~~~~~~~~~i~D~~g~~   67 (168)
                      .+++.+|+++|++++|||||+++|+.  +....   ...        +   ..+... ...........++.++||||+.
T Consensus         7 ~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~   86 (693)
T PRK00007          7 LERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHV   86 (693)
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcH
Confidence            45678999999999999999999974  11100   000        0   001111 1112222335678889999998


Q ss_pred             cccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH
Q 030961           68 DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE  147 (168)
Q Consensus        68 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  147 (168)
                      .|.......++.+|++++|+|+........  ...+..+.+  .++|+++++||+|+.....            .+...+
T Consensus        87 ~f~~ev~~al~~~D~~vlVvda~~g~~~qt--~~~~~~~~~--~~~p~iv~vNK~D~~~~~~------------~~~~~~  150 (693)
T PRK00007         87 DFTIEVERSLRVLDGAVAVFDAVGGVEPQS--ETVWRQADK--YKVPRIAFVNKMDRTGADF------------YRVVEQ  150 (693)
T ss_pred             HHHHHHHHHHHHcCEEEEEEECCCCcchhh--HHHHHHHHH--cCCCEEEEEECCCCCCCCH------------HHHHHH
Confidence            776666677889999999999887755544  344444444  3589999999999986432            223334


Q ss_pred             HHHHhCC---cEEEEecccCc
Q 030961          148 LRKQIGA---SYYIECSSKTQ  165 (168)
Q Consensus       148 ~~~~~~~---~~~~~~Sa~~~  165 (168)
                      +...++.   ...+++|+..+
T Consensus       151 i~~~l~~~~~~~~ipisa~~~  171 (693)
T PRK00007        151 IKDRLGANPVPIQLPIGAEDD  171 (693)
T ss_pred             HHHHhCCCeeeEEecCccCCc
Confidence            4444443   34577787765

>PRK12739 elongation factor G; Reviewed

Probab=99.55  E-value=5.8e-14  Score=114.03  Aligned_cols=117  Identities=17%  Similarity=0.045  Sum_probs=80.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCC--CCC---CC-------------CCceeeceeEEEEECCeEEEEEEEeCCCCc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNK--FPT---DY-------------IPTVFDNFSANVVAEGTTVNLGLWDTAGQE   67 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~--~~~---~~-------------~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   67 (168)
                      .+..+|+++|++++|||||+++|+...  ...   ..             ...++... ..........++.++||||+.
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~-~~~~~~~~~~~i~liDTPG~~   84 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITS-AATTCFWKGHRINIIDTPGHV   84 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccc-eeEEEEECCEEEEEEcCCCHH
Confidence            457889999999999999999997521  100   00             00111111 111222245677889999998


Q ss_pred             cccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           68 DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        68 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      .+...+...++.+|++++|+|+.++.....  +..+..+.+  .++|+++++||+|+...
T Consensus        85 ~f~~e~~~al~~~D~~ilVvDa~~g~~~qt--~~i~~~~~~--~~~p~iv~iNK~D~~~~  140 (691)
T PRK12739         85 DFTIEVERSLRVLDGAVAVFDAVSGVEPQS--ETVWRQADK--YGVPRIVFVNKMDRIGA  140 (691)
T ss_pred             HHHHHHHHHHHHhCeEEEEEeCCCCCCHHH--HHHHHHHHH--cCCCEEEEEECCCCCCC
Confidence            877777888999999999999988754443  344444444  36899999999999854

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.54  E-value=1.2e-13  Score=104.44  Aligned_cols=150  Identities=17%  Similarity=0.141  Sum_probs=110.6

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCC--CCC-------------CCCCceeece-eEE--EEE-CCeEEEEEEEeC
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNK--FPT-------------DYIPTVFDNF-SAN--VVA-EGTTVNLGLWDT   63 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~--~~~-------------~~~~~~~~~~-~~~--~~~-~~~~~~~~i~D~   63 (168)
                      +..+.+-++.++-+-..|||||..|++...  +..             .....++..- ..+  +.. +++.+.++++||
T Consensus         4 ~~~~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDT   83 (603)
T COG0481           4 TPQKNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDT   83 (603)
T ss_pred             cchhhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCC
Confidence            445567789999999999999999998542  111             0111111111 112  222 568899999999


Q ss_pred             CCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHH
Q 030961           64 AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTA  143 (168)
Q Consensus        64 ~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~  143 (168)
                      ||+-.|.....+.+..|.+.++|+|++.+-..+.+ .+.+..+..   +.-++-|+||+||...+.            ..
T Consensus        84 PGHVDFsYEVSRSLAACEGalLvVDAsQGveAQTl-AN~YlAle~---~LeIiPViNKIDLP~Adp------------er  147 (603)
T COG0481          84 PGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTL-ANVYLALEN---NLEIIPVLNKIDLPAADP------------ER  147 (603)
T ss_pred             CCccceEEEehhhHhhCCCcEEEEECccchHHHHH-HHHHHHHHc---CcEEEEeeecccCCCCCH------------HH
Confidence            99999999999999999999999999998888777 677777765   678999999999997743            33


Q ss_pred             HHHHHHHHhCC--cEEEEecccCccCC
Q 030961          144 QGEELRKQIGA--SYYIECSSKTQQVC  168 (168)
Q Consensus       144 ~~~~~~~~~~~--~~~~~~Sa~~~~~i  168 (168)
                      -.++..+-.|+  ...+.+|||+|.||
T Consensus       148 vk~eIe~~iGid~~dav~~SAKtG~gI  174 (603)
T COG0481         148 VKQEIEDIIGIDASDAVLVSAKTGIGI  174 (603)
T ss_pred             HHHHHHHHhCCCcchheeEecccCCCH
Confidence            34555555555  34689999999986

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.53  E-value=1e-13  Score=89.18  Aligned_cols=89  Identities=26%  Similarity=0.329  Sum_probs=66.2

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCC-CceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYI-PTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +|++++|..|+|||+|+.++....+...+. ++.+                          +..+.....+.++.+++||
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~--------------------------~~~~~~~~~~s~~~~~~v~   54 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG--------------------------IDVYDPTSYESFDVVLQCW   54 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh--------------------------hhhccccccCCCCEEEEEE
Confidence            589999999999999999998777643322 2222                          2334455677889999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLRE  126 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~  126 (168)
                      +..++.++..+   |...+.... .+.|.++++||.|+..
T Consensus        55 ~~~~~~s~~~~---~~~~i~~~~k~dl~~~~~~nk~dl~~   91 (124)
T smart00010       55 RVDDRDSADNK---NVPEVLVGNKSDLPILVGGNRDVLEE   91 (124)
T ss_pred             EccCHHHHHHH---hHHHHHhcCCCCCcEEEEeechhhHh
Confidence            99999998753   655554433 5788999999999843

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.

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.53  E-value=1.4e-13  Score=105.55  Aligned_cols=149  Identities=17%  Similarity=0.102  Sum_probs=104.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCC-CCC--------------CCCceeecee-EE-EEECCeEEEEEEEeCCCCcc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKF-PTD--------------YIPTVFDNFS-AN-VVAEGTTVNLGLWDTAGQED   68 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~-~~~--------------~~~~~~~~~~-~~-~~~~~~~~~~~i~D~~g~~~   68 (168)
                      ++.-++.+|-+-..|||||..|++...- ...              ....++..-+ .. ...+++.+.+.++||||+-.
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            4566899999999999999999985321 010              0111111110 11 12246779999999999999


Q ss_pred             ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHH
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL  148 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  148 (168)
                      |.......+.-|+++++|+|++..--.+.. ..++..++.   +..+|.|+||+|+...+.         .....+..++
T Consensus       138 Fs~EVsRslaac~G~lLvVDA~qGvqAQT~-anf~lAfe~---~L~iIpVlNKIDlp~adp---------e~V~~q~~~l  204 (650)
T KOG0462|consen  138 FSGEVSRSLAACDGALLVVDASQGVQAQTV-ANFYLAFEA---GLAIIPVLNKIDLPSADP---------ERVENQLFEL  204 (650)
T ss_pred             ccceehehhhhcCceEEEEEcCcCchHHHH-HHHHHHHHc---CCeEEEeeeccCCCCCCH---------HHHHHHHHHH
Confidence            999999999999999999999988777776 566666665   678999999999987753         0112222333


Q ss_pred             HHHhCCcEEEEecccCccCC
Q 030961          149 RKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       149 ~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      -.... .+.+.+||++|.|+
T Consensus       205 F~~~~-~~~i~vSAK~G~~v  223 (650)
T KOG0462|consen  205 FDIPP-AEVIYVSAKTGLNV  223 (650)
T ss_pred             hcCCc-cceEEEEeccCccH
Confidence            23233 37899999999885

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.53  E-value=7.5e-15  Score=92.15  Aligned_cols=128  Identities=23%  Similarity=0.163  Sum_probs=93.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccccccc----ccCCcEEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLS----YRGADVFVL   85 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~----~~~~~~~i~   85 (168)
                      |+++||..|+|||||++.+.+...  .+..|...+|..+          ..+||||...-...|.+.    ..+++++++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~--lykKTQAve~~d~----------~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~   70 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDT--LYKKTQAVEFNDK----------GDIDTPGEYFEHPRWYHALITTLQDADVIIY   70 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchh--hhcccceeeccCc----------cccCCchhhhhhhHHHHHHHHHhhccceeee
Confidence            799999999999999999987642  3334444444211          138999975544444333    458999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |-+++++++.-.-      .+.... ..|+|-|.+|.|+..+.            ..+..+++..+-|..++|++|+.++
T Consensus        71 v~~and~~s~f~p------~f~~~~-~k~vIgvVTK~DLaed~------------dI~~~~~~L~eaGa~~IF~~s~~d~  131 (148)
T COG4917          71 VHAANDPESRFPP------GFLDIG-VKKVIGVVTKADLAEDA------------DISLVKRWLREAGAEPIFETSAVDN  131 (148)
T ss_pred             eecccCccccCCc------cccccc-ccceEEEEecccccchH------------hHHHHHHHHHHcCCcceEEEeccCc
Confidence            9999999875442      233322 34699999999998653            3567788889999989999999998


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .||
T Consensus       132 ~gv  134 (148)
T COG4917         132 QGV  134 (148)
T ss_pred             ccH
Confidence            875

>PRK09866 hypothetical protein; Provisional

Probab=99.52  E-value=1.7e-13  Score=107.81  Aligned_cols=101  Identities=15%  Similarity=0.143  Sum_probs=66.2

Q ss_pred             EEEEEEeCCCCccc-----cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchh
Q 030961           56 VNLGLWDTAGQEDY-----NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHY  130 (168)
Q Consensus        56 ~~~~i~D~~g~~~~-----~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~  130 (168)
                      .++.+.||||-...     .......+..+|+++||+|+.+..+...  ..+.+.+.+.....|+++|+||+|+.+... 
T Consensus       230 ~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D--eeIlk~Lkk~~K~~PVILVVNKIDl~dree-  306 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD--EEVREAILAVGQSVPLYVLVNKFDQQDRNS-  306 (741)
T ss_pred             CCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH--HHHHHHHHhcCCCCCEEEEEEcccCCCccc-
Confidence            45678999996542     2233446889999999999987655444  345555655432369999999999864321 


Q ss_pred             hhcCCCCCcccHHHHHHHHHHh------CCcEEEEecccCccCC
Q 030961          131 LADHPGLVPVTTAQGEELRKQI------GASYYIECSSKTQQVC  168 (168)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~Sa~~~~~i  168 (168)
                               ...+....+....      ....+|++||++|.|+
T Consensus       307 ---------ddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~ni  341 (741)
T PRK09866        307 ---------DDADQVRALISGTLMKGCITPQQIFPVSSMWGYLA  341 (741)
T ss_pred             ---------chHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH
Confidence                     2234444443211      2346899999999985

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.52  E-value=2.9e-13  Score=94.20  Aligned_cols=144  Identities=20%  Similarity=0.202  Sum_probs=83.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCC--Cceeece-eEEEEECCeEEEEEEEeCCCCccccc-----------ccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYI--PTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR-----------LRP   74 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~-----------~~~   74 (168)
                      ++|+++|.+|+|||||+|.+++........  +..+... .......+  .++.++||||-.....           ...
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~--~~i~viDTPG~~d~~~~~~~~~~~i~~~~~   78 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDG--RRVNVIDTPGLFDTSVSPEQLSKEIVRCLS   78 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECC--eEEEEEECcCCCCccCChHHHHHHHHHHHH
Confidence            479999999999999999999876432211  1112111 11223333  4677899999654321           011


Q ss_pred             ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCC---CCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH
Q 030961           75 LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSP---GVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ  151 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~---~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (168)
                      ....++|++++|+++.+ .+-..  ...++.+.+...   -.+++++.|+.|...... ..+.   ........+.+.+.
T Consensus        79 ~~~~g~~~illVi~~~~-~t~~d--~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~-~~~~---~~~~~~~l~~l~~~  151 (196)
T cd01852          79 LSAPGPHAFLLVVPLGR-FTEEE--EQAVETLQELFGEKVLDHTIVLFTRGDDLEGGT-LEDY---LENSCEALKRLLEK  151 (196)
T ss_pred             hcCCCCEEEEEEEECCC-cCHHH--HHHHHHHHHHhChHhHhcEEEEEECccccCCCc-HHHH---HHhccHHHHHHHHH
Confidence            12357899999999876 33222  445555555432   258889999999765431 0000   00012445666666


Q ss_pred             hCCcEEEEecc
Q 030961          152 IGASYYIECSS  162 (168)
Q Consensus       152 ~~~~~~~~~Sa  162 (168)
                      .+. .|+..+.
T Consensus       152 c~~-r~~~f~~  161 (196)
T cd01852         152 CGG-RYVAFNN  161 (196)
T ss_pred             hCC-eEEEEeC
Confidence            665 4544443

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).

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.52  E-value=1.9e-14  Score=102.21  Aligned_cols=119  Identities=18%  Similarity=0.213  Sum_probs=81.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee--EEEEECCeEEEEEEEeCCCCcc-------cccccccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS--ANVVAEGTTVNLGLWDTAGQED-------YNRLRPLS   76 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~   76 (168)
                      ...++++++|..|+|||||||.++.+...+...-..+.+..  ....+++  -.+.+||+||-.+       ++......
T Consensus        37 ~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~--~~l~lwDtPG~gdg~~~D~~~r~~~~d~  114 (296)
T COG3596          37 KEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDG--ENLVLWDTPGLGDGKDKDAEHRQLYRDY  114 (296)
T ss_pred             cCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccc--cceEEecCCCcccchhhhHHHHHHHHHH
Confidence            46789999999999999999999965543332222122211  1223344  4567799999654       56667777


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                      +...|.++++.++.|+.--..  ..++..+....-+.+++++.|.+|...+.
T Consensus       115 l~~~DLvL~l~~~~draL~~d--~~f~~dVi~~~~~~~~i~~VtQ~D~a~p~  164 (296)
T COG3596         115 LPKLDLVLWLIKADDRALGTD--EDFLRDVIILGLDKRVLFVVTQADRAEPG  164 (296)
T ss_pred             hhhccEEEEeccCCCccccCC--HHHHHHHHHhccCceeEEEEehhhhhccc
Confidence            889999999999988764433  23333444433458999999999988664

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.51  E-value=4.8e-14  Score=114.87  Aligned_cols=118  Identities=19%  Similarity=0.076  Sum_probs=81.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC---------------CCCC---CCCceeece-eEEEEECCeEEEEEEEeCCC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK---------------FPTD---YIPTVFDNF-SANVVAEGTTVNLGLWDTAG   65 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~---------------~~~~---~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g   65 (168)
                      .....+|+++|+.++|||||+.+|+...               +...   ...|+.... ......++..+++.+|||||
T Consensus        16 ~~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG   95 (720)
T TIGR00490        16 PKFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPG   95 (720)
T ss_pred             cccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCC
Confidence            3457799999999999999999997521               1000   011211111 11233567788999999999


Q ss_pred             CccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           66 QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      +..|.......++.+|++++|+|+.+.......  .....+..  .+.|.++++||+|...
T Consensus        96 ~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~--~~~~~~~~--~~~p~ivviNKiD~~~  152 (720)
T TIGR00490        96 HVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTE--TVLRQALK--ENVKPVLFINKVDRLI  152 (720)
T ss_pred             ccccHHHHHHHHHhcCEEEEEEecCCCCCccHH--HHHHHHHH--cCCCEEEEEEChhccc
Confidence            998887777889999999999999875443332  22222322  3578899999999864

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.

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.51  E-value=2.4e-13  Score=98.61  Aligned_cols=154  Identities=18%  Similarity=0.227  Sum_probs=106.4

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee---EEEEECCeEEEEEEEeCCCCccccccccccccC---Cc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS---ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG---AD   81 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~---~~   81 (168)
                      .-.|+++|..++|||||+.+|.+..   ...+.-+..|.   ..-...+...++.+|-..|......+....+..   ++
T Consensus        52 gk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~ae  128 (473)
T KOG3905|consen   52 GKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLAE  128 (473)
T ss_pred             CCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCccc
Confidence            3479999999999999999998864   22223333332   222233446778889999987666666655543   23


Q ss_pred             -EEEEEEeCCChhHHHHHHHhHHHHHchhCC-------------------------------------------------
Q 030961           82 -VFVLAFSLVSRASYENVLKKWIPELQHYSP-------------------------------------------------  111 (168)
Q Consensus        82 -~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~-------------------------------------------------  111 (168)
                       .+|++.|++++|.+.+..+.|...+.++..                                                 
T Consensus       129 tlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~~  208 (473)
T KOG3905|consen  129 TLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEHV  208 (473)
T ss_pred             eEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCcccccc
Confidence             678889999999877666888554433210                                                 


Q ss_pred             -------------CCcEEEEeeCCccc----ccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961          112 -------------GVPVVLVGTKLDLR----EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       112 -------------~~p~ivv~nK~D~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                                   .+|++||.+|||..    .+.++.++   -......++++||-++|. ..|.+|++...||
T Consensus       209 llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDe---hfdfiq~~lRkFCLr~Ga-aLiyTSvKE~KNi  278 (473)
T KOG3905|consen  209 LLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDE---HFDFIQSHLRKFCLRYGA-ALIYTSVKETKNI  278 (473)
T ss_pred             ccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHH---HHHHHHHHHHHHHHHcCc-eeEEeecccccch
Confidence                         16799999999983    33222211   223566778999999999 8999999998886

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.49  E-value=1.1e-12  Score=100.03  Aligned_cols=82  Identities=21%  Similarity=0.184  Sum_probs=53.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCC------Cceeecee-EE--------------E-EEC-CeEEEEEEEeCCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYI------PTVFDNFS-AN--------------V-VAE-GTTVNLGLWDTAG   65 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~------~~~~~~~~-~~--------------~-~~~-~~~~~~~i~D~~g   65 (168)
                      ++|.++|.|++|||||+|+|.+........      |+.+.-+- ..              . ..+ .....+++||+||
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            689999999999999999999876543212      22221110 00              0 011 1236789999999


Q ss_pred             Cc----ccccccccc---ccCCcEEEEEEeCC
Q 030961           66 QE----DYNRLRPLS---YRGADVFVLAFSLV   90 (168)
Q Consensus        66 ~~----~~~~~~~~~---~~~~~~~i~v~d~~   90 (168)
                      ..    ....+...+   ++++|++++|+|+.
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            42    333344444   78999999999986

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.49  E-value=4.6e-13  Score=97.89  Aligned_cols=120  Identities=13%  Similarity=0.130  Sum_probs=70.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCC--CCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccc-------ccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPT--DYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRL-------RPL   75 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-------~~~   75 (168)
                      ....++|+++|.+|+||||++|++++.....  ...+............  .+.++.+|||||.......       ...
T Consensus        35 ~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~--~G~~l~VIDTPGL~d~~~~~e~~~~~ik~  112 (313)
T TIGR00991        35 DVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTR--AGFTLNIIDTPGLIEGGYINDQAVNIIKR  112 (313)
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEE--CCeEEEEEECCCCCchHHHHHHHHHHHHH
Confidence            3468899999999999999999999876421  1111111111112222  3467888999997643211       111


Q ss_pred             cc--cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCC---CCcEEEEeeCCccccc
Q 030961           76 SY--RGADVFVLAFSLVSRASYENVLKKWIPELQHYSP---GVPVVLVGTKLDLRED  127 (168)
Q Consensus        76 ~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~---~~p~ivv~nK~D~~~~  127 (168)
                      ++  ...|++++|..++.. .+.......++.+.....   -.+.+|+.|++|...+
T Consensus       113 ~l~~~g~DvVLyV~rLD~~-R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~p  168 (313)
T TIGR00991       113 FLLGKTIDVLLYVDRLDAY-RVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPP  168 (313)
T ss_pred             HhhcCCCCEEEEEeccCcc-cCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCC
Confidence            11  268999999654321 121111334444444431   2578999999997754

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.47  E-value=1.6e-12  Score=100.39  Aligned_cols=145  Identities=23%  Similarity=0.320  Sum_probs=108.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .+..+.+.++|+.++|||.+++.|++..+...+..+....+.. .+...++...+.+.|.+-. ....+.... ..||++
T Consensus       422 ~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~  499 (625)
T KOG1707|consen  422 DRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDVA  499 (625)
T ss_pred             cceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeeeE
Confidence            4678899999999999999999999998877666666666654 3455677788888888765 222232333 789999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +++||.+++.+|... ...++..... ...|+++|++|+|+....+          ...-...++++++++.+-+..|.+
T Consensus       500 ~~~YDsS~p~sf~~~-a~v~~~~~~~-~~~Pc~~va~K~dlDe~~Q----------~~~iqpde~~~~~~i~~P~~~S~~  567 (625)
T KOG1707|consen  500 CLVYDSSNPRSFEYL-AEVYNKYFDL-YKIPCLMVATKADLDEVPQ----------RYSIQPDEFCRQLGLPPPIHISSK  567 (625)
T ss_pred             EEecccCCchHHHHH-HHHHHHhhhc-cCCceEEEeeccccchhhh----------ccCCChHHHHHhcCCCCCeeeccC
Confidence            999999999999887 4444443333 6899999999999987754          222223788999998777777776

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.46  E-value=7.4e-13  Score=96.97  Aligned_cols=155  Identities=16%  Similarity=0.098  Sum_probs=103.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCC----------CC--CCcee-------------------eceeEEEE-EC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPT----------DY--IPTVF-------------------DNFSANVV-AE   52 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~----------~~--~~~~~-------------------~~~~~~~~-~~   52 (168)
                      ....++++-+|+-.-||||||-||+.+.-..          ..  ..+.+                   .+....+. ..
T Consensus         3 ~k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFs   82 (431)
T COG2895           3 HKSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFS   82 (431)
T ss_pred             cccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecc
Confidence            4567899999999999999999999763210          00  01111                   11111111 12


Q ss_pred             CeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh
Q 030961           53 GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA  132 (168)
Q Consensus        53 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~  132 (168)
                      -...++.+-||||++.|...+-.-.+.||+.|+++|+...-  .+. -.....+.....-..+++..||+||.+..+...
T Consensus        83 T~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gv--l~Q-TrRHs~I~sLLGIrhvvvAVNKmDLvdy~e~~F  159 (431)
T COG2895          83 TEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGV--LEQ-TRRHSFIASLLGIRHVVVAVNKMDLVDYSEEVF  159 (431)
T ss_pred             cccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhh--HHH-hHHHHHHHHHhCCcEEEEEEeeecccccCHHHH
Confidence            34567889999999999887777788999999999984322  221 112222222223467899999999997755222


Q ss_pred             cCCCCCcccHHHHHHHHHHhCC--cEEEEecccCccCC
Q 030961          133 DHPGLVPVTTAQGEELRKQIGA--SYYIECSSKTQQVC  168 (168)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i  168 (168)
                      +      ...++-..|+..++.  ..++++||..|+||
T Consensus       160 ~------~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV  191 (431)
T COG2895         160 E------AIVADYLAFAAQLGLKDVRFIPISALLGDNV  191 (431)
T ss_pred             H------HHHHHHHHHHHHcCCCcceEEechhccCCcc
Confidence            2      456667788888877  46899999999997

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.46  E-value=5.1e-13  Score=103.35  Aligned_cols=153  Identities=12%  Similarity=0.098  Sum_probs=91.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC---CCCCCCC--ceeecee--EE-----------E-EEC-------------
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK---FPTDYIP--TVFDNFS--AN-----------V-VAE-------------   52 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~---~~~~~~~--~~~~~~~--~~-----------~-~~~-------------   52 (168)
                      ....++|.++|+-..|||||+..|.+..   +..+-..  |+..-|.  ..           + ...             
T Consensus        31 ~~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (460)
T PTZ00327         31 RQATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCG  110 (460)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCccccccccccc
Confidence            3567899999999999999999998632   2211111  1111110  00           0 000             


Q ss_pred             ---CeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           53 ---GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        53 ---~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                         .....+.++|+||++.|.......+..+|++++|+|+..+. ..+.  .+.+..+... .-.+++++.||+|+....
T Consensus       111 ~~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT--~ehl~i~~~l-gi~~iIVvlNKiDlv~~~  187 (460)
T PTZ00327        111 HKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQT--SEHLAAVEIM-KLKHIIILQNKIDLVKEA  187 (460)
T ss_pred             ccccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhh--HHHHHHHHHc-CCCcEEEEEecccccCHH
Confidence               00246789999999988766666678999999999998742 2222  2222333222 234689999999997532


Q ss_pred             hhhhcCCCCCcccHHHHHHHHHHh--CCcEEEEecccCccCC
Q 030961          129 HYLADHPGLVPVTTAQGEELRKQI--GASYYIECSSKTQQVC  168 (168)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~i  168 (168)
                      . .       ....++.+.+....  ...+++++||++|+|+
T Consensus       188 ~-~-------~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI  221 (460)
T PTZ00327        188 Q-A-------QDQYEEIRNFVKGTIADNAPIIPISAQLKYNI  221 (460)
T ss_pred             H-H-------HHHHHHHHHHHHhhccCCCeEEEeeCCCCCCH
Confidence            2 0       01123333333221  2348999999999985

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.45  E-value=2.2e-12  Score=92.64  Aligned_cols=122  Identities=11%  Similarity=0.039  Sum_probs=72.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCC-CCceeece-eEEEEECCeEEEEEEEeCCCCcccc--c-c-------
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDY-IPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYN--R-L-------   72 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~--~-~-------   72 (168)
                      ....++|+++|.+|+|||||+|.+++....... ....+... ......+  ...+.+|||||-....  . .       
T Consensus        28 ~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~--g~~i~vIDTPGl~~~~~~~~~~~~~~~~  105 (249)
T cd01853          28 LDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVD--GFKLNIIDTPGLLESVMDQRVNRKILSS  105 (249)
T ss_pred             ccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEEC--CeEEEEEECCCcCcchhhHHHHHHHHHH
Confidence            346799999999999999999999987643221 11111111 1122233  3567889999965431  1 0       


Q ss_pred             cccccc--CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCC---CCcEEEEeeCCcccccch
Q 030961           73 RPLSYR--GADVFVLAFSLVSRASYENVLKKWIPELQHYSP---GVPVVLVGTKLDLREDKH  129 (168)
Q Consensus        73 ~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~---~~p~ivv~nK~D~~~~~~  129 (168)
                      ...++.  ..+++++|..++.. .+......+++.+.....   -.++++|.||+|...+..
T Consensus       106 I~~~l~~~~idvIL~V~rlD~~-r~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p~~  166 (249)
T cd01853         106 IKRYLKKKTPDVVLYVDRLDMY-RRDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASSPPDG  166 (249)
T ss_pred             HHHHHhccCCCEEEEEEcCCCC-CCCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccCCCCC
Confidence            111222  57888888655432 111221344455544331   257999999999986654

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.44  E-value=1e-11  Score=90.20  Aligned_cols=87  Identities=22%  Similarity=0.200  Sum_probs=56.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeeceeEEEEECCeEEEEEEEeCCCCccccc-------cccccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR-------LRPLSY   77 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-------~~~~~~   77 (168)
                      +.--.+++||.|++|||||++++.+.+-.. .|.-|.-.  ...-.....+.++++.|+||--.-.+       ..-...
T Consensus        61 sGda~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~--~VPG~l~Y~ga~IQild~Pgii~gas~g~grG~~vlsv~  138 (365)
T COG1163          61 SGDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLE--PVPGMLEYKGAQIQLLDLPGIIEGASSGRGRGRQVLSVA  138 (365)
T ss_pred             cCCeEEEEEcCCCccHHHHHHHHhCCCccccccCceecc--cccceEeecCceEEEEcCcccccCcccCCCCcceeeeee
Confidence            345689999999999999999999875322 22211111  11112334456777799998533222       233457


Q ss_pred             cCCcEEEEEEeCCChhH
Q 030961           78 RGADVFVLAFSLVSRAS   94 (168)
Q Consensus        78 ~~~~~~i~v~d~~~~~s   94 (168)
                      ++||.+++|+|+.....
T Consensus       139 R~ADlIiiVld~~~~~~  155 (365)
T COG1163         139 RNADLIIIVLDVFEDPH  155 (365)
T ss_pred             ccCCEEEEEEecCCChh
Confidence            89999999999986554

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.43  E-value=5.3e-13  Score=101.31  Aligned_cols=118  Identities=24%  Similarity=0.224  Sum_probs=76.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeeceeEEEEECCeEEEEEEEeCCCCcc-cccc--------ccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED-YNRL--------RPL   75 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~--------~~~   75 (168)
                      ..++|+++|.||+|||||+|.|.+....  ..-..|..+-....+.++|  +++.+.||.|-.+ -...        ...
T Consensus       267 ~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G--~~v~L~DTAGiRe~~~~~iE~~gI~rA~k  344 (531)
T KOG1191|consen  267 SGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNG--VPVRLSDTAGIREESNDGIEALGIERARK  344 (531)
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCC--eEEEEEeccccccccCChhHHHhHHHHHH
Confidence            4689999999999999999999988653  3333444443444555555  5556699999644 1111        122


Q ss_pred             cccCCcEEEEEEeC--CChhHHHHHHHhHHHHHchhC-------CCCcEEEEeeCCccccc
Q 030961           76 SYRGADVFVLAFSL--VSRASYENVLKKWIPELQHYS-------PGVPVVLVGTKLDLRED  127 (168)
Q Consensus        76 ~~~~~~~~i~v~d~--~~~~s~~~~~~~~~~~l~~~~-------~~~p~ivv~nK~D~~~~  127 (168)
                      .+..+|++++|+|+  ++-++-..+ .+.+.....-.       ...|++++.||+|+...
T Consensus       345 ~~~~advi~~vvda~~~~t~sd~~i-~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~  404 (531)
T KOG1191|consen  345 RIERADVILLVVDAEESDTESDLKI-ARILETEGVGLVVIVNKMEKQRIILVANKSDLVSK  404 (531)
T ss_pred             HHhhcCEEEEEecccccccccchHH-HHHHHHhccceEEEeccccccceEEEechhhccCc
Confidence            35689999999998  333333332 23333333221       24789999999999865

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.41  E-value=3.6e-12  Score=98.55  Aligned_cols=156  Identities=19%  Similarity=0.236  Sum_probs=104.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEE--CCeEEEEEEEeCCCCccccccccccccC----C
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVA--EGTTVNLGLWDTAGQEDYNRLRPLSYRG----A   80 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~--~~~~~~~~i~D~~g~~~~~~~~~~~~~~----~   80 (168)
                      .-.|+|+|..++|||||+.+|.+.   +...++.+.+|.- .+.-  .+...++.+|-..|...+..+.+..+..    -
T Consensus        25 ~k~vlvlG~~~~GKttli~~L~~~---e~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~  101 (472)
T PF05783_consen   25 EKSVLVLGDKGSGKTTLIARLQGI---EDPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPN  101 (472)
T ss_pred             CceEEEEeCCCCchHHHHHHhhcc---CCCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccc
Confidence            457999999999999999999764   2334555555532 2211  1234678999999877777766665543    2


Q ss_pred             cEEEEEEeCCChhHHHHHHHhHHHHHchhC------------------------------C-------------------
Q 030961           81 DVFVLAFSLVSRASYENVLKKWIPELQHYS------------------------------P-------------------  111 (168)
Q Consensus        81 ~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~------------------------------~-------------------  111 (168)
                      -.+++|+|.+.||.+.+.++.|+..+.++.                              .                   
T Consensus       102 t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~~  181 (472)
T PF05783_consen  102 TLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDES  181 (472)
T ss_pred             eEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCccccccccccccccc
Confidence            378889999999987755465532222210                              0                   


Q ss_pred             --------------CCcEEEEeeCCcccccchhhh-cCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961          112 --------------GVPVVLVGTKLDLREDKHYLA-DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus       112 --------------~~p~ivv~nK~D~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                                    .+|++||++|+|....-.... ..+.........++.+|-.||+ ..|.||++...|
T Consensus       182 ~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGA-sL~yts~~~~~n  251 (472)
T PF05783_consen  182 VLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGA-SLIYTSVKEEKN  251 (472)
T ss_pred             ccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCC-eEEEeecccccc
Confidence                          168999999999754211000 1112223566778999999999 899999988765

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 [].

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.41  E-value=9.9e-13  Score=90.06  Aligned_cols=117  Identities=17%  Similarity=0.145  Sum_probs=80.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccccccccc---CCcEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYR---GADVF   83 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~---~~~~~   83 (168)
                      .+-.|+++|+++||||+|+.+|..+..... .+.+... .....+.+..  ++++|.||+++.+.-...+++   .+-++
T Consensus        37 ~~~~Vll~Gl~dSGKT~LF~qL~~gs~~~T-vtSiepn-~a~~r~gs~~--~~LVD~PGH~rlR~kl~e~~~~~~~akai  112 (238)
T KOG0090|consen   37 KQNAVLLVGLSDSGKTSLFTQLITGSHRGT-VTSIEPN-EATYRLGSEN--VTLVDLPGHSRLRRKLLEYLKHNYSAKAI  112 (238)
T ss_pred             cCCcEEEEecCCCCceeeeeehhcCCccCe-eeeeccc-eeeEeecCcc--eEEEeCCCcHHHHHHHHHHccccccceeE
Confidence            456799999999999999999988743221 1111111 1222333333  667999999988754444444   78899


Q ss_pred             EEEEeCC-ChhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCccccc
Q 030961           84 VLAFSLV-SRASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLRED  127 (168)
Q Consensus        84 i~v~d~~-~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~  127 (168)
                      +||+|.. .......+.+.+++.+....   +.+|++|..||.|+.-.
T Consensus       113 VFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tA  160 (238)
T KOG0090|consen  113 VFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTA  160 (238)
T ss_pred             EEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhc
Confidence            9999865 34456666577777766652   67899999999998855

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.41  E-value=2.2e-12  Score=107.47  Aligned_cols=100  Identities=21%  Similarity=0.243  Sum_probs=68.7

Q ss_pred             CHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECC----------------eEEEEEEEeCCCCccccccccccccCCcE
Q 030961           20 GKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEG----------------TTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus        20 GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~----------------~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      +||||+.++.+......-...++..... .+..+.                ....+.+|||||++.|..+....+..+|+
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            4999999999877655444444433311 122221                01127889999999998887778888999


Q ss_pred             EEEEEeCCC---hhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           83 FVLAFSLVS---RASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        83 ~i~v~d~~~---~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      +++|+|+++   +.+++.+     ..+..  .++|+++++||+|+..
T Consensus       553 vlLVVDa~~Gi~~qT~e~I-----~~lk~--~~iPiIVViNKiDL~~  592 (1049)
T PRK14845        553 AVLVVDINEGFKPQTIEAI-----NILRQ--YKTPFVVAANKIDLIP  592 (1049)
T ss_pred             EEEEEECcccCCHhHHHHH-----HHHHH--cCCCEEEEEECCCCcc
Confidence            999999987   3444433     33333  3689999999999964

>cd01882 BMS1 Bms1

Probab=99.40  E-value=5.9e-12  Score=89.42  Aligned_cols=142  Identities=19%  Similarity=0.126  Sum_probs=82.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+...|+++|.+|+|||||++.+.+..-........+.   .. .......++.++||||..  .. ....++.+|++++
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~---i~-i~~~~~~~i~~vDtPg~~--~~-~l~~ak~aDvVll  109 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP---IT-VVTGKKRRLTFIECPNDI--NA-MIDIAKVADLVLL  109 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc---EE-EEecCCceEEEEeCCchH--HH-HHHHHHhcCEEEE
Confidence            34567999999999999999999864211100000010   11 122345667789999853  11 1233578999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcE-EEEeeCCcccccchhhhcCCCCCcccHHHHHH-HH-HHhCCcEEEEecc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPV-VLVGTKLDLREDKHYLADHPGLVPVTTAQGEE-LR-KQIGASYYIECSS  162 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~-ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~Sa  162 (168)
                      ++|++.......  ..++..+..  .+.|. +++.||+|+.+......       ...++++. +. ......+++.+||
T Consensus       110 viDa~~~~~~~~--~~i~~~l~~--~g~p~vi~VvnK~D~~~~~~~~~-------~~~~~l~~~~~~~~~~~~ki~~iSa  178 (225)
T cd01882         110 LIDASFGFEMET--FEFLNILQV--HGFPRVMGVLTHLDLFKKNKTLR-------KTKKRLKHRFWTEVYQGAKLFYLSG  178 (225)
T ss_pred             EEecCcCCCHHH--HHHHHHHHH--cCCCeEEEEEeccccCCcHHHHH-------HHHHHHHHHHHHhhCCCCcEEEEee
Confidence            999876554333  344455544  24675 45999999864321000       11222322 22 1234458999998


Q ss_pred             cCc
Q 030961          163 KTQ  165 (168)
Q Consensus       163 ~~~  165 (168)
                      ++.
T Consensus       179 ~~~  181 (225)
T cd01882         179 IVH  181 (225)
T ss_pred             ccC
Confidence            875

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.

>cd00066 G-alpha G protein alpha subunit

Probab=99.39  E-value=2.5e-12  Score=95.67  Aligned_cols=75  Identities=15%  Similarity=0.230  Sum_probs=57.4

Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCCh----------hHHHHHHHhHHHHHchhC-CCCcEEEEeeCC
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSR----------ASYENVLKKWIPELQHYS-PGVPVVLVGTKL  122 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~----------~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~  122 (168)
                      ..+.+.+||++|+...+..|..++.++++++||+|+++-          ..+.+....+-..+.... .+.|++|++||.
T Consensus       159 ~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~  238 (317)
T cd00066         159 KNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKK  238 (317)
T ss_pred             cceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccCh
Confidence            356688899999999999999999999999999999873          345555333333333322 579999999999


Q ss_pred             cccccc
Q 030961          123 DLREDK  128 (168)
Q Consensus       123 D~~~~~  128 (168)
                      |+..+.
T Consensus       239 D~f~~k  244 (317)
T cd00066         239 DLFEEK  244 (317)
T ss_pred             HHHHHh
Confidence            977653

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.

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=99.38  E-value=6.2e-13  Score=102.07  Aligned_cols=149  Identities=23%  Similarity=0.342  Sum_probs=117.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+++|+.+||..++|||+|++|++.+.|... ....+-.|++.+.+++....+.+.|.+|...     ..+..++|++|
T Consensus        27 sipelk~givg~~~sgktalvhr~ltgty~~~-e~~e~~~~kkE~vv~gqs~lLlirdeg~~~~-----aQft~wvdavI  100 (749)
T KOG0705|consen   27 SIPELKLGIVGTSQSGKTALVHRYLTGTYTQD-ESPEGGRFKKEVVVDGQSHLLLIRDEGGHPD-----AQFCQWVDAVV  100 (749)
T ss_pred             ccchhheeeeecccCCceeeeeeeccceeccc-cCCcCccceeeEEeeccceEeeeecccCCch-----hhhhhhccceE
Confidence            45789999999999999999999999988655 4556667899999999999999999998543     35678899999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      |||.+.+..+|+.+ +.+...+..+.  ..+|+++++++.-......        +.+...++..++..+.-..||++++
T Consensus       101 fvf~~~d~~s~q~v-~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~--------rv~~da~~r~l~~~~krcsy~et~a  171 (749)
T KOG0705|consen  101 FVFSVEDEQSFQAV-QALAHEMSSYRNISDLPLILVGTQDHISAKRP--------RVITDDRARQLSAQMKRCSYYETCA  171 (749)
T ss_pred             EEEEeccccCHHHH-HHHHhhcccccccccchHHhhcCcchhhcccc--------cccchHHHHHHHHhcCccceeecch
Confidence            99999999999998 77777777554  6789999987765443322        2255666666665555558999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      .+|.++
T Consensus       172 tyGlnv  177 (749)
T KOG0705|consen  172 TYGLNV  177 (749)
T ss_pred             hhhhhH
Confidence            998764

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.37  E-value=3.1e-12  Score=91.87  Aligned_cols=87  Identities=24%  Similarity=0.264  Sum_probs=69.5

Q ss_pred             ccccccccccccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHH
Q 030961           67 EDYNRLRPLSYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQG  145 (168)
Q Consensus        67 ~~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  145 (168)
                      +++..+.+.+++++|++++|||+.++. ++..+ ..|+..+..  .++|+++|+||+|+...+.          +..+.+
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l-~r~l~~~~~--~~i~~vIV~NK~DL~~~~~----------~~~~~~   90 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQL-DRFLVVAEA--QNIEPIIVLNKIDLLDDED----------MEKEQL   90 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHH-HHHHHHHHH--CCCCEEEEEECcccCCCHH----------HHHHHH
Confidence            667778888999999999999999887 88887 888877655  5799999999999975443          333445


Q ss_pred             HHHHHHhCCcEEEEecccCccCC
Q 030961          146 EELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       146 ~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      ..+. ..+. +++++||++|+||
T Consensus        91 ~~~~-~~g~-~v~~~SAktg~gi  111 (245)
T TIGR00157        91 DIYR-NIGY-QVLMTSSKNQDGL  111 (245)
T ss_pred             HHHH-HCCC-eEEEEecCCchhH
Confidence            5554 4676 8999999999985

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>PTZ00416 elongation factor 2; Provisional

Probab=99.35  E-value=2.8e-12  Score=106.02  Aligned_cols=117  Identities=13%  Similarity=0.149  Sum_probs=79.7

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC--CCCCCCCc-eeec-----eeE---------EEEEC--------CeEEEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK--FPTDYIPT-VFDN-----FSA---------NVVAE--------GTTVNLG   59 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~--~~~~~~~~-~~~~-----~~~---------~~~~~--------~~~~~~~   59 (168)
                      .+...+|+++|+.++|||||+.+|+...  .......+ ...+     ...         .....        +....+.
T Consensus        16 ~~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~   95 (836)
T PTZ00416         16 PDQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLIN   95 (836)
T ss_pred             ccCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEE
Confidence            4556799999999999999999998631  11110000 0000     000         11111        2257788


Q ss_pred             EEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccc
Q 030961           60 LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR  125 (168)
Q Consensus        60 i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~  125 (168)
                      ++||||+..|.......++.+|++++|+|+.++.....  +..+..+..  .++|+++++||+|+.
T Consensus        96 liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t--~~~~~~~~~--~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         96 LIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQT--ETVLRQALQ--ERIRPVLFINKVDRA  157 (836)
T ss_pred             EEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccH--HHHHHHHHH--cCCCEEEEEEChhhh
Confidence            99999999887777888899999999999988755444  334444444  358999999999997

>PRK12740 elongation factor G; Reviewed

Probab=99.35  E-value=4.7e-12  Score=102.86  Aligned_cols=110  Identities=21%  Similarity=0.172  Sum_probs=73.5

Q ss_pred             ECCCCCCHHHHHHHHhcCCC--CC--CC-CC-cee----------ece-eEEEEECCeEEEEEEEeCCCCcccccccccc
Q 030961           14 VGDGAVGKTCMLICYTSNKF--PT--DY-IP-TVF----------DNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLS   76 (168)
Q Consensus        14 vG~~~~GKStli~~l~~~~~--~~--~~-~~-~~~----------~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~   76 (168)
                      +|++++|||||+++|+...-  ..  .. .. +..          ... ..........+.+.+|||||+..+...+...
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~~~~~~~~~~   80 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHVDFTGEVERA   80 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcHHHHHHHHHH
Confidence            69999999999999964311  00  00 00 110          001 0111223345778889999998887777788


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      ++.+|++++|+|+++.......  .++..+..  .++|+++++||+|+...
T Consensus        81 l~~aD~vllvvd~~~~~~~~~~--~~~~~~~~--~~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         81 LRVLDGAVVVVCAVGGVEPQTE--TVWRQAEK--YGVPRIIFVNKMDRAGA  127 (668)
T ss_pred             HHHhCeEEEEEeCCCCcCHHHH--HHHHHHHH--cCCCEEEEEECCCCCCC
Confidence            8999999999999887665542  33334433  36899999999998754

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.34  E-value=3.5e-12  Score=97.15  Aligned_cols=152  Identities=13%  Similarity=0.008  Sum_probs=97.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc----cccccc-----
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY----NRLRPL-----   75 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~~~~~~-----   75 (168)
                      ....-.++++|-|++|||||++....+.......+..+.... -...+..-..+++.||||.-..    +...+.     
T Consensus       165 Dp~trTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~-vGH~dykYlrwQViDTPGILD~plEdrN~IEmqsITA  243 (620)
T KOG1490|consen  165 DPNTRTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLL-VGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITA  243 (620)
T ss_pred             CCCcCeEEEecCCCCCcHhhcccccccccccCCcccccchhh-hhhhhhheeeeeecCCccccCcchhhhhHHHHHHHHH
Confidence            345667999999999999999988877654332222111110 1122444567888999994321    111010     


Q ss_pred             cccCCcEEEEEEeCCC--hhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH--HHHH
Q 030961           76 SYRGADVFVLAFSLVS--RASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE--LRKQ  151 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~--~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~--~~~~  151 (168)
                      ...-..+++++.|++.  +.|.... -.++..++....+.|+|+|+||+|+-....          +..+....  ....
T Consensus       244 LAHLraaVLYfmDLSe~CGySva~Q-vkLfhsIKpLFaNK~~IlvlNK~D~m~~ed----------L~~~~~~ll~~~~~  312 (620)
T KOG1490|consen  244 LAHLRSAVLYFMDLSEMCGYSVAAQ-VKLYHSIKPLFANKVTILVLNKIDAMRPED----------LDQKNQELLQTIID  312 (620)
T ss_pred             HHHhhhhheeeeechhhhCCCHHHH-HHHHHHhHHHhcCCceEEEeecccccCccc----------cCHHHHHHHHHHHh
Confidence            0112346777778764  5567665 577788888888999999999999988765          55444322  2233


Q ss_pred             hCCcEEEEecccCccCC
Q 030961          152 IGASYYIECSSKTQQVC  168 (168)
Q Consensus       152 ~~~~~~~~~Sa~~~~~i  168 (168)
                      -+.++++++|+.+.+||
T Consensus       313 ~~~v~v~~tS~~~eegV  329 (620)
T KOG1490|consen  313 DGNVKVVQTSCVQEEGV  329 (620)
T ss_pred             ccCceEEEecccchhce
Confidence            33348999999999886

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.33  E-value=3e-12  Score=106.00  Aligned_cols=118  Identities=11%  Similarity=0.082  Sum_probs=80.7

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCc-e-----------eecee---EEEEE--------------C
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPT-V-----------FDNFS---ANVVA--------------E   52 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~-~-----------~~~~~---~~~~~--------------~   52 (168)
                      ....+.+|+++|+.++|||||+.+|+...-  ....... .           +....   .....              .
T Consensus        15 ~~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~   94 (843)
T PLN00116         15 KKHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERD   94 (843)
T ss_pred             CccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccC
Confidence            355678999999999999999999985321  1100000 0           00000   01111              1


Q ss_pred             CeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccc
Q 030961           53 GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR  125 (168)
Q Consensus        53 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~  125 (168)
                      +..+.+.++||||+..|.......++.+|++++|+|+..+......  ..+..+..  .++|+++++||+|..
T Consensus        95 ~~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~--~~~~~~~~--~~~p~i~~iNK~D~~  163 (843)
T PLN00116         95 GNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTE--TVLRQALG--ERIRPVLTVNKMDRC  163 (843)
T ss_pred             CCceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHH--HHHHHHHH--CCCCEEEEEECCccc
Confidence            2367788999999999988888888999999999999887655442  33333333  368999999999987

>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=99.29  E-value=2.5e-13  Score=96.95  Aligned_cols=109  Identities=21%  Similarity=0.153  Sum_probs=52.1

Q ss_pred             EEEEEeCCCCccccccccccc--------cCCcEEEEEEeCC---ChhHHHHHHHhHHHHHc-hhCCCCcEEEEeeCCcc
Q 030961           57 NLGLWDTAGQEDYNRLRPLSY--------RGADVFVLAFSLV---SRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL  124 (168)
Q Consensus        57 ~~~i~D~~g~~~~~~~~~~~~--------~~~~~~i~v~d~~---~~~s~~~~~~~~~~~l~-~~~~~~p~ivv~nK~D~  124 (168)
                      .+.++|||||.++...+....        ...-++++++|..   ++..|-..   ++..+. ...-+.|.+.|.||+|+
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~---~L~s~s~~~~~~lP~vnvlsK~Dl  168 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSS---LLLSLSIMLRLELPHVNVLSKIDL  168 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHH---HHHHHHHHHHHTSEEEEEE--GGG
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHH---HHHHHHHHhhCCCCEEEeeeccCc
Confidence            677899999987655444432        3455888888875   44444432   222222 12247999999999999


Q ss_pred             cccch--hhhcCCC----------CCcccHHHHHHHHHHhCCc-EEEEecccCccCC
Q 030961          125 REDKH--YLADHPG----------LVPVTTAQGEELRKQIGAS-YYIECSSKTQQVC  168 (168)
Q Consensus       125 ~~~~~--~~~~~~~----------~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i  168 (168)
                      .....  ......+          ...-..++..++...++.. .++++|+.+++|+
T Consensus       169 ~~~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~  225 (238)
T PF03029_consen  169 LSKYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGM  225 (238)
T ss_dssp             S-HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTH
T ss_pred             ccchhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHH
Confidence            87320  0000000          0001112223333455666 8999999999874

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK13768 GTPase; Provisional

Probab=99.29  E-value=6.2e-12  Score=90.78  Aligned_cols=72  Identities=21%  Similarity=0.193  Sum_probs=45.4

Q ss_pred             EEEEEeCCCCccc---ccccccccc---C--CcEEEEEEeCCChhHHHHH-HHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           57 NLGLWDTAGQEDY---NRLRPLSYR---G--ADVFVLAFSLVSRASYENV-LKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        57 ~~~i~D~~g~~~~---~~~~~~~~~---~--~~~~i~v~d~~~~~s~~~~-~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      .+.+||+||+.+.   +..++.+++   .  .+++++++|+......... ...|+........+.|+++|+||+|+...
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            5789999998664   333333322   2  8899999999654432221 12333332222347999999999999765


Q ss_pred             c
Q 030961          128 K  128 (168)
Q Consensus       128 ~  128 (168)
                      .
T Consensus       178 ~  178 (253)
T PRK13768        178 E  178 (253)
T ss_pred             h
Confidence            3

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.29  E-value=4e-11  Score=90.88  Aligned_cols=146  Identities=12%  Similarity=0.077  Sum_probs=99.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC--CCCCCCCc------------eeec-eeEEEEECCeEEEEEEEeCCCCcccccc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNK--FPTDYIPT------------VFDN-FSANVVAEGTTVNLGLWDTAGQEDYNRL   72 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~--~~~~~~~~------------~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~   72 (168)
                      .-+|+++-+-..|||||+..|+.+.  |.....-.            -+.+ ..|...+....+.+.|.||||+..|-..
T Consensus         5 iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGE   84 (603)
T COG1217           5 IRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGE   84 (603)
T ss_pred             cceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccch
Confidence            4579999999999999999998652  32211110            1112 2444556667788999999999999999


Q ss_pred             ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH---
Q 030961           73 RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR---  149 (168)
Q Consensus        73 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~---  149 (168)
                      .+..++-+|++++++|+.....-+.  .+.++....  .+.+.|||.||+|....+..+        +..+-...|.   
T Consensus        85 VERvl~MVDgvlLlVDA~EGpMPQT--rFVlkKAl~--~gL~PIVVvNKiDrp~Arp~~--------Vvd~vfDLf~~L~  152 (603)
T COG1217          85 VERVLSMVDGVLLLVDASEGPMPQT--RFVLKKALA--LGLKPIVVINKIDRPDARPDE--------VVDEVFDLFVELG  152 (603)
T ss_pred             hhhhhhhcceEEEEEEcccCCCCch--hhhHHHHHH--cCCCcEEEEeCCCCCCCCHHH--------HHHHHHHHHHHhC
Confidence            9999999999999999988654443  333333222  357778888999998775411        3222222222   


Q ss_pred             ---HHhCCcEEEEecccCcc
Q 030961          150 ---KQIGASYYIECSSKTQQ  166 (168)
Q Consensus       150 ---~~~~~~~~~~~Sa~~~~  166 (168)
                         +++.+ +++..|++.|.
T Consensus       153 A~deQLdF-PivYAS~~~G~  171 (603)
T COG1217         153 ATDEQLDF-PIVYASARNGT  171 (603)
T ss_pred             CChhhCCC-cEEEeeccCce
Confidence               24555 88999998874

>smart00275 G_alpha G protein alpha subunit

Probab=99.29  E-value=1.7e-11  Score=92.01  Aligned_cols=74  Identities=15%  Similarity=0.240  Sum_probs=56.7

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCCh----------hHHHHHHHhHHHHHchhC-CCCcEEEEeeCCc
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSR----------ASYENVLKKWIPELQHYS-PGVPVVLVGTKLD  123 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~----------~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D  123 (168)
                      ...+.+||.+|+...+..|..++.++++++||+|+++-          ..+.+....+-..+.... .+.|++|++||.|
T Consensus       183 ~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D  262 (342)
T smart00275      183 KLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKID  262 (342)
T ss_pred             CeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHH
Confidence            35578899999999999999999999999999999862          345555333333333322 6799999999999


Q ss_pred             ccccc
Q 030961          124 LREDK  128 (168)
Q Consensus       124 ~~~~~  128 (168)
                      +....
T Consensus       263 ~~~~K  267 (342)
T smart00275      263 LFEEK  267 (342)
T ss_pred             hHHHH
Confidence            87653

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=99.28  E-value=4.5e-11  Score=85.18  Aligned_cols=72  Identities=19%  Similarity=0.179  Sum_probs=45.1

Q ss_pred             EEEEEEEeCCCCc-ccccccccc-----c--cCCcEEEEEEeCC---ChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCc
Q 030961           55 TVNLGLWDTAGQE-DYNRLRPLS-----Y--RGADVFVLAFSLV---SRASYENVLKKWIPELQHYSPGVPVVLVGTKLD  123 (168)
Q Consensus        55 ~~~~~i~D~~g~~-~~~~~~~~~-----~--~~~~~~i~v~d~~---~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D  123 (168)
                      .....++|||||. .|.|.....     +  ...-++++++|..   ++.+|...+-.--..+.+  .+.|.+++.||+|
T Consensus       115 ~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSilyk--tklp~ivvfNK~D  192 (366)
T KOG1532|consen  115 EFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSILYK--TKLPFIVVFNKTD  192 (366)
T ss_pred             ccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHHHh--ccCCeEEEEeccc
Confidence            3567899999984 444433332     1  1345777888853   456666542111222333  5799999999999


Q ss_pred             ccccc
Q 030961          124 LREDK  128 (168)
Q Consensus       124 ~~~~~  128 (168)
                      +....
T Consensus       193 v~d~~  197 (366)
T KOG1532|consen  193 VSDSE  197 (366)
T ss_pred             ccccH
Confidence            98763

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.27  E-value=2.5e-12  Score=89.22  Aligned_cols=150  Identities=20%  Similarity=0.243  Sum_probs=92.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCC---CCCceeeceeEEEEECCeEEEEEEEeCCCCccc----c-ccccccccC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTD---YIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY----N-RLRPLSYRG   79 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~-~~~~~~~~~   79 (168)
                      .-||+++|.+|+|||++-..++.+....+   .-+|+..++.+.....  ...+.+||.+|++.+    . ......+++
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflG--nl~LnlwDcGgqe~fmen~~~~q~d~iF~n   81 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLG--NLVLNLWDCGGQEEFMENYLSSQEDNIFRN   81 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhh--hheeehhccCCcHHHHHHHHhhcchhhhee
Confidence            45899999999999999887764432111   1122333322211111  255677999999843    2 233445789


Q ss_pred             CcEEEEEEeCCChhHHHHH--HHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEE
Q 030961           80 ADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYY  157 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~--~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (168)
                      +++++++||+..++-..+.  .+..++.+.++.|+..+.++.+|.|+.....+.    .....-.+....+....++ .+
T Consensus        82 V~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP~AkiF~l~hKmDLv~~d~r~----~if~~r~~~l~~~s~~~~~-~~  156 (295)
T KOG3886|consen   82 VQVLIYVFDVESREMEKDFHYYQKCLEALLQNSPEAKIFCLLHKMDLVQEDARE----LIFQRRKEDLRRLSRPLEC-KC  156 (295)
T ss_pred             heeeeeeeeccchhhhhhHHHHHHHHHHHHhcCCcceEEEEEeechhcccchHH----HHHHHHHHHHHHhcccccc-cc
Confidence            9999999999887644433  255566677777888899999999998664311    0111222333444444454 67


Q ss_pred             EEecccC
Q 030961          158 IECSSKT  164 (168)
Q Consensus       158 ~~~Sa~~  164 (168)
                      +++|..+
T Consensus       157 f~TsiwD  163 (295)
T KOG3886|consen  157 FPTSIWD  163 (295)
T ss_pred             cccchhh
Confidence            7777644

>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=99.26  E-value=5.3e-11  Score=83.84  Aligned_cols=146  Identities=20%  Similarity=0.209  Sum_probs=77.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCC--CCceeece-eEEEEECCeEEEEEEEeCCCCccccc--------cc---c
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDY--IPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR--------LR---P   74 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~---~   74 (168)
                      ++|+++|..|+||||++|.+++.......  ....+... ......++.  .+.++||||-.....        +.   .
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g~--~v~VIDTPGl~d~~~~~~~~~~~i~~~l~   78 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDGR--QVTVIDTPGLFDSDGSDEEIIREIKRCLS   78 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETTE--EEEEEE--SSEETTEEHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecce--EEEEEeCCCCCCCcccHHHHHHHHHHHHH
Confidence            58999999999999999999987643221  12222222 223355664  456699999432111        11   1


Q ss_pred             ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCC---CCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH
Q 030961           75 LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSP---GVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ  151 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~---~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (168)
                      ....+.|++++|+.+. +-+-..  ...++.+.+...   -.-++||.|..|...+......   .........+.+.+.
T Consensus        79 ~~~~g~ha~llVi~~~-r~t~~~--~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~~~~~~---l~~~~~~~l~~li~~  152 (212)
T PF04548_consen   79 LCSPGPHAFLLVIPLG-RFTEED--REVLELLQEIFGEEIWKHTIVVFTHADELEDDSLEDY---LKKESNEALQELIEK  152 (212)
T ss_dssp             HTTT-ESEEEEEEETT-B-SHHH--HHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTTTHHHH---HHHHHHHHHHHHHHH
T ss_pred             hccCCCeEEEEEEecC-cchHHH--HHHHHHHHHHccHHHHhHhhHHhhhccccccccHHHH---HhccCchhHhHHhhh
Confidence            1234689999999987 333222  334444444332   1468888898887665320000   000011235566666


Q ss_pred             hCCcEEEEeccc
Q 030961          152 IGASYYIECSSK  163 (168)
Q Consensus       152 ~~~~~~~~~Sa~  163 (168)
                      .+. .|...+.+
T Consensus       153 c~~-R~~~f~n~  163 (212)
T PF04548_consen  153 CGG-RYHVFNNK  163 (212)
T ss_dssp             TTT-CEEECCTT
T ss_pred             cCC-EEEEEecc
Confidence            766 56555444

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 ....

>PTZ00258 GTP-binding protein; Provisional

Probab=99.26  E-value=2.5e-10  Score=86.49  Aligned_cols=84  Identities=19%  Similarity=0.167  Sum_probs=53.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCe---------------EEEEEEEeCCCCccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGT---------------TVNLGLWDTAGQEDY   69 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~---------------~~~~~i~D~~g~~~~   69 (168)
                      ...++|.++|.||+|||||+|+|.+........|-.+..... .+.+.+.               ..++.++|+||-..-
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~g   98 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKG   98 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcC
Confidence            346799999999999999999998765433323322222211 2222211               245888999995421


Q ss_pred             c----ccccc---cccCCcEEEEEEeC
Q 030961           70 N----RLRPL---SYRGADVFVLAFSL   89 (168)
Q Consensus        70 ~----~~~~~---~~~~~~~~i~v~d~   89 (168)
                      .    .+...   .++++|++++|+|+
T Consensus        99 a~~g~gLg~~fL~~Ir~aD~il~VVd~  125 (390)
T PTZ00258         99 ASEGEGLGNAFLSHIRAVDGIYHVVRA  125 (390)
T ss_pred             CcchhHHHHHHHHHHHHCCEEEEEEeC
Confidence            1    12222   35789999999997

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.25  E-value=5.4e-10  Score=83.89  Aligned_cols=82  Identities=21%  Similarity=0.187  Sum_probs=51.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCe---------------EEEEEEEeCCCCcccc--
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGT---------------TVNLGLWDTAGQEDYN--   70 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~---------------~~~~~i~D~~g~~~~~--   70 (168)
                      +++.++|.|++|||||+|++.+........|-.+.... ..+.+.+.               ..++.+.|+||-..-.  
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            68999999999999999999987643222222221211 12222221               1358889999954311  


Q ss_pred             --ccccc---cccCCcEEEEEEeCC
Q 030961           71 --RLRPL---SYRGADVFVLAFSLV   90 (168)
Q Consensus        71 --~~~~~---~~~~~~~~i~v~d~~   90 (168)
                        .+...   .++.+|++++|+|+.
T Consensus        83 g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         83 GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence              12122   357899999999973

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.22  E-value=2.2e-11  Score=99.72  Aligned_cols=117  Identities=15%  Similarity=0.119  Sum_probs=77.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCC--CCCCCCC-ce-e----------ece--e-EE--EEECCeEEEEEEEeCCCC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNK--FPTDYIP-TV-F----------DNF--S-AN--VVAEGTTVNLGLWDTAGQ   66 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~--~~~~~~~-~~-~----------~~~--~-~~--~~~~~~~~~~~i~D~~g~   66 (168)
                      ++..+|+++|+.++|||||+.+|+...  ....... +. .          ...  . ..  ...++..+.+.++||||+
T Consensus        18 ~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~   97 (731)
T PRK07560         18 EQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGH   97 (731)
T ss_pred             hcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCc
Confidence            456789999999999999999997532  1110000 00 0          000  0 01  122445678889999999


Q ss_pred             ccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           67 EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        67 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      ..|.......++.+|++++|+|+........  +..+....+  .+.|.+++.||+|...
T Consensus        98 ~df~~~~~~~l~~~D~avlVvda~~g~~~~t--~~~~~~~~~--~~~~~iv~iNK~D~~~  153 (731)
T PRK07560         98 VDFGGDVTRAMRAVDGAIVVVDAVEGVMPQT--ETVLRQALR--ERVKPVLFINKVDRLI  153 (731)
T ss_pred             cChHHHHHHHHHhcCEEEEEEECCCCCCccH--HHHHHHHHH--cCCCeEEEEECchhhc
Confidence            9888777888899999999999887654433  223333222  2468899999999864

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.22  E-value=5.1e-10  Score=84.56  Aligned_cols=142  Identities=17%  Similarity=0.168  Sum_probs=89.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC----CCC-------------CCCCC---ceeec-e--eEEEE---ECCeEEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN----KFP-------------TDYIP---TVFDN-F--SANVV---AEGTTVNLGL   60 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~----~~~-------------~~~~~---~~~~~-~--~~~~~---~~~~~~~~~i   60 (168)
                      ..+.|.++|+-++|||||+++|.+.    ...             .+..+   |.++. |  .+.+.   .++....+.+
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            4678999999999999999999987    322             12122   11111 2  12222   2566788899


Q ss_pred             EeCCCCccccc----------c-------------------cccccc-CCcEEEEEE-eCC----ChhHHHHHHHhHHHH
Q 030961           61 WDTAGQEDYNR----------L-------------------RPLSYR-GADVFVLAF-SLV----SRASYENVLKKWIPE  105 (168)
Q Consensus        61 ~D~~g~~~~~~----------~-------------------~~~~~~-~~~~~i~v~-d~~----~~~s~~~~~~~~~~~  105 (168)
                      +||+|-..--.          |                   ....+. .++..++|. |.+    .++.+...-++++.+
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            99998321100          0                   111133 678888887 653    123344444788888


Q ss_pred             HchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961          106 LQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus       106 l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |++.  ++|++++.|+.|-..+            ...+.+.++...|+. +++.+|+.
T Consensus       176 Lk~~--~kPfiivlN~~dp~~~------------et~~l~~~l~eky~v-pvl~v~c~  218 (492)
T TIGR02836       176 LKEL--NKPFIILLNSTHPYHP------------ETEALRQELEEKYDV-PVLAMDVE  218 (492)
T ss_pred             HHhc--CCCEEEEEECcCCCCc------------hhHHHHHHHHHHhCC-ceEEEEHH
Confidence            8884  6999999999994322            223444566677886 77777764

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.

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.22  E-value=6e-10  Score=81.47  Aligned_cols=118  Identities=16%  Similarity=0.190  Sum_probs=69.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCC----------CCceeece-eEEEEECCeEEEEEEEeCCCCccc------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDY----------IPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDY------   69 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~----------~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~------   69 (168)
                      ..++|+|+|.+|+|||||+|.|++.......          ..+..... ...+.-++..+.+.++||||--..      
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~   82 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDC   82 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhh
Confidence            3689999999999999999999987543321          11111221 223444678899999999992210      


Q ss_pred             ------------c-------ccccccc--cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           70 ------------N-------RLRPLSY--RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        70 ------------~-------~~~~~~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                                  .       .......  ..+|++++.++.+. ..+..+.-..++.|..   .+++|-|+.|+|.....
T Consensus        83 ~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~-~~L~~~Di~~mk~Ls~---~vNvIPvIaKaD~lt~~  158 (281)
T PF00735_consen   83 WEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTG-HGLKPLDIEFMKRLSK---RVNVIPVIAKADTLTPE  158 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTS-SSS-HHHHHHHHHHTT---TSEEEEEESTGGGS-HH
T ss_pred             hHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCC-ccchHHHHHHHHHhcc---cccEEeEEecccccCHH
Confidence                        0       0000011  24789999998753 2222332345566655   57899999999986553

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.

>TIGR00101 ureG urease accessory protein UreG

Probab=99.20  E-value=2.7e-10  Score=79.39  Aligned_cols=92  Identities=18%  Similarity=0.174  Sum_probs=52.5

Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCC
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHP  135 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  135 (168)
                      ....++++.|..-.....+   .-++.+++|+|+.+.++...   .+..++     ...=++++||+|+.....      
T Consensus        92 ~D~iiIEt~G~~l~~~~~~---~l~~~~i~vvD~~~~~~~~~---~~~~qi-----~~ad~~~~~k~d~~~~~~------  154 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFSP---ELADLTIFVIDVAAGDKIPR---KGGPGI-----TRSDLLVINKIDLAPMVG------  154 (199)
T ss_pred             CCEEEEECCCCCcccccch---hhhCcEEEEEEcchhhhhhh---hhHhHh-----hhccEEEEEhhhcccccc------
Confidence            4556778887432222221   12678999999987666322   111111     122378899999975311      


Q ss_pred             CCCcccHHHHHHHHHH-hCCcEEEEecccCccCC
Q 030961          136 GLVPVTTAQGEELRKQ-IGASYYIECSSKTQQVC  168 (168)
Q Consensus       136 ~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~i  168 (168)
                          ...+...+..+. ....+++++||++|+||
T Consensus       155 ----~~~~~~~~~~~~~~~~~~i~~~Sa~~g~gi  184 (199)
T TIGR00101       155 ----ADLGVMERDAKKMRGEKPFIFTNLKTKEGL  184 (199)
T ss_pred             ----ccHHHHHHHHHHhCCCCCEEEEECCCCCCH
Confidence                122333333333 23358999999999985

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.

>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=99.19  E-value=9e-11  Score=79.55  Aligned_cols=62  Identities=18%  Similarity=0.139  Sum_probs=44.8

Q ss_pred             EEEEeCCCCcc----ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCC
Q 030961           58 LGLWDTAGQED----YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKL  122 (168)
Q Consensus        58 ~~i~D~~g~~~----~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~  122 (168)
                      +.++||||...    ...++..++..+|++++|.++++..+-... .++.+......  ..+++|.||+
T Consensus       103 ~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~-~~l~~~~~~~~--~~~i~V~nk~  168 (168)
T PF00350_consen  103 LTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDM-EFLKQMLDPDK--SRTIFVLNKA  168 (168)
T ss_dssp             EEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHH-HHHHHHHTTTC--SSEEEEEE-G
T ss_pred             eEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHH-HHHHHHhcCCC--CeEEEEEcCC
Confidence            67899999643    234567778999999999999987765554 66666666543  3488888885

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 ....

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.17  E-value=7.8e-11  Score=88.45  Aligned_cols=113  Identities=19%  Similarity=0.265  Sum_probs=59.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCC-CCCce--eeceeEEEEECCeEEEEEEEeCCCCccccc-----cccccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTD-YIPTV--FDNFSANVVAEGTTVNLGLWDTAGQEDYNR-----LRPLSY   77 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~-~~~~~--~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----~~~~~~   77 (168)
                      ...++|+|+|.+|+|||||||.|.+-.-.+. ..++.  .++...........-.+.+||.||.....-     +....+
T Consensus        33 ~~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~~pnv~lWDlPG~gt~~f~~~~Yl~~~~~  112 (376)
T PF05049_consen   33 NAPLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPKFPNVTLWDLPGIGTPNFPPEEYLKEVKF  112 (376)
T ss_dssp             H--EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS-TTEEEEEE--GGGSS--HHHHHHHTTG
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCCCCCCeEEeCCCCCCCCCCHHHHHHHccc
Confidence            4578999999999999999999976332211 12221  111222222223333577899999533211     222345


Q ss_pred             cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcc
Q 030961           78 RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDL  124 (168)
Q Consensus        78 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~  124 (168)
                      ...|.++++.+.    .|......+.+.+++.  +.|+.+|-+|+|.
T Consensus       113 ~~yD~fiii~s~----rf~~ndv~La~~i~~~--gK~fyfVRTKvD~  153 (376)
T PF05049_consen  113 YRYDFFIIISSE----RFTENDVQLAKEIQRM--GKKFYFVRTKVDS  153 (376)
T ss_dssp             GG-SEEEEEESS----S--HHHHHHHHHHHHT--T-EEEEEE--HHH
T ss_pred             cccCEEEEEeCC----CCchhhHHHHHHHHHc--CCcEEEEEecccc
Confidence            678888887662    2333324566667764  6899999999996

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.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.16  E-value=5e-10  Score=78.64  Aligned_cols=142  Identities=17%  Similarity=0.090  Sum_probs=75.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC-C--CC-----CCCCCceee-cee----EEEEE-CC------------------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN-K--FP-----TDYIPTVFD-NFS----ANVVA-EG------------------   53 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~-~--~~-----~~~~~~~~~-~~~----~~~~~-~~------------------   53 (168)
                      .....|.++|.+|+|||||+++++.. .  ..     ......... .+.    ..+.+ ++                  
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~~~~~~~v~v~~~~~~~~~D~~~~~~~~~~~~~l~~gcic~~~~~~~~~~l~~~~   99 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDNLKDEVKIAVIEGDVITKFDAERLRKYGAPAIQINTGKECHLDAHMVAHALEDLP   99 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHHHhcCCeEEEEECCCCCcccHHHHHHcCCcEEEEcCCCcccCChHHHHHHHHHhc
Confidence            35778999999999999999998754 1  10     000000000 000    00111 11                  


Q ss_pred             -eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh
Q 030961           54 -TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA  132 (168)
Q Consensus        54 -~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~  132 (168)
                       ....+.++++.|.-...   ..+....+..+.|+|+.+.+.....   ....     ...|.++++||+|+.....   
T Consensus       100 ~~~~d~IiIEt~G~l~~~---~~~~~~~~~~i~Vvd~~~~d~~~~~---~~~~-----~~~a~iiv~NK~Dl~~~~~---  165 (207)
T TIGR00073       100 LDDIDLLFIENVGNLVCP---ADFDLGEHMRVVLLSVTEGDDKPLK---YPGM-----FKEADLIVINKADLAEAVG---  165 (207)
T ss_pred             cCCCCEEEEecCCCcCCC---cccccccCeEEEEEecCcccchhhh---hHhH-----HhhCCEEEEEHHHccccch---
Confidence             12456678887721100   1111234555678887765432111   1111     1357899999999975422   


Q ss_pred             cCCCCCcccHHHHHHHHHHhC-CcEEEEecccCccCC
Q 030961          133 DHPGLVPVTTAQGEELRKQIG-ASYYIECSSKTQQVC  168 (168)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i  168 (168)
                             ...++..+..++.+ ..+++++||++|.||
T Consensus       166 -------~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv  195 (207)
T TIGR00073       166 -------FDVEKMKADAKKINPEAEIILMSLKTGEGL  195 (207)
T ss_pred             -------hhHHHHHHHHHHhCCCCCEEEEECCCCCCH
Confidence                   12233443343333 238999999999985

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.14  E-value=6.5e-10  Score=86.28  Aligned_cols=156  Identities=14%  Similarity=0.075  Sum_probs=99.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC--CC------------------C----CCCCCce-----eece-eEEEEECCeE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN--KF------------------P----TDYIPTV-----FDNF-SANVVAEGTT   55 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~--~~------------------~----~~~~~~~-----~~~~-~~~~~~~~~~   55 (168)
                      ..-+.++++|+-.+|||||.-+++..  ..                  .    -..+.|.     +... .+...++...
T Consensus       175 k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes~~  254 (603)
T KOG0458|consen  175 KDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFESKS  254 (603)
T ss_pred             ccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEecCc
Confidence            35788999999999999999998764  00                  0    0001111     1111 1223345566


Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCChh---HHHHH--HHhHHHHHchhCCCCcEEEEeeCCcccccchh
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRA---SYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHY  130 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~~~~--~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~  130 (168)
                      ..+.+.|.||+..|-...-.-...+|++++|+|++-.+   .|+..  ..+....++.. .-.-++|+.||.|+..=.+.
T Consensus       255 ~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~L-gi~qlivaiNKmD~V~Wsq~  333 (603)
T KOG0458|consen  255 KIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSL-GISQLIVAINKMDLVSWSQD  333 (603)
T ss_pred             eeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHc-CcceEEEEeecccccCccHH
Confidence            77889999998777766666677899999999986421   12210  12333333332 34578999999999855432


Q ss_pred             hhcCCCCCcccHHHHHHHH-HHhCC----cEEEEecccCccCC
Q 030961          131 LADHPGLVPVTTAQGEELR-KQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~-~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      .      +.........|. +..|+    +.|+++|+.+|+|.
T Consensus       334 R------F~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL  370 (603)
T KOG0458|consen  334 R------FEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENL  370 (603)
T ss_pred             H------HHHHHHHHHHHHHHhcCcccCCcceEecccccCCcc
Confidence            2      124555566666 55555    47999999999984

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=99.14  E-value=1.7e-10  Score=90.72  Aligned_cols=118  Identities=21%  Similarity=0.275  Sum_probs=86.7

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCC---CC------ceeeceeEE---------EE---ECCeEEEEEEEe
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDY---IP------TVFDNFSAN---------VV---AEGTTVNLGLWD   62 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~---~~------~~~~~~~~~---------~~---~~~~~~~~~i~D   62 (168)
                      .+....++.++|+-++|||+|...|....-..-.   ..      +...+....         +.   ..++.+-+++.|
T Consensus       124 ~p~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilD  203 (971)
T KOG0468|consen  124 NPERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILD  203 (971)
T ss_pred             CcceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeec
Confidence            4567889999999999999999999876432211   11      111110111         11   156678899999


Q ss_pred             CCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccc
Q 030961           63 TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR  125 (168)
Q Consensus        63 ~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~  125 (168)
                      |||+-.|.......++.+|++++++|+...-++..  +.+++..-+  .+.|+++++||.|..
T Consensus       204 TPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlnt--Er~ikhaiq--~~~~i~vviNKiDRL  262 (971)
T KOG0468|consen  204 TPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNT--ERIIKHAIQ--NRLPIVVVINKVDRL  262 (971)
T ss_pred             CCCcccchHHHHHHhhhcceEEEEEEcccCceeeH--HHHHHHHHh--ccCcEEEEEehhHHH
Confidence            99999999988899999999999999999888876  444444333  479999999999964

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.12  E-value=4e-10  Score=89.42  Aligned_cols=118  Identities=14%  Similarity=0.135  Sum_probs=72.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC-CCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccc-------c---cc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNK-FPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR-------L---RP   74 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~-------~---~~   74 (168)
                      ..++|+++|.+|+||||++|.+++.. +........+... ......++  ..+.++||||-.....       +   ..
T Consensus       117 fslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~idG--~~L~VIDTPGL~dt~~dq~~neeILk~Ik  194 (763)
T TIGR00993       117 FSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQG--VKIRVIDTPGLKSSASDQSKNEKILSSVK  194 (763)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEECC--ceEEEEECCCCCccccchHHHHHHHHHHH
Confidence            46799999999999999999999875 3332211112222 22223343  5678899999654311       1   11


Q ss_pred             cccc--CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCC-C--CcEEEEeeCCccccc
Q 030961           75 LSYR--GADVFVLAFSLVSRASYENVLKKWIPELQHYSP-G--VPVVLVGTKLDLRED  127 (168)
Q Consensus        75 ~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~-~--~p~ivv~nK~D~~~~  127 (168)
                      .++.  .+|++++|..++........ ..+++.+.+.+. +  .-+|||.|+.|..++
T Consensus       195 ~~Lsk~gpDVVLlV~RLd~~~~D~eD-~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lpp  251 (763)
T TIGR00993       195 KFIKKNPPDIVLYVDRLDMQTRDSND-LPLLRTITDVLGPSIWFNAIVTLTHAASAPP  251 (763)
T ss_pred             HHHhcCCCCEEEEEEeCCCccccHHH-HHHHHHHHHHhCHHhHcCEEEEEeCCccCCC
Confidence            1222  57999999887533222121 456666666652 2  467899999998864

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.08  E-value=1.2e-09  Score=81.46  Aligned_cols=95  Identities=15%  Similarity=0.098  Sum_probs=55.7

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcC
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADH  134 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~  134 (168)
                      ++.+.++||+|.-.-...   ....+|.++++.+...++.+... .   .....    ..-++|.||+|+.......   
T Consensus       148 g~d~viieT~Gv~qs~~~---i~~~aD~vlvv~~p~~gd~iq~~-k---~gi~E----~aDIiVVNKaDl~~~~~a~---  213 (332)
T PRK09435        148 GYDVILVETVGVGQSETA---VAGMVDFFLLLQLPGAGDELQGI-K---KGIME----LADLIVINKADGDNKTAAR---  213 (332)
T ss_pred             CCCEEEEECCCCccchhH---HHHhCCEEEEEecCCchHHHHHH-H---hhhhh----hhheEEeehhcccchhHHH---
Confidence            577889999996532111   35679999999775555555543 1   11111    2237899999987542100   


Q ss_pred             CCCCcccHHHHHHHHHHh-----CC-cEEEEecccCccCC
Q 030961          135 PGLVPVTTAQGEELRKQI-----GA-SYYIECSSKTQQVC  168 (168)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~-----~~-~~~~~~Sa~~~~~i  168 (168)
                           ....+.+......     ++ .+++.+||+++.||
T Consensus       214 -----~~~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GI  248 (332)
T PRK09435        214 -----RAAAEYRSALRLLRPKDPGWQPPVLTCSALEGEGI  248 (332)
T ss_pred             -----HHHHHHHHHHhcccccccCCCCCEEEEECCCCCCH
Confidence                 1112222222211     12 47899999999986

>smart00053 DYNc Dynamin, GTPase

Probab=99.08  E-value=1.4e-09  Score=77.60  Aligned_cols=70  Identities=20%  Similarity=0.163  Sum_probs=44.9

Q ss_pred             EEEEEEeCCCCccc-------------ccccccccc-CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeC
Q 030961           56 VNLGLWDTAGQEDY-------------NRLRPLSYR-GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK  121 (168)
Q Consensus        56 ~~~~i~D~~g~~~~-------------~~~~~~~~~-~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK  121 (168)
                      ..+.++|+||-...             ..+...+++ ..+.+++|+|+.....-... ..+.+.+..  ...++++|+||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~-l~ia~~ld~--~~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDA-LKLAKEVDP--QGERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhH-HHHHHHHHH--cCCcEEEEEEC
Confidence            55788999996421             123444556 34589999988654332222 244444444  46899999999


Q ss_pred             Ccccccc
Q 030961          122 LDLREDK  128 (168)
Q Consensus       122 ~D~~~~~  128 (168)
                      +|.....
T Consensus       202 ~D~~~~~  208 (240)
T smart00053      202 LDLMDEG  208 (240)
T ss_pred             CCCCCcc
Confidence            9997653

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.06  E-value=1.1e-09  Score=88.35  Aligned_cols=120  Identities=20%  Similarity=0.111  Sum_probs=86.0

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--CCCC---CCCCcee-----------ece-eEEEEECCe-EEEEEEEeCCCC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--KFPT---DYIPTVF-----------DNF-SANVVAEGT-TVNLGLWDTAGQ   66 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--~~~~---~~~~~~~-----------~~~-~~~~~~~~~-~~~~~i~D~~g~   66 (168)
                      ....-+|.++|+-.+|||||.-+++..  ..+.   ....+..           .+. ......... .+.++++||||+
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~~~~iNlIDTPGH   86 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPGH   86 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcCceEEEEeCCCCc
Confidence            556788999999999999999998742  2211   1111111           111 111223334 588889999999


Q ss_pred             ccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           67 EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        67 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                      -.|.......++-+|++++|+|+...-..+.. .-|.+. .+  .++|.+++.||+|....+
T Consensus        87 VDFt~EV~rslrvlDgavvVvdaveGV~~QTE-tv~rqa-~~--~~vp~i~fiNKmDR~~a~  144 (697)
T COG0480          87 VDFTIEVERSLRVLDGAVVVVDAVEGVEPQTE-TVWRQA-DK--YGVPRILFVNKMDRLGAD  144 (697)
T ss_pred             cccHHHHHHHHHhhcceEEEEECCCCeeecHH-HHHHHH-hh--cCCCeEEEEECccccccC
Confidence            99999999999999999999999887766653 334443 33  369999999999988664

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.05  E-value=2.7e-09  Score=78.58  Aligned_cols=153  Identities=16%  Similarity=0.189  Sum_probs=89.9

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcC----CCCC---CCCCceeecee-EEEE-------ECCeEEEEEEEeCCC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSN----KFPT---DYIPTVFDNFS-ANVV-------AEGTTVNLGLWDTAG   65 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~----~~~~---~~~~~~~~~~~-~~~~-------~~~~~~~~~i~D~~g   65 (168)
                      |++.+. .+++.++|+-.||||||.+++..-    .|..   +....++.+.. ..+.       ..++..++.++|+||
T Consensus         1 m~~~p~-n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPG   79 (522)
T KOG0461|consen    1 MTSPPS-NLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPG   79 (522)
T ss_pred             CCCCCc-eeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCC
Confidence            444333 489999999999999999998742    2322   22222222221 1111       256678899999999


Q ss_pred             CccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHH
Q 030961           66 QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQG  145 (168)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  145 (168)
                      +..+-...-....-.|..++|+|+....--+.+  +++-.-+..  -...+||.||+|+.++..+..       -..+..
T Consensus        80 HasLIRtiiggaqiiDlm~lviDv~kG~QtQtA--EcLiig~~~--c~klvvvinkid~lpE~qr~s-------ki~k~~  148 (522)
T KOG0461|consen   80 HASLIRTIIGGAQIIDLMILVIDVQKGKQTQTA--ECLIIGELL--CKKLVVVINKIDVLPENQRAS-------KIEKSA  148 (522)
T ss_pred             cHHHHHHHHhhhheeeeeeEEEehhcccccccc--hhhhhhhhh--ccceEEEEeccccccchhhhh-------HHHHHH
Confidence            976543333344557899999999765433332  222211111  245678889999887743111       122223


Q ss_pred             HHHHHHh------CCcEEEEecccCc
Q 030961          146 EELRKQI------GASYYIECSSKTQ  165 (168)
Q Consensus       146 ~~~~~~~------~~~~~~~~Sa~~~  165 (168)
                      +++...+      +-.+++++||..|
T Consensus       149 kk~~KtLe~t~f~g~~PI~~vsa~~G  174 (522)
T KOG0461|consen  149 KKVRKTLESTGFDGNSPIVEVSAADG  174 (522)
T ss_pred             HHHHHHHHhcCcCCCCceeEEecCCC
Confidence            3333222      2258999999998

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=99.01  E-value=2.1e-09  Score=85.71  Aligned_cols=116  Identities=19%  Similarity=0.227  Sum_probs=78.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEE-------------EECC----eEEEEEEEeCCCCccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV-------------VAEG----TTVNLGLWDTAGQEDY   69 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~-------------~~~~----~~~~~~i~D~~g~~~~   69 (168)
                      +.+-|+++|+-..|||-|+..+-+..........++.....++             .-++    .---+.++||||++.|
T Consensus       474 RSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEsF  553 (1064)
T KOG1144|consen  474 RSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHESF  553 (1064)
T ss_pred             CCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchhh
Confidence            4667999999999999999998875443322222221111100             0011    1123567999999999


Q ss_pred             cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           70 NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      ..+.......||.+|+|+|+-.+-.-..+  +-+..|..  .+.|+||..||+|...
T Consensus       554 tnlRsrgsslC~~aIlvvdImhGlepqti--ESi~lLR~--rktpFivALNKiDRLY  606 (1064)
T KOG1144|consen  554 TNLRSRGSSLCDLAILVVDIMHGLEPQTI--ESINLLRM--RKTPFIVALNKIDRLY  606 (1064)
T ss_pred             hhhhhccccccceEEEEeehhccCCcchh--HHHHHHHh--cCCCeEEeehhhhhhc
Confidence            99999999999999999998765322221  22344444  4699999999999653

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.95  E-value=3e-09  Score=70.26  Aligned_cols=54  Identities=17%  Similarity=0.124  Sum_probs=36.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ   66 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   66 (168)
                      +++++|.+|+|||||+|++.+............+.....+.+++   .+.+|||||-
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSVSATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCCcccceEEEEeCC---CEEEEECCCc
Confidence            89999999999999999999876532211111122233344443   4678999995

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.93  E-value=3.1e-09  Score=78.71  Aligned_cols=95  Identities=16%  Similarity=0.069  Sum_probs=52.7

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcC
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADH  134 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~  134 (168)
                      ++.+.++||+|.-..   .......+|.++++-.....+.+..    +...+    .+.|.++++||+|+.......   
T Consensus       126 g~D~viidT~G~~~~---e~~i~~~aD~i~vv~~~~~~~el~~----~~~~l----~~~~~ivv~NK~Dl~~~~~~~---  191 (300)
T TIGR00750       126 GYDVIIVETVGVGQS---EVDIANMADTFVVVTIPGTGDDLQG----IKAGL----MEIADIYVVNKADGEGATNVT---  191 (300)
T ss_pred             CCCEEEEeCCCCchh---hhHHHHhhceEEEEecCCccHHHHH----HHHHH----hhhccEEEEEcccccchhHHH---
Confidence            577889999985321   1123556788887754433333332    22323    246789999999997542100   


Q ss_pred             CCCCcccHH----HHHHHHHH-hCC-cEEEEecccCccCC
Q 030961          135 PGLVPVTTA----QGEELRKQ-IGA-SYYIECSSKTQQVC  168 (168)
Q Consensus       135 ~~~~~~~~~----~~~~~~~~-~~~-~~~~~~Sa~~~~~i  168 (168)
                           ....    ....+... .++ .+++++||++++|+
T Consensus       192 -----~~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi  226 (300)
T TIGR00750       192 -----IARLMLALALEEIRRREDGWRPPVLTTSAVEGRGI  226 (300)
T ss_pred             -----HHHHHHHHHHhhccccccCCCCCEEEEEccCCCCH
Confidence                 0000    01111111 122 25899999999985

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.

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=98.89  E-value=1.3e-07  Score=70.60  Aligned_cols=83  Identities=18%  Similarity=0.095  Sum_probs=53.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEE-E------------EC----CeEEEEEEEeCCCCc---
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV-V------------AE----GTTVNLGLWDTAGQE---   67 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~-~------------~~----~~~~~~~i~D~~g~~---   67 (168)
                      .+++.+||.||+|||||+|.+..........|-.+.+-...+ .            +.    -....+.++|.+|--   
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            368999999999999999999987633233332222211111 0            11    134678899999842   


Q ss_pred             -ccccccccc---ccCCcEEEEEEeCC
Q 030961           68 -DYNRLRPLS---YRGADVFVLAFSLV   90 (168)
Q Consensus        68 -~~~~~~~~~---~~~~~~~i~v~d~~   90 (168)
                       .=..+-..+   ++++|+++.|+++.
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEec
Confidence             223344444   57899999999853

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=98.88  E-value=1.5e-08  Score=71.18  Aligned_cols=116  Identities=17%  Similarity=0.193  Sum_probs=69.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCC-CCCce------eece---eEEEEECCeEEEEEEEeCCCCccc---ccc-
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTD-YIPTV------FDNF---SANVVAEGTTVNLGLWDTAGQEDY---NRL-   72 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~-~~~~~------~~~~---~~~~~~~~~~~~~~i~D~~g~~~~---~~~-   72 (168)
                      -.++|++||.+|.|||||+|.++..+.... ..+..      +.+.   .+.+.-++...++.++||||--..   ... 
T Consensus        45 F~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~ncW  124 (336)
T KOG1547|consen   45 FDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNCW  124 (336)
T ss_pred             CceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccchh
Confidence            478999999999999999999987654321 11111      1122   222334677888999999993211   111 


Q ss_pred             ----------------------ccccccCCcEEEEEEeC-CChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccc
Q 030961           73 ----------------------RPLSYRGADVFVLAFSL-VSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR  125 (168)
Q Consensus        73 ----------------------~~~~~~~~~~~i~v~d~-~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~  125 (168)
                                            .+..+.+..+-+++|=+ -.+.++..+.-++++.|.+.   +.++-|+-|+|-.
T Consensus       125 ePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGhsLrplDieflkrLt~v---vNvvPVIakaDtl  197 (336)
T KOG1547|consen  125 EPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGHSLRPLDIEFLKRLTEV---VNVVPVIAKADTL  197 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCCccCcccHHHHHHHhhh---heeeeeEeecccc
Confidence                                  12223333444444322 24566666656666666664   5677777898864

>PRK00098 GTPase RsgA; Reviewed

Probab=98.87  E-value=1e-08  Score=75.88  Aligned_cols=79  Identities=22%  Similarity=0.243  Sum_probs=58.3

Q ss_pred             cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           76 SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      .+.++|.+++|+|+.++.......+.|+..+..  .++|+++|+||+|+.....           ..++.....+..+. 
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~--~~ip~iIVlNK~DL~~~~~-----------~~~~~~~~~~~~g~-  142 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA--NGIKPIIVLNKIDLLDDLE-----------EARELLALYRAIGY-  142 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH--CCCCEEEEEEhHHcCCCHH-----------HHHHHHHHHHHCCC-
Confidence            358999999999998887655544677776654  5799999999999963321           12334444556676 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++++|+
T Consensus       143 ~v~~vSA~~g~gi  155 (298)
T PRK00098        143 DVLELSAKEGEGL  155 (298)
T ss_pred             eEEEEeCCCCccH
Confidence            8999999999885

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.87  E-value=9e-09  Score=72.38  Aligned_cols=118  Identities=15%  Similarity=0.247  Sum_probs=76.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEE---EECCeEEEEEEEeCCCCccccc---cccccccCCc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV---VAEGTTVNLGLWDTAGQEDYNR---LRPLSYRGAD   81 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~i~D~~g~~~~~~---~~~~~~~~~~   81 (168)
                      +.+|+++|...+||||+....++..-+.   .|...+...++   .+.+.-+.+++||.|||-.+..   -.+..++++.
T Consensus        27 kp~ilLMG~rRsGKsSI~KVVFhkMsPn---eTlflESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~g  103 (347)
T KOG3887|consen   27 KPRILLMGLRRSGKSSIQKVVFHKMSPN---ETLFLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVG  103 (347)
T ss_pred             CceEEEEeecccCcchhhheeeeccCCC---ceeEeeccCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccC
Confidence            4679999999999999886655433211   23332222222   2334557899999999865533   2233578999


Q ss_pred             EEEEEEeCCChh--HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccch
Q 030961           82 VFVLAFSLVSRA--SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH  129 (168)
Q Consensus        82 ~~i~v~d~~~~~--s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~  129 (168)
                      ++++|+|+.+.-  .+..+ ........+.++++.+-|++.|.|...+..
T Consensus       104 ALifvIDaQddy~eala~L-~~~v~raykvNp~in~EVfiHKvDGLsdd~  152 (347)
T KOG3887|consen  104 ALIFVIDAQDDYMEALARL-HMTVERAYKVNPNINFEVFIHKVDGLSDDF  152 (347)
T ss_pred             eEEEEEechHHHHHHHHHH-HHHhhheeecCCCceEEEEEEeccCCchhh
Confidence            999999976532  23333 333444444457888889999999876644

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.86  E-value=7.8e-09  Score=75.42  Aligned_cols=152  Identities=14%  Similarity=0.105  Sum_probs=90.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC---CCCCCCCCcee-------------------eceeEEEEE------CCeEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN---KFPTDYIPTVF-------------------DNFSANVVA------EGTTVN   57 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~---~~~~~~~~~~~-------------------~~~~~~~~~------~~~~~~   57 (168)
                      ...++|.++|+-..|||||+..+.+-   ++.+.....++                   ..|...-..      ......
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            57899999999999999999998763   11111000000                   011000001      123456


Q ss_pred             EEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCC
Q 030961           58 LGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGL  137 (168)
Q Consensus        58 ~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~  137 (168)
                      +.+.|.||++.+-..+-+-..-.|++++|+.++.+.---.. .+.+-.+.=. .-..++|+=||+|+.......      
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT-~EHl~AleIi-gik~iiIvQNKIDlV~~E~Al------  159 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQT-REHLMALEII-GIKNIIIVQNKIDLVSRERAL------  159 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCch-HHHHHHHhhh-ccceEEEEecccceecHHHHH------
Confidence            78899999987644333434456899999998864322222 1122222211 235789999999997654311      


Q ss_pred             CcccHHHHHHHHHH---hCCcEEEEecccCccCC
Q 030961          138 VPVTTAQGEELRKQ---IGASYYIECSSKTQQVC  168 (168)
Q Consensus       138 ~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i  168 (168)
                        ..+++.++|.+.   -+. +++++||..+.||
T Consensus       160 --E~y~qIk~FvkGt~Ae~a-PIIPiSA~~~~NI  190 (415)
T COG5257         160 --ENYEQIKEFVKGTVAENA-PIIPISAQHKANI  190 (415)
T ss_pred             --HHHHHHHHHhcccccCCC-ceeeehhhhccCH
Confidence              345555555542   233 8999999998875

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.84  E-value=3.6e-09  Score=75.66  Aligned_cols=117  Identities=16%  Similarity=0.051  Sum_probs=67.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCC-ceeeceeEEEEECCeEEEEEEEeCCCC----------ccccccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIP-TVFDNFSANVVAEGTTVNLGLWDTAGQ----------EDYNRLR   73 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~D~~g~----------~~~~~~~   73 (168)
                      ++..+.++++|.+++|||+|+|.+++.+....... ..+..  ..+..-...-.+.+.|.||-          ..+..+.
T Consensus       133 k~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~T--q~in~f~v~~~~~~vDlPG~~~a~y~~~~~~d~~~~t  210 (320)
T KOG2486|consen  133 KDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKT--QAINHFHVGKSWYEVDLPGYGRAGYGFELPADWDKFT  210 (320)
T ss_pred             CCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccc--eeeeeeeccceEEEEecCCcccccCCccCcchHhHhH
Confidence            45678999999999999999999998765333222 11111  11111222334556999991          1223344


Q ss_pred             cccccCCcE---EEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           74 PLSYRGADV---FVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        74 ~~~~~~~~~---~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      ..++.+.+-   +++.+|++.+-  ....-..++.+.+  .++|+.+|.||||....
T Consensus       211 ~~Y~leR~nLv~~FLLvd~sv~i--~~~D~~~i~~~ge--~~VP~t~vfTK~DK~k~  263 (320)
T KOG2486|consen  211 KSYLLERENLVRVFLLVDASVPI--QPTDNPEIAWLGE--NNVPMTSVFTKCDKQKK  263 (320)
T ss_pred             HHHHHhhhhhheeeeeeeccCCC--CCCChHHHHHHhh--cCCCeEEeeehhhhhhh
Confidence            555544432   23334544332  1111223334444  46999999999998765

>cd01900 YchF YchF subfamily

Probab=98.84  E-value=1.9e-08  Score=73.17  Aligned_cols=80  Identities=18%  Similarity=0.091  Sum_probs=50.6

Q ss_pred             EEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCe---------------EEEEEEEeCCCCcccc----
Q 030961           11 CVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGT---------------TVNLGLWDTAGQEDYN----   70 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~---------------~~~~~i~D~~g~~~~~----   70 (168)
                      +.++|.|++|||||+|++.+........|..+.... ..+.+.+.               ..++.++|+||-..-.    
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            578999999999999999987754333333222221 12233322               2358899999954211    


Q ss_pred             ccccc---cccCCcEEEEEEeCC
Q 030961           71 RLRPL---SYRGADVFVLAFSLV   90 (168)
Q Consensus        71 ~~~~~---~~~~~~~~i~v~d~~   90 (168)
                      .+...   .++.+|++++|+|+.
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence            12222   356899999999863

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.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=98.84  E-value=3.1e-08  Score=75.00  Aligned_cols=117  Identities=15%  Similarity=0.106  Sum_probs=82.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc--CCCC--------------CCCCCce----eece-eEEEEECCeEEEEEEEeCCC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS--NKFP--------------TDYIPTV----FDNF-SANVVAEGTTVNLGLWDTAG   65 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~--~~~~--------------~~~~~~~----~~~~-~~~~~~~~~~~~~~i~D~~g   65 (168)
                      +.-.++++-+|.+|||||.-+|+-  +-..              .+..-.+    +... +.-++.+...+.+.+.||||
T Consensus        11 rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDTPG   90 (528)
T COG4108          11 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDTPG   90 (528)
T ss_pred             hhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCCeEEeccCCCC
Confidence            345689999999999999998753  2110              0000001    1112 22345566778888999999


Q ss_pred             CccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           66 QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      ++.|..-....|..+|.++.|+|+...-.-+.  ..+++.+..  .++|++=++||.|....
T Consensus        91 HeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT--~KLfeVcrl--R~iPI~TFiNKlDR~~r  148 (528)
T COG4108          91 HEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQT--LKLFEVCRL--RDIPIFTFINKLDREGR  148 (528)
T ss_pred             ccccchhHHHHHHhhheeeEEEecccCccHHH--HHHHHHHhh--cCCceEEEeeccccccC
Confidence            99998888888889999999999988765554  345554444  47999999999997644

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.81  E-value=1.8e-07  Score=69.51  Aligned_cols=119  Identities=18%  Similarity=0.223  Sum_probs=74.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCC----------CCCceeece-eEEEEECCeEEEEEEEeCCCCccc---cc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTD----------YIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDY---NR   71 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~----------~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~---~~   71 (168)
                      ...+.|+++|+.|.|||||+|.|++......          ..+++.... ...+.-++.++.+.++||||--.+   ..
T Consensus        21 Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~  100 (373)
T COG5019          21 GIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSK  100 (373)
T ss_pred             CCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccc
Confidence            3578999999999999999999998744322          123333333 223444788899999999993211   00


Q ss_pred             cc----------------------cc-ccc--CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           72 LR----------------------PL-SYR--GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        72 ~~----------------------~~-~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      .|                      .. .+.  .+|++++.+..+ +..+..+.-+.++.+..   .+-+|-|+.|+|...
T Consensus       101 ~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Pt-gh~l~~~DIe~Mk~ls~---~vNlIPVI~KaD~lT  176 (373)
T COG5019         101 CWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPT-GHGLKPLDIEAMKRLSK---RVNLIPVIAKADTLT  176 (373)
T ss_pred             cHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCC-CCCCCHHHHHHHHHHhc---ccCeeeeeeccccCC
Confidence            11                      00 111  367777777643 33344443455566655   467888889999865


Q ss_pred             cc
Q 030961          127 DK  128 (168)
Q Consensus       127 ~~  128 (168)
                      ..
T Consensus       177 ~~  178 (373)
T COG5019         177 DD  178 (373)
T ss_pred             HH
Confidence            53

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.81  E-value=3.7e-07  Score=64.80  Aligned_cols=88  Identities=18%  Similarity=0.149  Sum_probs=53.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCcccccc-------cccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRL-------RPLSYR   78 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~-------~~~~~~   78 (168)
                      .--+++++|-|.+|||||+..+....-  ....-.++.. ...-.+...+..+++.|.||.-+-.+.       .-...+
T Consensus        61 GdaRValIGfPSVGKStlLs~iT~T~S--eaA~yeFTTLtcIpGvi~y~ga~IQllDLPGIieGAsqgkGRGRQviavAr  138 (364)
T KOG1486|consen   61 GDARVALIGFPSVGKSTLLSKITSTHS--EAASYEFTTLTCIPGVIHYNGANIQLLDLPGIIEGASQGKGRGRQVIAVAR  138 (364)
T ss_pred             CCeEEEEecCCCccHHHHHHHhhcchh--hhhceeeeEEEeecceEEecCceEEEecCcccccccccCCCCCceEEEEee
Confidence            456899999999999999998865431  1111111111 111122333445666999995432221       222457


Q ss_pred             CCcEEEEEEeCCChhHHH
Q 030961           79 GADVFVLAFSLVSRASYE   96 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~   96 (168)
                      .+|.+++|.|++..+.-.
T Consensus       139 taDlilMvLDatk~e~qr  156 (364)
T KOG1486|consen  139 TADLILMVLDATKSEDQR  156 (364)
T ss_pred             cccEEEEEecCCcchhHH
Confidence            899999999998765443

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.80  E-value=1.9e-08  Score=68.55  Aligned_cols=54  Identities=22%  Similarity=0.276  Sum_probs=36.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCC-CCCCCCceeeceeEEEEECCeEEEEEEEeCCC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG   65 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   65 (168)
                      .++++++|.||+|||||+|++.+... .....+..+.. ...+.++   ..+.++||||
T Consensus       117 ~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~pg~T~~-~~~~~~~---~~~~l~DtPG  171 (172)
T cd04178         117 SITVGVVGFPNVGKSSLINSLKRSRACNVGATPGVTKS-MQEVHLD---KKVKLLDSPG  171 (172)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCcccceecCCCCeEcc-eEEEEeC---CCEEEEECcC
Confidence            47999999999999999999998654 22222322222 1222232   2467799998

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

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=98.80  E-value=1.8e-08  Score=75.04  Aligned_cols=74  Identities=15%  Similarity=0.248  Sum_probs=53.3

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhH-------HHHHHHhHHHHHchhC-----CCCcEEEEeeCC
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRAS-------YENVLKKWIPELQHYS-----PGVPVVLVGTKL  122 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s-------~~~~~~~~~~~l~~~~-----~~~p~ivv~nK~  122 (168)
                      ...+.++|++||..-+.-|.+.+.++++++||+++++=+-       -..+ .+-+..+....     .+.+++++.||.
T Consensus       194 ~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM-~eS~~LF~sI~n~~~F~~tsiiLFLNK~  272 (354)
T KOG0082|consen  194 GLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRM-HESLKLFESICNNKWFANTSIILFLNKK  272 (354)
T ss_pred             CCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHH-HHHHHHHHHHhcCcccccCcEEEEeecH
Confidence            3567789999998888889999999999999999864211       1111 22333333332     579999999999


Q ss_pred             cccccch
Q 030961          123 DLREDKH  129 (168)
Q Consensus       123 D~~~~~~  129 (168)
                      |+-.+..
T Consensus       273 DLFeEKi  279 (354)
T KOG0082|consen  273 DLFEEKI  279 (354)
T ss_pred             HHHHHHh
Confidence            9987643

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.79  E-value=1.4e-07  Score=70.40  Aligned_cols=118  Identities=18%  Similarity=0.185  Sum_probs=71.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCC-------CCC--ceeece-eEEEEECCeEEEEEEEeCCCCccc-------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTD-------YIP--TVFDNF-SANVVAEGTTVNLGLWDTAGQEDY-------   69 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~-------~~~--~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~-------   69 (168)
                      ..+.++++|..|.|||||+|.|+...+...       ..+  +..... ...+.-++..+.+.+.||||-...       
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            358999999999999999999887654322       111  112211 123334678899999999993221       


Q ss_pred             ------------------ccccccccc--CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           70 ------------------NRLRPLSYR--GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        70 ------------------~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                                        ..+.+....  .+|++++.+..+ +..+..+.-..++.+..   .+.+|-|+-|+|.....
T Consensus       100 ~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~-ghgL~p~Di~~Mk~l~~---~vNiIPVI~KaD~lT~~  174 (366)
T KOG2655|consen  100 RPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPT-GHGLKPLDIEFMKKLSK---KVNLIPVIAKADTLTKD  174 (366)
T ss_pred             hhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCC-CCCCcHhhHHHHHHHhc---cccccceeeccccCCHH
Confidence                              111222222  466777776643 23344443445555554   57788888999986553

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.79  E-value=2.7e-08  Score=73.21  Aligned_cols=77  Identities=21%  Similarity=0.193  Sum_probs=58.0

Q ss_pred             cccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC
Q 030961           76 SYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA  154 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (168)
                      .+.++|.+++|+|+.++. ++..+ +.|+..+..  .++|+++|+||+|+.....            ...........+.
T Consensus        75 i~anvD~vllV~d~~~p~~s~~~l-dr~L~~~~~--~~ip~iIVlNK~DL~~~~~------------~~~~~~~~~~~g~  139 (287)
T cd01854          75 IAANVDQLVIVVSLNEPFFNPRLL-DRYLVAAEA--AGIEPVIVLTKADLLDDEE------------EELELVEALALGY  139 (287)
T ss_pred             EEEeCCEEEEEEEcCCCCCCHHHH-HHHHHHHHH--cCCCEEEEEEHHHCCChHH------------HHHHHHHHHhCCC
Confidence            478999999999999887 77776 678777665  4689999999999965421            1222333344665


Q ss_pred             cEEEEecccCccCC
Q 030961          155 SYYIECSSKTQQVC  168 (168)
Q Consensus       155 ~~~~~~Sa~~~~~i  168 (168)
                       +++++||+++.|+
T Consensus       140 -~v~~vSA~~g~gi  152 (287)
T cd01854         140 -PVLAVSAKTGEGL  152 (287)
T ss_pred             -eEEEEECCCCccH
Confidence             8999999999885

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.78  E-value=2.3e-08  Score=66.02  Aligned_cols=78  Identities=14%  Similarity=0.104  Sum_probs=52.6

Q ss_pred             ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC
Q 030961           75 LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA  154 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (168)
                      ..+..+|++++|+|+.++.+...  ..+...+.....+.|+++++||+|+.+...            ..+..+..+..+.
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~~--~~l~~~l~~~~~~k~~iivlNK~DL~~~~~------------~~~~~~~~~~~~~   72 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFRP--PDLERYVKEVDPRKKNILLLNKADLLTEEQ------------RKAWAEYFKKEGI   72 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccCC--HHHHHHHHhccCCCcEEEEEechhcCCHHH------------HHHHHHHHHhcCC
Confidence            45678999999999988776442  233333333224689999999999954321            2234444555565


Q ss_pred             cEEEEecccCccC
Q 030961          155 SYYIECSSKTQQV  167 (168)
Q Consensus       155 ~~~~~~Sa~~~~~  167 (168)
                       .++++||.++.+
T Consensus        73 -~ii~iSa~~~~~   84 (141)
T cd01857          73 -VVVFFSALKENA   84 (141)
T ss_pred             -eEEEEEecCCCc
Confidence             789999998864

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.

>cd01858 NGP_1 NGP-1

Probab=98.77  E-value=2.9e-08  Score=66.70  Aligned_cols=27  Identities=26%  Similarity=0.330  Sum_probs=23.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF   33 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~   33 (168)
                      ..++++++|.||+|||||+|++.+...
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~  127 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKV  127 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCc
Confidence            357899999999999999999998653

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.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=98.77  E-value=3.8e-08  Score=67.18  Aligned_cols=25  Identities=16%  Similarity=0.155  Sum_probs=21.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      +.++|-+.|++|||||+|+-+++..
T Consensus        12 ~~~~i~v~Gp~GSGKTaLie~~~~~   36 (202)
T COG0378          12 PMLRIGVGGPPGSGKTALIEKTLRA   36 (202)
T ss_pred             ceEEEEecCCCCcCHHHHHHHHHHH
Confidence            3589999999999999999987753

>PRK12289 GTPase RsgA; Reviewed

Probab=98.77  E-value=4.5e-08  Score=73.75  Aligned_cols=81  Identities=21%  Similarity=0.196  Sum_probs=57.1

Q ss_pred             cccccccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH
Q 030961           72 LRPLSYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK  150 (168)
Q Consensus        72 ~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (168)
                      +....+.++|.+++|+|+.++. +...+ ..|+.....  .++|+++|+||+|+.....            .+.......
T Consensus        82 L~R~~~aNvD~vLlV~d~~~p~~~~~~L-dR~L~~a~~--~~ip~ILVlNK~DLv~~~~------------~~~~~~~~~  146 (352)
T PRK12289         82 LDRPPVANADQILLVFALAEPPLDPWQL-SRFLVKAES--TGLEIVLCLNKADLVSPTE------------QQQWQDRLQ  146 (352)
T ss_pred             eechhhhcCCEEEEEEECCCCCCCHHHH-HHHHHHHHH--CCCCEEEEEEchhcCChHH------------HHHHHHHHH
Confidence            4445678999999999998775 44444 566665533  5799999999999964321            122223334


Q ss_pred             HhCCcEEEEecccCccCC
Q 030961          151 QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       151 ~~~~~~~~~~Sa~~~~~i  168 (168)
                      ..+. .++++||++++|+
T Consensus       147 ~~g~-~v~~iSA~tg~GI  163 (352)
T PRK12289        147 QWGY-QPLFISVETGIGL  163 (352)
T ss_pred             hcCC-eEEEEEcCCCCCH
Confidence            5676 7899999999985

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.77  E-value=1.8e-07  Score=74.26  Aligned_cols=145  Identities=16%  Similarity=0.193  Sum_probs=87.2

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece----------------------------------------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF----------------------------------------   45 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~----------------------------------------   45 (168)
                      +...||++.|..++||||++|.++..+.-.......+--|                                        
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            4567999999999999999999988654221111100000                                        


Q ss_pred             ----eEEEEECCeEE-----EEEEEeCCCCc---cccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCC
Q 030961           46 ----SANVVAEGTTV-----NLGLWDTAGQE---DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGV  113 (168)
Q Consensus        46 ----~~~~~~~~~~~-----~~~i~D~~g~~---~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~  113 (168)
                          ..++..+...+     .+.+.|.||.+   ....-...++.++|++|+|.++.+..+..+  .+++....+.  +.
T Consensus       187 ~~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se--k~Ff~~vs~~--Kp  262 (749)
T KOG0448|consen  187 GAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE--KQFFHKVSEE--KP  262 (749)
T ss_pred             CcceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH--HHHHHHhhcc--CC
Confidence                00111111111     24568888854   333444556789999999999888777766  4555555553  45


Q ss_pred             cEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC-------cEEEEecccC
Q 030961          114 PVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA-------SYYIECSSKT  164 (168)
Q Consensus       114 p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~Sa~~  164 (168)
                      .+.|+-||.|......          .+.+...+-..+++.       ..+|+|||+.
T Consensus       263 niFIlnnkwDasase~----------ec~e~V~~Qi~eL~v~~~~eA~DrvfFVS~~e  310 (749)
T KOG0448|consen  263 NIFILNNKWDASASEP----------ECKEDVLKQIHELSVVTEKEAADRVFFVSAKE  310 (749)
T ss_pred             cEEEEechhhhhcccH----------HHHHHHHHHHHhcCcccHhhhcCeeEEEeccc
Confidence            5678889999987643          444444433222222       1467888764

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.76  E-value=2.7e-08  Score=75.31  Aligned_cols=143  Identities=16%  Similarity=0.098  Sum_probs=89.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCC---CCCCCCceeeceeEEE-EECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKF---PTDYIPTVFDNFSANV-VAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~---~~~~~~~~~~~~~~~~-~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      -|+..|+-..|||||+..+.+..-   ++.-...++.  ...+ ..+-....+.++|.||++++-.-.-..+...|.+++
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~Ti--Dlg~~y~~~~d~~~~fIDvpgh~~~i~~miag~~~~d~alL   79 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITI--DLGFYYRKLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALL   79 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceE--eeeeEeccCCCCceEEeeCCCcHHHHHHHHhhhcCCceEEE
Confidence            477889999999999998876532   1221111111  1111 122233488899999999987766667778999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH--hCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ--IGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~Sa~  163 (168)
                      |++.++.-.-+.  .+.+..+... .....++|+||+|..++..           ..+..++....  +...++|.+|++
T Consensus        80 vV~~deGl~~qt--gEhL~iLdll-gi~~giivltk~D~~d~~r-----------~e~~i~~Il~~l~l~~~~i~~~s~~  145 (447)
T COG3276          80 VVAADEGLMAQT--GEHLLILDLL-GIKNGIIVLTKADRVDEAR-----------IEQKIKQILADLSLANAKIFKTSAK  145 (447)
T ss_pred             EEeCccCcchhh--HHHHHHHHhc-CCCceEEEEeccccccHHH-----------HHHHHHHHHhhcccccccccccccc
Confidence            999865443333  2333333332 2456699999999986532           11112222211  444578999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       146 ~g~GI  150 (447)
T COG3276         146 TGRGI  150 (447)
T ss_pred             cCCCH
Confidence            99986

>cd01859 MJ1464 MJ1464

Probab=98.75  E-value=9.1e-09  Score=68.99  Aligned_cols=82  Identities=16%  Similarity=0.124  Sum_probs=52.6

Q ss_pred             cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH
Q 030961           70 NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR  149 (168)
Q Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (168)
                      +.++.+.++++|++++|+|++++.....  ..+...+..  .+.|+++|+||+|+.....            ..+...+.
T Consensus         3 ~~~~~~i~~~aD~vl~V~D~~~~~~~~~--~~l~~~~~~--~~~p~iiv~NK~Dl~~~~~------------~~~~~~~~   66 (156)
T cd01859           3 KRLVRRIIKESDVVLEVLDARDPELTRS--RKLERYVLE--LGKKLLIVLNKADLVPKEV------------LEKWKSIK   66 (156)
T ss_pred             HHHHHHHHhhCCEEEEEeeCCCCcccCC--HHHHHHHHh--CCCcEEEEEEhHHhCCHHH------------HHHHHHHH
Confidence            3455666778999999999987654332  223333322  3689999999999854321            11111333


Q ss_pred             HHhCCcEEEEecccCccCC
Q 030961          150 KQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       150 ~~~~~~~~~~~Sa~~~~~i  168 (168)
                      ...+. +++++||+++.|+
T Consensus        67 ~~~~~-~~~~iSa~~~~gi   84 (156)
T cd01859          67 ESEGI-PVVYVSAKERLGT   84 (156)
T ss_pred             HhCCC-cEEEEEccccccH
Confidence            34454 7899999999884

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.

>cd01856 YlqF YlqF

Probab=98.74  E-value=3.8e-08  Score=67.06  Aligned_cols=56  Identities=21%  Similarity=0.117  Sum_probs=37.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQ   66 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~   66 (168)
                      ..++++++|.+|+|||||+|++.+..+... ....+++. ...+.++   ..+.+|||||-
T Consensus       114 ~~~~~~~~G~~~vGKstlin~l~~~~~~~~-~~~~~~T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         114 RGIRAMVVGIPNVGKSTLINRLRGKKVAKV-GNKPGVTKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCceee-cCCCCEEeeeEEEEec---CCEEEEECCCC
Confidence            457899999999999999999998765321 12112222 2223333   34678999994

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.

>cd01855 YqeH YqeH

Probab=98.72  E-value=1.8e-08  Score=69.79  Aligned_cols=83  Identities=20%  Similarity=0.197  Sum_probs=54.2

Q ss_pred             ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHH
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL  148 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  148 (168)
                      +..++..+++.+|++++|+|+.++..-      |...+.....+.|+++|+||+|+....           ...+....+
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~~------~~~~l~~~~~~~~~ilV~NK~Dl~~~~-----------~~~~~~~~~   86 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPGS------LIPRLRLFGGNNPVILVGNKIDLLPKD-----------KNLVRIKNW   86 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCCc------cchhHHHhcCCCcEEEEEEchhcCCCC-----------CCHHHHHHH
Confidence            466778888999999999999875421      112222222468999999999996432           223333333


Q ss_pred             H-----HHhCC--cEEEEecccCccCC
Q 030961          149 R-----KQIGA--SYYIECSSKTQQVC  168 (168)
Q Consensus       149 ~-----~~~~~--~~~~~~Sa~~~~~i  168 (168)
                      .     ...+.  ..++++||++|.|+
T Consensus        87 ~~~~~~~~~~~~~~~i~~vSA~~~~gi  113 (190)
T cd01855          87 LRAKAAAGLGLKPKDVILISAKKGWGV  113 (190)
T ss_pred             HHHHHHhhcCCCcccEEEEECCCCCCH
Confidence            3     22222  35899999999985

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.

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.71  E-value=6.5e-08  Score=71.98  Aligned_cols=120  Identities=19%  Similarity=0.155  Sum_probs=77.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcee--eceeEEEE------ECCe-----------------------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVF--DNFSANVV------AEGT-----------------------   54 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~--~~~~~~~~------~~~~-----------------------   54 (168)
                      ..+.-|+++|.-..||||+++.|+...|.........  +.|..-+.      ++|.                       
T Consensus        56 d~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnR  135 (532)
T KOG1954|consen   56 DAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNR  135 (532)
T ss_pred             ccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHH
Confidence            3467799999999999999999999988754433221  12221111      1111                       


Q ss_pred             ----------EEEEEEEeCCCCccc-----------cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCC
Q 030961           55 ----------TVNLGLWDTAGQEDY-----------NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGV  113 (168)
Q Consensus        55 ----------~~~~~i~D~~g~~~~-----------~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~  113 (168)
                                --.+.++||||.-+-           .....=+...+|.|+++||+..-+--++. .+.+..++-  .+-
T Consensus       136 f~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf-~~vi~aLkG--~Ed  212 (532)
T KOG1954|consen  136 FMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEF-KRVIDALKG--HED  212 (532)
T ss_pred             HHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHH-HHHHHHhhC--Ccc
Confidence                      123678999994321           22222345689999999998765544444 555666655  345


Q ss_pred             cEEEEeeCCcccccc
Q 030961          114 PVVLVGTKLDLREDK  128 (168)
Q Consensus       114 p~ivv~nK~D~~~~~  128 (168)
                      .+-||.||+|..+..
T Consensus       213 kiRVVLNKADqVdtq  227 (532)
T KOG1954|consen  213 KIRVVLNKADQVDTQ  227 (532)
T ss_pred             eeEEEeccccccCHH
Confidence            667788999986653

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=98.71  E-value=7.9e-08  Score=70.17  Aligned_cols=25  Identities=20%  Similarity=0.124  Sum_probs=21.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...-+-++|.+|||||||++++++.
T Consensus       103 ~~~~v~l~G~pGsGKTTLl~~l~~~  127 (290)
T PRK10463        103 KQLVLNLVSSPGSGKTTLLTETLMR  127 (290)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4677899999999999999988764

>cd01859 MJ1464 MJ1464

Probab=98.71  E-value=6.4e-08  Score=64.89  Aligned_cols=55  Identities=20%  Similarity=0.169  Sum_probs=37.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEE-EECCeEEEEEEEeCCC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV-VAEGTTVNLGLWDTAG   65 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~D~~g   65 (168)
                      ...+++++|.+++||||+++++.+... ..+.++.+.+....+ ..++   .+.+|||||
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~-~~~~~~~~~t~~~~~~~~~~---~~~~~DtpG  155 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHS-ASTSPSPGYTKGEQLVKITS---KIYLLDTPG  155 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCc-cccCCCCCeeeeeEEEEcCC---CEEEEECcC
Confidence            457899999999999999999997543 233344443332222 2222   577899998

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.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=98.69  E-value=1.4e-07  Score=68.30  Aligned_cols=145  Identities=21%  Similarity=0.217  Sum_probs=87.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC---C-------CCCCC-CC-----ceeecee-EEEEECCeEEEEEEEeCCCCcc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN---K-------FPTDY-IP-----TVFDNFS-ANVVAEGTTVNLGLWDTAGQED   68 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~---~-------~~~~~-~~-----~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~   68 (168)
                      .+-++|..+|+-..|||||...+..-   +       |.... .|     -++.... ..+...+.++-.  .|+||+..
T Consensus        10 kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyah--VDcPGHaD   87 (394)
T COG0050          10 KPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAH--VDCPGHAD   87 (394)
T ss_pred             CCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCCceEEe--ccCCChHH
Confidence            46789999999999999998876531   1       11110 11     1111111 123334445444  99999988


Q ss_pred             ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHH
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE  147 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  147 (168)
                      |-..+-.-..+.|+.|+|+++.+...-+.-  +.+ +|.+. -.+| ++++.||+|+.++++..       .+-..+.++
T Consensus        88 YvKNMItgAaqmDgAILVVsA~dGpmPqTr--EHi-Llarq-vGvp~ivvflnK~Dmvdd~ell-------elVemEvre  156 (394)
T COG0050          88 YVKNMITGAAQMDGAILVVAATDGPMPQTR--EHI-LLARQ-VGVPYIVVFLNKVDMVDDEELL-------ELVEMEVRE  156 (394)
T ss_pred             HHHHHhhhHHhcCccEEEEEcCCCCCCcch--hhh-hhhhh-cCCcEEEEEEecccccCcHHHH-------HHHHHHHHH
Confidence            865444455678999999999886543331  111 22222 2454 57889999998765411       134566777


Q ss_pred             HHHHhCC----cEEEEeccc
Q 030961          148 LRKQIGA----SYYIECSSK  163 (168)
Q Consensus       148 ~~~~~~~----~~~~~~Sa~  163 (168)
                      +...|+.    .+++.-||.
T Consensus       157 LLs~y~f~gd~~Pii~gSal  176 (394)
T COG0050         157 LLSEYGFPGDDTPIIRGSAL  176 (394)
T ss_pred             HHHHcCCCCCCcceeechhh
Confidence            8888876    245555554

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.69  E-value=7.6e-08  Score=70.51  Aligned_cols=56  Identities=27%  Similarity=0.293  Sum_probs=37.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeeceeEEEEECCeEEEEEEEeCCCC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ   66 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   66 (168)
                      ..++++++|.||+|||||+|++.+.+.. ....+..+. ....+.++.   .+.++||||.
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~~~g~T~-~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVTK-GQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeec-ceEEEEeCC---CEEEEECCCc
Confidence            4688999999999999999999986532 222222111 122233322   3578999997

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=98.63  E-value=1.6e-07  Score=69.13  Aligned_cols=58  Identities=26%  Similarity=0.295  Sum_probs=37.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeeceeEEEEECCeEEEEEEEeCCCCc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQE   67 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   67 (168)
                      ...++++++|.||+|||||+|++.+.... ....+..+... ..+.++.   .+.++||||--
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~g~T~~~-~~~~~~~---~~~l~DtPGi~  177 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKAQ-QWIKLGK---GLELLDTPGIL  177 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccccCCCCCeEEEE-EEEEeCC---cEEEEECCCcC
Confidence            35689999999999999999999987642 22222222221 1223332   36689999973

>cd01858 NGP_1 NGP-1

Probab=98.60  E-value=9.9e-08  Score=64.08  Aligned_cols=79  Identities=16%  Similarity=0.042  Sum_probs=49.5

Q ss_pred             cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           76 SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      .+.++|++++|+|+.++..-..  ..+...+.....+.|+++|+||+|+.+...           .......+...+.. 
T Consensus         5 ~l~~aD~il~VvD~~~p~~~~~--~~i~~~l~~~~~~~p~ilVlNKiDl~~~~~-----------~~~~~~~~~~~~~~-   70 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGTRC--KHVEEYLKKEKPHKHLIFVLNKCDLVPTWV-----------TARWVKILSKEYPT-   70 (157)
T ss_pred             hhhhCCEEEEEEECCCCccccC--HHHHHHHHhccCCCCEEEEEEchhcCCHHH-----------HHHHHHHHhcCCcE-
Confidence            4678999999999988743221  334444443334689999999999964321           12223333333332 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      ..+.+||+.+.|+
T Consensus        71 ~~~~iSa~~~~~~   83 (157)
T cd01858          71 IAFHASINNPFGK   83 (157)
T ss_pred             EEEEeeccccccH
Confidence            3577999998874

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.59  E-value=2.6e-07  Score=69.61  Aligned_cols=79  Identities=18%  Similarity=0.258  Sum_probs=57.2

Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcE
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASY  156 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (168)
                      ..++|.+++|++.....++..+ +.|+.....  .++|++||+||+|+.....         .....+........+. +
T Consensus       118 aANvD~vlIV~s~~p~~s~~~L-dr~L~~a~~--~~i~~VIVlNK~DL~~~~~---------~~~~~~~~~~y~~~g~-~  184 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNII-DRYLVACET--LGIEPLIVLNKIDLLDDEG---------RAFVNEQLDIYRNIGY-R  184 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHH-HHHHHHHHh--cCCCEEEEEECccCCCcHH---------HHHHHHHHHHHHhCCC-e
Confidence            4579999999999888888887 788775543  5689999999999965421         0011222333345676 8


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      ++++||++++|+
T Consensus       185 v~~vSA~tg~Gi  196 (347)
T PRK12288        185 VLMVSSHTGEGL  196 (347)
T ss_pred             EEEEeCCCCcCH
Confidence            999999999885

>cd01855 YqeH YqeH

Probab=98.58  E-value=1.3e-07  Score=65.50  Aligned_cols=25  Identities=20%  Similarity=0.210  Sum_probs=22.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      ...++++|.+|+|||||+|.|.+..
T Consensus       127 ~~~~~~~G~~nvGKStliN~l~~~~  151 (190)
T cd01855         127 GGDVYVVGATNVGKSTLINALLKKD  151 (190)
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHhc
Confidence            3579999999999999999999754

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.56  E-value=8.8e-08  Score=72.65  Aligned_cols=86  Identities=26%  Similarity=0.348  Sum_probs=59.5

Q ss_pred             CccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHH
Q 030961           66 QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQG  145 (168)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  145 (168)
                      .+.|..+.......++++++|+|+.+..      ..|...+.+...+.|+++|+||+|+.+..           ...++.
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~------~s~~~~l~~~~~~~piilV~NK~DLl~k~-----------~~~~~~  112 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE------GSLIPELKRFVGGNPVLLVGNKIDLLPKS-----------VNLSKI  112 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC------CCccHHHHHHhCCCCEEEEEEchhhCCCC-----------CCHHHH
Confidence            4566777777788999999999987654      22334444443468999999999997532           223333


Q ss_pred             H----HHHHHhCCc--EEEEecccCccCC
Q 030961          146 E----ELRKQIGAS--YYIECSSKTQQVC  168 (168)
Q Consensus       146 ~----~~~~~~~~~--~~~~~Sa~~~~~i  168 (168)
                      .    ++++..++.  .++++||++|.|+
T Consensus       113 ~~~l~~~~k~~g~~~~~i~~vSAk~g~gv  141 (360)
T TIGR03597       113 KEWMKKRAKELGLKPVDIILVSAKKGNGI  141 (360)
T ss_pred             HHHHHHHHHHcCCCcCcEEEecCCCCCCH
Confidence            3    345666652  4899999999985

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.

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.54  E-value=5.7e-07  Score=67.25  Aligned_cols=156  Identities=16%  Similarity=0.172  Sum_probs=93.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCC-----------------------CCCceeece-eEEEEE----------C
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTD-----------------------YIPTVFDNF-SANVVA----------E   52 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~-----------------------~~~~~~~~~-~~~~~~----------~   52 (168)
                      ..++++++|...+|||||+-.|..+.+..-                       +...++.+. .+-+.+          +
T Consensus       166 ievRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~e  245 (591)
T KOG1143|consen  166 IEVRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIVE  245 (591)
T ss_pred             eEEEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHHh
Confidence            578999999999999999987765433210                       011111111 111111          1


Q ss_pred             CeEEEEEEEeCCCCccccccccccccC--CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchh
Q 030961           53 GTTVNLGLWDTAGQEDYNRLRPLSYRG--ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHY  130 (168)
Q Consensus        53 ~~~~~~~i~D~~g~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~  130 (168)
                      .-.--+.++|..|+..|....-..+..  .|..++|++++.......  ++.+..+..  -++|+.++.+|+|+......
T Consensus       246 ~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tT--rEHLgl~~A--L~iPfFvlvtK~Dl~~~~~~  321 (591)
T KOG1143|consen  246 KSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTT--REHLGLIAA--LNIPFFVLVTKMDLVDRQGL  321 (591)
T ss_pred             hhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcccc--HHHHHHHHH--hCCCeEEEEEeeccccchhH
Confidence            112346779999999887655555443  678888888877655443  445555555  36999999999999876220


Q ss_pred             ---hh------cC------CCCCcccHHHHHHHHH---HhCCcEEEEecccCccC
Q 030961          131 ---LA------DH------PGLVPVTTAQGEELRK---QIGASYYIECSSKTQQV  167 (168)
Q Consensus       131 ---~~------~~------~~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~  167 (168)
                         ..      ..      +... -..+++...++   .-+++|+|.+|+.+|+|
T Consensus       322 ~~tv~~l~nll~~~Gc~kvp~~V-t~~ddAv~Aaq~~~s~nivPif~vSsVsGeg  375 (591)
T KOG1143|consen  322 KKTVKDLSNLLAKAGCTKVPKRV-TTKDDAVKAAQELCSGNIVPIFAVSSVSGEG  375 (591)
T ss_pred             HHHHHHHHHHHhhcCccccceEe-echHHHHHHHHHhccCCceeEEEEeecCccc
Confidence               00      00      1111 12233333332   34557899999999987

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.53  E-value=2.7e-07  Score=68.98  Aligned_cols=55  Identities=25%  Similarity=0.231  Sum_probs=37.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeece-eEEEEECCeEEEEEEEeCCCC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQ   66 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~   66 (168)
                      ...+++++|-||+||||+||+|.+.... ....|  +.+- ...+.++..   +.++||||-
T Consensus       131 ~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~P--G~Tk~~q~i~~~~~---i~LlDtPGi  187 (322)
T COG1161         131 RKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRP--GTTKGIQWIKLDDG---IYLLDTPGI  187 (322)
T ss_pred             cceEEEEEcCCCCcHHHHHHHHhcccceeeCCCC--ceecceEEEEcCCC---eEEecCCCc
Confidence            4578999999999999999999987642 22223  3222 223333332   677999995

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.51  E-value=5.2e-07  Score=60.45  Aligned_cols=55  Identities=20%  Similarity=0.262  Sum_probs=35.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC-CCCCCCceeeceeEEEEECCeEEEEEEEeCCC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG   65 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   65 (168)
                      ...+++++|.+|+|||||+|.+.+... .....+..+... .....+   ..+.++||||
T Consensus        99 ~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~-~~~~~~---~~~~liDtPG  154 (155)
T cd01849          99 KSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQ-QEVKLD---NKIKLLDTPG  154 (155)
T ss_pred             cCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccce-EEEEec---CCEEEEECCC
Confidence            467899999999999999999998653 222222222221 112222   2467799998

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.

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=98.50  E-value=6.8e-08  Score=70.70  Aligned_cols=118  Identities=19%  Similarity=0.192  Sum_probs=71.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCC--CCCceeeceeEEEEE-CCeEEEEEEEeCCCCccccc--cc------cc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTD--YIPTVFDNFSANVVA-EGTTVNLGLWDTAGQEDYNR--LR------PL   75 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~--~~------~~   75 (168)
                      ...-|.+||-.|+|||||++.|.+......  ...|...+ .+.... .+.  .+.+.||-|.-.-.+  +.      -.
T Consensus       177 s~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT-~h~a~Lpsg~--~vlltDTvGFisdLP~~LvaAF~ATLe  253 (410)
T KOG0410|consen  177 SSPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPT-LHSAHLPSGN--FVLLTDTVGFISDLPIQLVAAFQATLE  253 (410)
T ss_pred             CCceEEEEeecCccHHHHHHHHHhhhcCccchhheeccch-hhhccCCCCc--EEEEeechhhhhhCcHHHHHHHHHHHH
Confidence            456799999999999999999986543221  11222111 111122 233  344589998533221  11      12


Q ss_pred             cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCc----EEEEeeCCcccccc
Q 030961           76 SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVP----VVLVGTKLDLREDK  128 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p----~ivv~nK~D~~~~~  128 (168)
                      ....+|.++-|.|+++|.--... ...+..+.... ++.|    ++=|-||+|..+..
T Consensus       254 eVaeadlllHvvDiShP~ae~q~-e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~  310 (410)
T KOG0410|consen  254 EVAEADLLLHVVDISHPNAEEQR-ETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDE  310 (410)
T ss_pred             HHhhcceEEEEeecCCccHHHHH-HHHHHHHHhcCCCcHHHHhHHHhhcccccccccc
Confidence            23579999999999998765543 55556666654 3344    45677888876653

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.46  E-value=1.1e-06  Score=65.92  Aligned_cols=158  Identities=16%  Similarity=0.143  Sum_probs=92.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCc----------------eeece-------eEEEE------------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPT----------------VFDNF-------SANVV------------   50 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~----------------~~~~~-------~~~~~------------   50 (168)
                      ...+.+...|+-+.|||||+-.|..++...-.-.+                ....+       .+.+.            
T Consensus       115 ~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~~~  194 (527)
T COG5258         115 PEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEKAA  194 (527)
T ss_pred             CceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHHhH
Confidence            45677899999999999999988876553210000                00000       00011            


Q ss_pred             -ECCeEEEEEEEeCCCCccccccccc--cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           51 -AEGTTVNLGLWDTAGQEDYNRLRPL--SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        51 -~~~~~~~~~i~D~~g~~~~~~~~~~--~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                       ++...--+.+.||.|++.|....-.  .-.+.|..++++.+++.-+...  ++.+.....  -+.|++++.||+|+.++
T Consensus       195 vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~t--kEHLgi~~a--~~lPviVvvTK~D~~~d  270 (527)
T COG5258         195 VVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMT--KEHLGIALA--MELPVIVVVTKIDMVPD  270 (527)
T ss_pred             hhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhh--hHhhhhhhh--hcCCEEEEEEecccCcH
Confidence             1112234678999999987543222  2346899999999888776554  344444433  37999999999999876


Q ss_pred             chhhhcC---------CCCCcc-----cHH--HHHHHHHHhCCcEEEEecccCccC
Q 030961          128 KHYLADH---------PGLVPV-----TTA--QGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus       128 ~~~~~~~---------~~~~~~-----~~~--~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      .....--         -+.-+.     ...  .+.......+.+|+|.+|+.+|+|
T Consensus       271 dr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~G  326 (527)
T COG5258         271 DRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEG  326 (527)
T ss_pred             HHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCcc
Confidence            4311100         000000     000  112222233357999999999987

>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=98.45  E-value=2.3e-07  Score=62.13  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -.++++|++|||||||+|.|...
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            35899999999999999999986

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.44  E-value=3.9e-07  Score=68.67  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=20.2

Q ss_pred             EEEECCCCCCHHHHHHHHhcCC
Q 030961           11 CVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~~   32 (168)
                      ++|+|.+|+|||||+|+|++..
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~  229 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEA  229 (347)
T ss_pred             EEEECCCCCCHHHHHHHhcccc
Confidence            7899999999999999999754

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.43  E-value=2.5e-06  Score=67.00  Aligned_cols=113  Identities=17%  Similarity=0.123  Sum_probs=74.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +++-+++||+||.|||||+..++..- .   ..|+.........+.+.+.++.+.++|..  +..| -...+-+|.++++
T Consensus        68 PPfIvavvGPpGtGKsTLirSlVrr~-t---k~ti~~i~GPiTvvsgK~RRiTflEcp~D--l~~m-iDvaKIaDLVlLl  140 (1077)
T COG5192          68 PPFIVAVVGPPGTGKSTLIRSLVRRF-T---KQTIDEIRGPITVVSGKTRRITFLECPSD--LHQM-IDVAKIADLVLLL  140 (1077)
T ss_pred             CCeEEEeecCCCCChhHHHHHHHHHH-H---HhhhhccCCceEEeecceeEEEEEeChHH--HHHH-HhHHHhhheeEEE
Confidence            45667799999999999999887631 1   11222112223356788889999999932  2222 2334568999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccch
Q 030961           87 FSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH  129 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~  129 (168)
                      +|.+-.-..+..  +++..+..+. =..++-|.|..|+.....
T Consensus       141 IdgnfGfEMETm--EFLnil~~HG-mPrvlgV~ThlDlfk~~s  180 (1077)
T COG5192         141 IDGNFGFEMETM--EFLNILISHG-MPRVLGVVTHLDLFKNPS  180 (1077)
T ss_pred             eccccCceehHH--HHHHHHhhcC-CCceEEEEeecccccChH
Confidence            998877665553  5556565542 233567889999987754

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.38  E-value=3.8e-06  Score=59.71  Aligned_cols=88  Identities=16%  Similarity=0.058  Sum_probs=51.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--CCCCCCC---CceeeceeEEEEECCeEEEEEEEeCCCCccccc------cc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--KFPTDYI---PTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR------LR   73 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--~~~~~~~---~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~------~~   73 (168)
                      ..+..-|.++|++++|||+|+|++++.  .|.....   .|.+..........+....+.++||+|......      +.
T Consensus         4 ~~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~   83 (224)
T cd01851           4 GFPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDAR   83 (224)
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhH
Confidence            345677999999999999999999998  5542211   111111111111112456788999999754322      11


Q ss_pred             cccccC--CcEEEEEEeCCCh
Q 030961           74 PLSYRG--ADVFVLAFSLVSR   92 (168)
Q Consensus        74 ~~~~~~--~~~~i~v~d~~~~   92 (168)
                      -..+..  ++++++..+....
T Consensus        84 ~~~l~~llss~~i~n~~~~~~  104 (224)
T cd01851          84 LFALATLLSSVLIYNSWETIL  104 (224)
T ss_pred             HHHHHHHHhCEEEEeccCccc
Confidence            122223  7777777665543

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

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.38  E-value=1.1e-06  Score=70.66  Aligned_cols=117  Identities=14%  Similarity=0.131  Sum_probs=79.9

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCC--CCCCCCCce------------eecee-EEEEECCeEEEEEEEeCCCCc
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNK--FPTDYIPTV------------FDNFS-ANVVAEGTTVNLGLWDTAGQE   67 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~--~~~~~~~~~------------~~~~~-~~~~~~~~~~~~~i~D~~g~~   67 (168)
                      +..+.+-+++++-+-..|||||+..|+-..  ........+            +.+.+ ..+..-...+.+.++|+||+-
T Consensus         4 ~~~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspghv   83 (887)
T KOG0467|consen    4 KGSEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGHV   83 (887)
T ss_pred             CCCCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCcc
Confidence            445667789999999999999999987532  211111111            11111 122334467888999999999


Q ss_pred             cccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCc
Q 030961           68 DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD  123 (168)
Q Consensus        68 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D  123 (168)
                      .|.+......+-+|++++++|+..+--.+..  ..+.+...  .+..+++|+||+|
T Consensus        84 df~sevssas~l~d~alvlvdvvegv~~qt~--~vlrq~~~--~~~~~~lvinkid  135 (887)
T KOG0467|consen   84 DFSSEVSSASRLSDGALVLVDVVEGVCSQTY--AVLRQAWI--EGLKPILVINKID  135 (887)
T ss_pred             chhhhhhhhhhhcCCcEEEEeeccccchhHH--HHHHHHHH--ccCceEEEEehhh
Confidence            9999999999999999999999765443332  12222222  4577889999999

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=98.38  E-value=8.2e-08  Score=68.54  Aligned_cols=92  Identities=13%  Similarity=0.053  Sum_probs=49.9

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcC
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADH  134 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~  134 (168)
                      ++.+.+++|.|--.-.   -....-+|.+++|....-.+..+.++.-+++        +.=++|.||+|....+.     
T Consensus       121 G~D~IiiETVGvGQsE---~~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimE--------iaDi~vVNKaD~~gA~~-----  184 (266)
T PF03308_consen  121 GFDVIIIETVGVGQSE---VDIADMADTVVLVLVPGLGDEIQAIKAGIME--------IADIFVVNKADRPGADR-----  184 (266)
T ss_dssp             T-SEEEEEEESSSTHH---HHHHTTSSEEEEEEESSTCCCCCTB-TTHHH--------H-SEEEEE--SHHHHHH-----
T ss_pred             CCCEEEEeCCCCCccH---HHHHHhcCeEEEEecCCCccHHHHHhhhhhh--------hccEEEEeCCChHHHHH-----
Confidence            4567778887632110   1123468999999987666655443211111        34477789999765542     


Q ss_pred             CCCCcccHHHHHHHHHHh-----CC-cEEEEecccCccCC
Q 030961          135 PGLVPVTTAQGEELRKQI-----GA-SYYIECSSKTQQVC  168 (168)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~-----~~-~~~~~~Sa~~~~~i  168 (168)
                            ...+.+......     +| ++++.+||.+++||
T Consensus       185 ------~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi  218 (266)
T PF03308_consen  185 ------TVRDLRSMLHLLREREDGWRPPVLKTSALEGEGI  218 (266)
T ss_dssp             ------HHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSH
T ss_pred             ------HHHHHHHHHhhccccccCCCCCEEEEEeCCCCCH
Confidence                  233333333321     11 47899999999985

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.37  E-value=1.4e-06  Score=58.35  Aligned_cols=72  Identities=17%  Similarity=0.088  Sum_probs=45.2

Q ss_pred             cEEEEEEeCCChhHHHHHHHhHH-HHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEE
Q 030961           81 DVFVLAFSLVSRASYENVLKKWI-PELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIE  159 (168)
Q Consensus        81 ~~~i~v~d~~~~~s~~~~~~~~~-~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      |++++|+|+.++.+....  .+. ..+..  .+.|+++|+||+|+.....          + .+....+....+ ..++.
T Consensus         1 Dvvl~VvD~~~p~~~~~~--~i~~~~~~~--~~~p~IiVlNK~Dl~~~~~----------~-~~~~~~~~~~~~-~~ii~   64 (155)
T cd01849           1 DVILEVLDARDPLGTRSP--DIERVLIKE--KGKKLILVLNKADLVPKEV----------L-RKWLAYLRHSYP-TIPFK   64 (155)
T ss_pred             CEEEEEEeccCCccccCH--HHHHHHHhc--CCCCEEEEEechhcCCHHH----------H-HHHHHHHHhhCC-ceEEE
Confidence            689999999887665432  222 22222  4689999999999954321          1 111122323333 36899


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|.|+
T Consensus        65 vSa~~~~gi   73 (155)
T cd01849          65 ISATNGQGI   73 (155)
T ss_pred             EeccCCcCh
Confidence            999999885

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.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.37  E-value=2e-06  Score=74.22  Aligned_cols=113  Identities=26%  Similarity=0.189  Sum_probs=64.2

Q ss_pred             EEEECCCCCCHHHHHHHHhcCCCCCCC--CC--c--eeeceeEEEEECCeEEEEEEEeCCCCccc--------ccccccc
Q 030961           11 CVTVGDGAVGKTCMLICYTSNKFPTDY--IP--T--VFDNFSANVVAEGTTVNLGLWDTAGQEDY--------NRLRPLS   76 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~~~~~~~--~~--~--~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--------~~~~~~~   76 (168)
                      .+|+|++|+||||++++- +..+.-..  ..  +  .+.+....--.   .-+-.++||+|....        ...|..+
T Consensus       114 YlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~c~wwf---~~~avliDtaG~y~~~~~~~~~~~~~W~~f  189 (1169)
T TIGR03348       114 YLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRNCDWWF---TDEAVLIDTAGRYTTQDSDPEEDAAAWLGF  189 (1169)
T ss_pred             EEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcccceEe---cCCEEEEcCCCccccCCCcccccHHHHHHH
Confidence            699999999999999876 33332110  00  0  00000000001   113457999994321        2234444


Q ss_pred             c---------cCCcEEEEEEeCCCh-----hHHHH---HHHhHHHHHchhC-CCCcEEEEeeCCccccc
Q 030961           77 Y---------RGADVFVLAFSLVSR-----ASYEN---VLKKWIPELQHYS-PGVPVVLVGTKLDLRED  127 (168)
Q Consensus        77 ~---------~~~~~~i~v~d~~~~-----~s~~~---~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~  127 (168)
                      +         +..+++|+++|+.+-     +....   .....++++.+.. -..||.|+.||+|+...
T Consensus       190 L~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~G  258 (1169)
T TIGR03348       190 LGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLAG  258 (1169)
T ss_pred             HHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhcC
Confidence            3         248999999997542     22211   1234444444443 58999999999998855

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.35  E-value=1.1e-06  Score=66.43  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=20.2

Q ss_pred             EEEECCCCCCHHHHHHHHhcCC
Q 030961           11 CVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~~   32 (168)
                      ++|+|.+|+|||||+|.|++..
T Consensus       175 ~v~iG~SgVGKSSLIN~L~~~~  196 (352)
T PRK12289        175 TVVAGPSGVGKSSLINRLIPDV  196 (352)
T ss_pred             EEEEeCCCCCHHHHHHHHcCcc
Confidence            7999999999999999999653

>TIGR00092 GTP-binding protein YchF

Probab=98.34  E-value=2.8e-06  Score=64.18  Aligned_cols=82  Identities=17%  Similarity=0.067  Sum_probs=52.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCC-CCCCCCceeece-eEEEEECC---------------eEEEEEEEeCCCCcccc-
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNF-SANVVAEG---------------TTVNLGLWDTAGQEDYN-   70 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~-~~~~~~~~~~~~-~~~~~~~~---------------~~~~~~i~D~~g~~~~~-   70 (168)
                      +++.++|.|++|||||++.+.+... .....|-.+... ...+.+.+               ....+.+.|.||.-.-. 
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            7899999999999999999998765 332222222221 11222222               12457789999954321 


Q ss_pred             ---cccc---ccccCCcEEEEEEeCC
Q 030961           71 ---RLRP---LSYRGADVFVLAFSLV   90 (168)
Q Consensus        71 ---~~~~---~~~~~~~~~i~v~d~~   90 (168)
                         .+..   ..++.+|+++.|++..
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCC
Confidence               1222   2467899999999874

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.

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.29  E-value=3.8e-06  Score=62.07  Aligned_cols=83  Identities=22%  Similarity=0.159  Sum_probs=55.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEE---------------CCeEEEEEEEeCCCCcc--
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVA---------------EGTTVNLGLWDTAGQED--   68 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~---------------~~~~~~~~i~D~~g~~~--   68 (168)
                      .-+++.+||.|++|||||+|.+.+........|-.+.+- ..++.+               ......++++|+.|.-.  
T Consensus        19 ~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkGA   98 (391)
T KOG1491|consen   19 NNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKGA   98 (391)
T ss_pred             CcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccCc
Confidence            467999999999999999999998876555444333332 112222               12357789999998432  


Q ss_pred             --ccccccc---cccCCcEEEEEEeC
Q 030961           69 --YNRLRPL---SYRGADVFVLAFSL   89 (168)
Q Consensus        69 --~~~~~~~---~~~~~~~~i~v~d~   89 (168)
                        -..+-..   .++.+|+++-|+++
T Consensus        99 s~G~GLGN~FLs~iR~vDaifhVVr~  124 (391)
T KOG1491|consen   99 SAGEGLGNKFLSHIRHVDAIFHVVRA  124 (391)
T ss_pred             ccCcCchHHHHHhhhhccceeEEEEe
Confidence              2223333   35679999998875

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=98.29  E-value=3.4e-06  Score=62.40  Aligned_cols=147  Identities=17%  Similarity=0.128  Sum_probs=88.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC----------CCCCCCC-C---ceeece-eEE--EEECCeEEEEEEEeCCCCc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN----------KFPTDYI-P---TVFDNF-SAN--VVAEGTTVNLGLWDTAGQE   67 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~----------~~~~~~~-~---~~~~~~-~~~--~~~~~~~~~~~i~D~~g~~   67 (168)
                      +.+-++|.-+|+-..|||||...+..-          +|.+... |   .-+... ...  +.....+|-.  .|+||+.
T Consensus        51 ~KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH--~DCPGHA  128 (449)
T KOG0460|consen   51 DKPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAH--TDCPGHA  128 (449)
T ss_pred             CCCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeecccccccc--CCCCchH
Confidence            345678999999999999998876531          1111100 0   001111 111  2222333333  8999998


Q ss_pred             cccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH
Q 030961           68 DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE  147 (168)
Q Consensus        68 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  147 (168)
                      .|-..+-.-..+-|+.|+|+.++|...-+.  ++.+.+.++. .=..+++.+||.|+.++.+-       ..+-+-+.++
T Consensus       129 DYIKNMItGaaqMDGaILVVaatDG~MPQT--rEHlLLArQV-GV~~ivvfiNKvD~V~d~e~-------leLVEmE~RE  198 (449)
T KOG0460|consen  129 DYIKNMITGAAQMDGAILVVAATDGPMPQT--REHLLLARQV-GVKHIVVFINKVDLVDDPEM-------LELVEMEIRE  198 (449)
T ss_pred             HHHHHhhcCccccCceEEEEEcCCCCCcch--HHHHHHHHHc-CCceEEEEEecccccCCHHH-------HHHHHHHHHH
Confidence            886655555667899999999999765443  2222222222 22457889999999865431       1144556777


Q ss_pred             HHHHhCC----cEEEEeccc
Q 030961          148 LRKQIGA----SYYIECSSK  163 (168)
Q Consensus       148 ~~~~~~~----~~~~~~Sa~  163 (168)
                      +..++|.    .|++.=||.
T Consensus       199 lLse~gf~Gd~~PvI~GSAL  218 (449)
T KOG0460|consen  199 LLSEFGFDGDNTPVIRGSAL  218 (449)
T ss_pred             HHHHcCCCCCCCCeeecchh
Confidence            7777766    456665554

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=98.26  E-value=5.6e-06  Score=60.29  Aligned_cols=95  Identities=11%  Similarity=0.076  Sum_probs=54.1

Q ss_pred             CCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhh
Q 030961           52 EGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYL  131 (168)
Q Consensus        52 ~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~  131 (168)
                      +.-++.+.|++|.|--.-.   -....-+|.++++.-..-.+.++-++.-++        ++-=++|+||.|......  
T Consensus       140 dAaG~DvIIVETVGvGQse---v~I~~~aDt~~~v~~pg~GD~~Q~iK~Gim--------EiaDi~vINKaD~~~A~~--  206 (323)
T COG1703         140 DAAGYDVIIVETVGVGQSE---VDIANMADTFLVVMIPGAGDDLQGIKAGIM--------EIADIIVINKADRKGAEK--  206 (323)
T ss_pred             HhcCCCEEEEEecCCCcch---hHHhhhcceEEEEecCCCCcHHHHHHhhhh--------hhhheeeEeccChhhHHH--
Confidence            3346677888888742210   112345888888877666666655422111        234478889999655432  


Q ss_pred             hcCCCCCcccHHHHHHHH-------HHhCC-cEEEEecccCccCC
Q 030961          132 ADHPGLVPVTTAQGEELR-------KQIGA-SYYIECSSKTQQVC  168 (168)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~-------~~~~~-~~~~~~Sa~~~~~i  168 (168)
                               ...+.....       +..+| .+.+.+||.+|+||
T Consensus       207 ---------a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi  242 (323)
T COG1703         207 ---------AARELRSALDLLREVWRENGWRPPVVTTSALEGEGI  242 (323)
T ss_pred             ---------HHHHHHHHHHhhcccccccCCCCceeEeeeccCCCH
Confidence                     122211111       12233 46899999999986

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.26  E-value=1.6e-06  Score=63.96  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=21.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      -.++++|++|+|||||+|.+.+..
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~  185 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDL  185 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchh
Confidence            468999999999999999998754

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.

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.24  E-value=4.5e-06  Score=56.17  Aligned_cols=65  Identities=11%  Similarity=0.008  Sum_probs=36.9

Q ss_pred             EEEEEEEeCCCCcccccccc--------ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcc
Q 030961           55 TVNLGLWDTAGQEDYNRLRP--------LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDL  124 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~--------~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~  124 (168)
                      .....++|++|......+..        ...-.++.+++++|+.+-.........+..++..    .. +|+.||+|+
T Consensus        86 ~~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~----ad-~ivlnk~dl  158 (158)
T cd03112          86 AFDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAF----AD-RILLNKTDL  158 (158)
T ss_pred             CCCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHH----CC-EEEEecccC
Confidence            45678899999653322211        1233578999999975543322111333344433    33 456799996

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=98.23  E-value=2.4e-06  Score=64.05  Aligned_cols=91  Identities=16%  Similarity=0.108  Sum_probs=50.2

Q ss_pred             EEEEEEEeCCCCccccc-cc---ccc--ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           55 TVNLGLWDTAGQEDYNR-LR---PLS--YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~-~~---~~~--~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                      .+.+.++||+|...... +.   ...  ....+..++|.|+.........    ...+.... + .--++.||.|....-
T Consensus       222 ~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~----a~~f~~~~-~-~~giIlTKlD~~~~~  295 (336)
T PRK14974        222 GIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQ----AREFNEAV-G-IDGVILTKVDADAKG  295 (336)
T ss_pred             CCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHH----HHHHHhcC-C-CCEEEEeeecCCCCc
Confidence            35688999999753211 11   111  1257888999998765432221    22222211 2 345667999987542


Q ss_pred             hhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961          129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                                    -.+...+...+. |+.+++  +|++|
T Consensus       296 --------------G~~ls~~~~~~~-Pi~~i~--~Gq~v  318 (336)
T PRK14974        296 --------------GAALSIAYVIGK-PILFLG--VGQGY  318 (336)
T ss_pred             --------------cHHHHHHHHHCc-CEEEEe--CCCCh
Confidence                          223445555676 676666  56653

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.22  E-value=3.4e-06  Score=60.79  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=20.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      .++++|.+|+|||||+|++.+..
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~~  144 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPSV  144 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhh
Confidence            67999999999999999999753

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.19  E-value=3.4e-06  Score=64.12  Aligned_cols=24  Identities=21%  Similarity=0.253  Sum_probs=21.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      .++.++|.+|+|||||+|++.+..
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~  178 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQN  178 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhc
Confidence            479999999999999999999753

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.

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=98.18  E-value=1e-05  Score=60.81  Aligned_cols=118  Identities=22%  Similarity=0.250  Sum_probs=64.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCC------------------CCCCceeec---eeE--EE--------------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPT------------------DYIPTVFDN---FSA--NV--------------   49 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~------------------~~~~~~~~~---~~~--~~--------------   49 (168)
                      .+.++.++|+-.+|||||+-.|.++.+..                  -.....+.+   |..  .+              
T Consensus       132 ~E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~~LdWv  211 (641)
T KOG0463|consen  132 IEARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGHNLDWV  211 (641)
T ss_pred             eeEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCCCCCcccce
Confidence            47899999999999999987666543211                  011111111   000  00              


Q ss_pred             EE-CCeEEEEEEEeCCCCccccccccccc--cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           50 VA-EGTTVNLGLWDTAGQEDYNRLRPLSY--RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        50 ~~-~~~~~~~~i~D~~g~~~~~~~~~~~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      .+ .+..--+.++|..|++.|....-.-+  .-.|...+++-++...- .-. ++.+.....  -.+|+.+|.+|+|..+
T Consensus       212 kIce~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGIi-GmT-KEHLgLALa--L~VPVfvVVTKIDMCP  287 (641)
T KOG0463|consen  212 KICEDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGII-GMT-KEHLGLALA--LHVPVFVVVTKIDMCP  287 (641)
T ss_pred             eeccccceeEEEEeccchhhhhheeeeccccCCCCceEEEecccccce-ecc-HHhhhhhhh--hcCcEEEEEEeeccCc
Confidence            01 12223467899999999865332222  22455556655443221 111 222222222  2588999999999887


Q ss_pred             cc
Q 030961          127 DK  128 (168)
Q Consensus       127 ~~  128 (168)
                      .+
T Consensus       288 AN  289 (641)
T KOG0463|consen  288 AN  289 (641)
T ss_pred             HH
Confidence            75

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.16  E-value=2.7e-05  Score=58.14  Aligned_cols=137  Identities=14%  Similarity=0.106  Sum_probs=73.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC----C-----CCCCCCc-----e---eeceeEEEEE------------------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNK----F-----PTDYIPT-----V---FDNFSANVVA------------------   51 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~----~-----~~~~~~~-----~---~~~~~~~~~~------------------   51 (168)
                      ..-.++++|++|+||||++..+...-    .     .......     .   .......+..                  
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~  192 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQAA  192 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHH
Confidence            34578999999999999999875421    0     0011000     0   0000001100                  


Q ss_pred             CCeEEEEEEEeCCCCccccc--------ccc----ccccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEE
Q 030961           52 EGTTVNLGLWDTAGQEDYNR--------LRP----LSYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLV  118 (168)
Q Consensus        52 ~~~~~~~~i~D~~g~~~~~~--------~~~----~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv  118 (168)
                      ....+.+.++||||......        +..    ..-...+..++|+|++.+. .+..+     ..+.+.  -.+.-++
T Consensus       193 ~~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a-----~~f~~~--~~~~giI  265 (318)
T PRK10416        193 KARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQA-----KAFHEA--VGLTGII  265 (318)
T ss_pred             HhCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHH-----HHHHhh--CCCCEEE
Confidence            12346789999999743221        110    0112467889999988543 23222     222221  1244677


Q ss_pred             eeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961          119 GTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus       119 ~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      .||.|....-              -.+...+...+. |+..++  +|++
T Consensus       266 lTKlD~t~~~--------------G~~l~~~~~~~~-Pi~~v~--~Gq~  297 (318)
T PRK10416        266 LTKLDGTAKG--------------GVVFAIADELGI-PIKFIG--VGEG  297 (318)
T ss_pred             EECCCCCCCc--------------cHHHHHHHHHCC-CEEEEe--CCCC
Confidence            8999965432              234555566777 777776  5554

>cd01856 YlqF YlqF

Probab=98.16  E-value=4.8e-06  Score=56.72  Aligned_cols=76  Identities=17%  Similarity=0.071  Sum_probs=48.0

Q ss_pred             cccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           74 PLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        74 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      ...+.++|.+++|+|++++.....  ..+...+    .+.|.++|+||+|+.....            ..+..++....+
T Consensus        14 ~~~i~~aD~il~v~D~~~~~~~~~--~~i~~~~----~~k~~ilVlNK~Dl~~~~~------------~~~~~~~~~~~~   75 (171)
T cd01856          14 KEKLKLVDLVIEVRDARIPLSSRN--PLLEKIL----GNKPRIIVLNKADLADPKK------------TKKWLKYFESKG   75 (171)
T ss_pred             HHHHhhCCEEEEEeeccCccCcCC--hhhHhHh----cCCCEEEEEehhhcCChHH------------HHHHHHHHHhcC
Confidence            445678999999999987654332  2222222    3579999999999953321            111112222233


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      . .++.+||++++|+
T Consensus        76 ~-~vi~iSa~~~~gi   89 (171)
T cd01856          76 E-KVLFVNAKSGKGV   89 (171)
T ss_pred             C-eEEEEECCCcccH
Confidence            3 6789999999875

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.16  E-value=8.8e-06  Score=59.51  Aligned_cols=90  Identities=13%  Similarity=0.046  Sum_probs=50.9

Q ss_pred             eEEEEEEEeCCCCccccccc------------cccccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEee
Q 030961           54 TTVNLGLWDTAGQEDYNRLR------------PLSYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGT  120 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~------------~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~n  120 (168)
                      ..+.+.++||+|........            ...-..++..++|+|++... .+...     ..+.+..  .+--++.|
T Consensus       153 ~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~-----~~f~~~~--~~~g~IlT  225 (272)
T TIGR00064       153 RNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQA-----KVFNEAV--GLTGIILT  225 (272)
T ss_pred             CCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHHHHH-----HHHHhhC--CCCEEEEE
Confidence            34788899999975432111            01112488999999987543 23222     2222211  24467789


Q ss_pred             CCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961          121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus       121 K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      |.|....-              -.+.......+. |+.+++  +|++
T Consensus       226 KlDe~~~~--------------G~~l~~~~~~~~-Pi~~~~--~Gq~  255 (272)
T TIGR00064       226 KLDGTAKG--------------GIILSIAYELKL-PIKFIG--VGEK  255 (272)
T ss_pred             ccCCCCCc--------------cHHHHHHHHHCc-CEEEEe--CCCC
Confidence            99986542              234445556676 666665  4443

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.

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=98.14  E-value=0.00012  Score=56.06  Aligned_cols=141  Identities=20%  Similarity=0.252  Sum_probs=88.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC-----------------CCCC----CCCceeece----eEEEEE-CCeEEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNK-----------------FPTD----YIPTVFDNF----SANVVA-EGTTVNLGLW   61 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~-----------------~~~~----~~~~~~~~~----~~~~~~-~~~~~~~~i~   61 (168)
                      -+=+.+||+-..|||||+.||...-                 ++.+    +..|..-.|    ...+.+ ++..++++++
T Consensus        17 dIYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRLi   96 (492)
T PF09547_consen   17 DIYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRLI   96 (492)
T ss_pred             ceEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEEE
Confidence            4558899999999999999997531                 1111    111111112    223444 5778999999


Q ss_pred             eCCCC-------------ccc------cccccc----------cccCCc--EEEEEEeCC----ChhHHHHHHHhHHHHH
Q 030961           62 DTAGQ-------------EDY------NRLRPL----------SYRGAD--VFVLAFSLV----SRASYENVLKKWIPEL  106 (168)
Q Consensus        62 D~~g~-------------~~~------~~~~~~----------~~~~~~--~~i~v~d~~----~~~s~~~~~~~~~~~l  106 (168)
                      |+.|-             +++      ..-.+.          .+.+=.  ++++.-|.+    .++++..+-++...+|
T Consensus        97 DCVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~EL  176 (492)
T PF09547_consen   97 DCVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEEL  176 (492)
T ss_pred             eecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHHH
Confidence            99871             111      000000          011112  555544543    3666666667888888


Q ss_pred             chhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961          107 QHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus       107 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +..  +.|.+|+.|-.+-..+            .+.+-+.++...|+. +.+.+++.
T Consensus       177 k~i--gKPFvillNs~~P~s~------------et~~L~~eL~ekY~v-pVlpvnc~  218 (492)
T PF09547_consen  177 KEI--GKPFVILLNSTKPYSE------------ETQELAEELEEKYDV-PVLPVNCE  218 (492)
T ss_pred             HHh--CCCEEEEEeCCCCCCH------------HHHHHHHHHHHHhCC-cEEEeehH
Confidence            885  5999999998875544            456677888889998 88887764

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.13  E-value=4.1e-06  Score=62.09  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=20.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      .++++|.+|+|||||+|.+.+..
T Consensus       166 ~~~~~G~sgvGKStlin~l~~~~  188 (298)
T PRK00098        166 VTVLAGQSGVGKSTLLNALAPDL  188 (298)
T ss_pred             eEEEECCCCCCHHHHHHHHhCCc
Confidence            58999999999999999998754

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.12  E-value=3.1e-06  Score=61.91  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -.+++|++|+|||||+|+|...
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~  187 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPE  187 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCch
Confidence            4689999999999999999863

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.09  E-value=1e-05  Score=59.40  Aligned_cols=76  Identities=16%  Similarity=0.044  Sum_probs=48.8

Q ss_pred             cccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           74 PLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        74 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      ...+..+|++++|+|+.++.+...  ..+.+.+    .+.|+++|.||+|+.+...           .......+ ...+
T Consensus        16 ~~~l~~aDvVl~V~Dar~p~~~~~--~~i~~~l----~~kp~IiVlNK~DL~~~~~-----------~~~~~~~~-~~~~   77 (276)
T TIGR03596        16 KEKLKLVDVVIEVLDARIPLSSRN--PMIDEIR----GNKPRLIVLNKADLADPAV-----------TKQWLKYF-EEKG   77 (276)
T ss_pred             HHHHhhCCEEEEEEeCCCCCCCCC--hhHHHHH----CCCCEEEEEEccccCCHHH-----------HHHHHHHH-HHcC
Confidence            445778999999999987755433  2233333    2579999999999954321           11111222 2234


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      . +++.+||+++.|+
T Consensus        78 ~-~vi~iSa~~~~gi   91 (276)
T TIGR03596        78 I-KALAINAKKGKGV   91 (276)
T ss_pred             C-eEEEEECCCcccH
Confidence            4 7889999999874

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.

>PRK13796 GTPase YqeH; Provisional

Probab=98.08  E-value=7.7e-06  Score=62.27  Aligned_cols=23  Identities=22%  Similarity=0.251  Sum_probs=20.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++.++|.+|+|||||+|+|+..
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~  183 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKE  183 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhh
Confidence            47899999999999999999864

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.07  E-value=1.7e-05  Score=61.21  Aligned_cols=67  Identities=13%  Similarity=0.024  Sum_probs=39.3

Q ss_pred             EEEEEEEeCCCCccccccccc------cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           55 TVNLGLWDTAGQEDYNRLRPL------SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~------~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      .+.+.++||+|........-.      .....+-+++|+|+.-.......    ...+.+.  -.+--++.||.|....
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~----a~~F~~~--~~~~g~IlTKlD~~ar  254 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQ----AKAFKDS--VDVGSVIITKLDGHAK  254 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHHH----HHHHHhc--cCCcEEEEECccCCCC
Confidence            578899999996433211111      12357789999998755433322    2333321  1345677899998644

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=98.03  E-value=2.1e-05  Score=59.69  Aligned_cols=76  Identities=22%  Similarity=0.222  Sum_probs=50.9

Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcE
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASY  156 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (168)
                      ..++|.+++|+++..+.+...+ +.++..+..  .+++.+||+||+|+.+...          ...+....+  ..+. +
T Consensus       110 aANvD~vliV~s~~p~~~~~~l-dr~L~~a~~--~~i~piIVLNK~DL~~~~~----------~~~~~~~~~--~~g~-~  173 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRI-ERYLALAWE--SGAEPVIVLTKADLCEDAE----------EKIAEVEAL--APGV-P  173 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHH-HHHHHHHHH--cCCCEEEEEEChhcCCCHH----------HHHHHHHHh--CCCC-c
Confidence            5789999999999655555444 666666655  4678899999999965411          011222222  2344 7


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      ++.+|+++++|+
T Consensus       174 Vi~vSa~~g~gl  185 (356)
T PRK01889        174 VLAVSALDGEGL  185 (356)
T ss_pred             EEEEECCCCccH
Confidence            899999999874

>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=98.01  E-value=2.3e-05  Score=42.87  Aligned_cols=43  Identities=26%  Similarity=0.350  Sum_probs=30.5

Q ss_pred             CcEEEEEEeCCC--hhHHHHHHHhHHHHHchhCCCCcEEEEeeCCc
Q 030961           80 ADVFVLAFSLVS--RASYENVLKKWIPELQHYSPGVPVVLVGTKLD  123 (168)
Q Consensus        80 ~~~~i~v~d~~~--~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D  123 (168)
                      .++++|++|.+.  +-++++- ..+++.++...++.|+++|.||+|
T Consensus        14 ~~~ilfi~D~Se~CGysie~Q-~~L~~~ik~~F~~~P~i~V~nK~D   58 (58)
T PF06858_consen   14 ADAILFIIDPSEQCGYSIEEQ-LSLFKEIKPLFPNKPVIVVLNKID   58 (58)
T ss_dssp             -SEEEEEE-TT-TTSS-HHHH-HHHHHHHHHHTTTS-EEEEE--TT
T ss_pred             cceEEEEEcCCCCCCCCHHHH-HHHHHHHHHHcCCCCEEEEEeccC
Confidence            678999999875  4567765 678888888888999999999998

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.01  E-value=1.5e-05  Score=58.77  Aligned_cols=77  Identities=19%  Similarity=0.093  Sum_probs=49.3

Q ss_pred             ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh
Q 030961           73 RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI  152 (168)
Q Consensus        73 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (168)
                      ....+..+|++++|+|+.++.+...  ..+.+.+.    +.|+++|.||+|+.+...            .+...++.+..
T Consensus        18 l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~~----~kp~iiVlNK~DL~~~~~------------~~~~~~~~~~~   79 (287)
T PRK09563         18 IKENLKLVDVVIEVLDARIPLSSEN--PMIDKIIG----NKPRLLILNKSDLADPEV------------TKKWIEYFEEQ   79 (287)
T ss_pred             HHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHhC----CCCEEEEEEchhcCCHHH------------HHHHHHHHHHc
Confidence            3455778999999999987765433  22323332    589999999999853311            11122222333


Q ss_pred             CCcEEEEecccCccCC
Q 030961          153 GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ~~~~~~~~Sa~~~~~i  168 (168)
                      +. +++.+||+++.|+
T Consensus        80 ~~-~vi~vSa~~~~gi   94 (287)
T PRK09563         80 GI-KALAINAKKGQGV   94 (287)
T ss_pred             CC-eEEEEECCCcccH
Confidence            44 7889999999874

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=97.98  E-value=1e-05  Score=62.69  Aligned_cols=55  Identities=20%  Similarity=0.233  Sum_probs=37.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCC-CCCceeeceeEEEEECCeEEEEEEEeCCCC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTD-YIPTVFDNFSANVVAEGTTVNLGLWDTAGQ   66 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   66 (168)
                      .+.|.+||-|||||||+||.|.+.+.... ..|.-+-.| .++.+..   .+.+.|+||.
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKHF-QTi~ls~---~v~LCDCPGL  369 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKHF-QTIFLSP---SVCLCDCPGL  369 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCceeeeecCCCCccee-EEEEcCC---CceecCCCCc
Confidence            68899999999999999999999875433 222222222 2332322   3667999995

>PRK13796 GTPase YqeH; Provisional

Probab=97.98  E-value=2.8e-05  Score=59.28  Aligned_cols=74  Identities=24%  Similarity=0.372  Sum_probs=48.1

Q ss_pred             cCCc-EEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHH----HHHHHHHh
Q 030961           78 RGAD-VFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQ----GEELRKQI  152 (168)
Q Consensus        78 ~~~~-~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~  152 (168)
                      ..++ .+++|+|+.+..      ..|...+.+...+.|+++|+||+|+.+..           ...++    ...+++..
T Consensus        67 ~~~~~lIv~VVD~~D~~------~s~~~~L~~~~~~kpviLViNK~DLl~~~-----------~~~~~i~~~l~~~~k~~  129 (365)
T PRK13796         67 GDSDALVVNVVDIFDFN------GSWIPGLHRFVGNNPVLLVGNKADLLPKS-----------VKKNKVKNWLRQEAKEL  129 (365)
T ss_pred             cccCcEEEEEEECccCC------CchhHHHHHHhCCCCEEEEEEchhhCCCc-----------cCHHHHHHHHHHHHHhc
Confidence            4445 899999987743      22344444444468999999999996432           22223    33345555


Q ss_pred             CCc--EEEEecccCccCC
Q 030961          153 GAS--YYIECSSKTQQVC  168 (168)
Q Consensus       153 ~~~--~~~~~Sa~~~~~i  168 (168)
                      +..  .++.+||+++.|+
T Consensus       130 g~~~~~v~~vSAk~g~gI  147 (365)
T PRK13796        130 GLRPVDVVLISAQKGHGI  147 (365)
T ss_pred             CCCcCcEEEEECCCCCCH
Confidence            642  5789999999885

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=97.95  E-value=2.1e-06  Score=65.17  Aligned_cols=118  Identities=18%  Similarity=0.079  Sum_probs=85.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC--CCC---CCC-Ccee----------ece-eEEEEECCeEEEEEEEeCCCCccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNK--FPT---DYI-PTVF----------DNF-SANVVAEGTTVNLGLWDTAGQEDY   69 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~--~~~---~~~-~~~~----------~~~-~~~~~~~~~~~~~~i~D~~g~~~~   69 (168)
                      +.-+|.++..-.+||||...|++.-.  ...   ..+ .|.+          ... +..+..+.++.++.++||||+-.|
T Consensus        36 kirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpghvdf  115 (753)
T KOG0464|consen   36 KIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGHVDF  115 (753)
T ss_pred             hhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCCcceE
Confidence            45578999999999999999976421  100   001 1111          111 223556888899999999999999


Q ss_pred             cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           70 NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                      +-..+..++--|+++.|||++..-..+.+ -.|.+.=+   -++|-..++||+|....+
T Consensus       116 ~leverclrvldgavav~dasagve~qtl-tvwrqadk---~~ip~~~finkmdk~~an  170 (753)
T KOG0464|consen  116 RLEVERCLRVLDGAVAVFDASAGVEAQTL-TVWRQADK---FKIPAHCFINKMDKLAAN  170 (753)
T ss_pred             EEEHHHHHHHhcCeEEEEeccCCccccee-eeehhccc---cCCchhhhhhhhhhhhhh
Confidence            99889999999999999999887766665 45654333   268999999999988664

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.95  E-value=4.9e-05  Score=57.82  Aligned_cols=22  Identities=23%  Similarity=0.155  Sum_probs=19.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.++++|++|+||||++.+|..
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~  159 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAA  159 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999864

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=97.93  E-value=5.8e-05  Score=54.63  Aligned_cols=116  Identities=18%  Similarity=0.229  Sum_probs=69.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCc----eeece-eEEEEECCeEEEEEEEeCCCC-------cccccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPT----VFDNF-SANVVAEGTTVNLGLWDTAGQ-------EDYNRLRP   74 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~----~~~~~-~~~~~~~~~~~~~~i~D~~g~-------~~~~~~~~   74 (168)
                      -.++|+.||..|.|||||+..|++-.|.....+.    ..... ...+.-.+...++.+.||.|-       +.|..+..
T Consensus        41 F~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGfGDQinK~~Syk~iVd  120 (406)
T KOG3859|consen   41 FCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGFGDQINKEDSYKPIVD  120 (406)
T ss_pred             ceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecccccccCcccccchHHH
Confidence            3689999999999999999999998875443322    22111 112233567788999999982       12221100


Q ss_pred             --------------------cccc--CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           75 --------------------LSYR--GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        75 --------------------~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                                          ..+.  ..+++++.+.. -+.++..+.--.++.+..   .+.+|-++-|+|...
T Consensus       121 yidaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~P-TGH~LKslDLvtmk~Lds---kVNIIPvIAKaDtis  190 (406)
T KOG3859|consen  121 YIDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISP-TGHSLKSLDLVTMKKLDS---KVNIIPVIAKADTIS  190 (406)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecC-CCcchhHHHHHHHHHHhh---hhhhHHHHHHhhhhh
Confidence                                0112  34555555553 345565554444555554   456666677888643

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.92  E-value=7.2e-05  Score=49.20  Aligned_cols=108  Identities=15%  Similarity=0.067  Sum_probs=62.9

Q ss_pred             EEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCC
Q 030961           12 VTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVS   91 (168)
Q Consensus        12 ~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   91 (168)
                      +.-|.+|+|||++...+... +......+.-.+..  .......+.+.++|+|+...  ......+..+|.++++.+. +
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~-~~~~~~~~~~vd~D--~~~~~~~yd~VIiD~p~~~~--~~~~~~l~~aD~vviv~~~-~   77 (139)
T cd02038           4 VTSGKGGVGKTNISANLALA-LAKLGKRVLLLDAD--LGLANLDYDYIIIDTGAGIS--DNVLDFFLAADEVIVVTTP-E   77 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHH-HHHCCCcEEEEECC--CCCCCCCCCEEEEECCCCCC--HHHHHHHHhCCeEEEEcCC-C
Confidence            45578999999998765432 11111111111110  00011127789999997532  2234568889999999886 4


Q ss_pred             hhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           92 RASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        92 ~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      ..++... ...++.+.+.....++.++.|+++...
T Consensus        78 ~~s~~~~-~~~l~~l~~~~~~~~~~lVvN~~~~~~  111 (139)
T cd02038          78 PTSITDA-YALIKKLAKQLRVLNFRVVVNRAESPK  111 (139)
T ss_pred             hhHHHHH-HHHHHHHHHhcCCCCEEEEEeCCCCHH
Confidence            5556554 445555554434567789999997543

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.

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=97.89  E-value=0.00015  Score=57.11  Aligned_cols=71  Identities=17%  Similarity=0.110  Sum_probs=43.8

Q ss_pred             EEEEEEeCCCCc-------------cccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeC
Q 030961           56 VNLGLWDTAGQE-------------DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTK  121 (168)
Q Consensus        56 ~~~~i~D~~g~~-------------~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK  121 (168)
                      .++.+.|.||..             ....+...++.+.+++|+|+--.+-+   ..+...-+.+.+.- .+...|+|.+|
T Consensus       412 qRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVD---AERSnVTDLVsq~DP~GrRTIfVLTK  488 (980)
T KOG0447|consen  412 QRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVD---AERSIVTDLVSQMDPHGRRTIFVLTK  488 (980)
T ss_pred             ceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcc---hhhhhHHHHHHhcCCCCCeeEEEEee
Confidence            346789999932             23446677788999999998532211   11111222333322 35778899999


Q ss_pred             Ccccccch
Q 030961          122 LDLREDKH  129 (168)
Q Consensus       122 ~D~~~~~~  129 (168)
                      .|+...+-
T Consensus       489 VDlAEknl  496 (980)
T KOG0447|consen  489 VDLAEKNV  496 (980)
T ss_pred             cchhhhcc
Confidence            99987643

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.84  E-value=5.5e-05  Score=64.67  Aligned_cols=115  Identities=25%  Similarity=0.175  Sum_probs=61.1

Q ss_pred             EEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeeceeEEEEEC-CeEEEEEEEeCCCCccc--------ccccccc---
Q 030961           11 CVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVVAE-GTTVNLGLWDTAGQEDY--------NRLRPLS---   76 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~--------~~~~~~~---   76 (168)
                      .+|||++|+||||++..- +..|.  ....... ..-..+...+ .-+-+-.++||.|...-        ...|..+   
T Consensus       128 y~viG~pgsGKTtal~~s-gl~Fpl~~~~~~~~-~~~~gT~~cdwwf~deaVlIDtaGry~~q~s~~~~~~~~W~~fL~l  205 (1188)
T COG3523         128 YMVIGPPGSGKTTALLNS-GLQFPLAEQMGALG-LAGPGTRNCDWWFTDEAVLIDTAGRYITQDSADEVDRAEWLGFLGL  205 (1188)
T ss_pred             eEEecCCCCCcchHHhcc-cccCcchhhhcccc-ccCCCCcccCcccccceEEEcCCcceecccCcchhhHHHHHHHHHH
Confidence            589999999999999532 22221  1111000 0000011111 11233456888884321        2234433   


Q ss_pred             ------ccCCcEEEEEEeCCCh-----hHHHHH---HHhHHHHHchhC-CCCcEEEEeeCCccccc
Q 030961           77 ------YRGADVFVLAFSLVSR-----ASYENV---LKKWIPELQHYS-PGVPVVLVGTKLDLRED  127 (168)
Q Consensus        77 ------~~~~~~~i~v~d~~~~-----~s~~~~---~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~  127 (168)
                            .+..+|+++.+|+++-     ...+..   ...-++++.... ...|+.+++||.|+...
T Consensus       206 Lkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~G  271 (1188)
T COG3523         206 LKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLPG  271 (1188)
T ss_pred             HHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEeccccccc
Confidence                  3458999999997542     111111   122233333333 57999999999999875

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=97.81  E-value=1.7e-05  Score=62.77  Aligned_cols=117  Identities=15%  Similarity=0.083  Sum_probs=79.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC-----CCCCCC-Ccee----eceeEEE-------EECCeEEEEEEEeCCCCccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNK-----FPTDYI-PTVF----DNFSANV-------VAEGTTVNLGLWDTAGQEDY   69 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~-----~~~~~~-~~~~----~~~~~~~-------~~~~~~~~~~i~D~~g~~~~   69 (168)
                      +.-+|-++-.-.+||||+-.|.+...     +..... .+.-    .+..+.+       ......+.+.++||||+-.|
T Consensus        38 k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~~~~iNiIDTPGHvDF  117 (721)
T KOG0465|consen   38 KIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWRDYRINIIDTPGHVDF  117 (721)
T ss_pred             hhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeeccceeEEecCCCceeE
Confidence            34457777788999999999876421     111100 1110    0011111       22344788999999999999


Q ss_pred             cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           70 NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      .-..+..++--|++++++++..+-..+.. .-|.+ +.+  .++|.+...||.|.-..
T Consensus       118 T~EVeRALrVlDGaVlvl~aV~GVqsQt~-tV~rQ-~~r--y~vP~i~FiNKmDRmGa  171 (721)
T KOG0465|consen  118 TFEVERALRVLDGAVLVLDAVAGVESQTE-TVWRQ-MKR--YNVPRICFINKMDRMGA  171 (721)
T ss_pred             EEEehhhhhhccCeEEEEEcccceehhhH-HHHHH-HHh--cCCCeEEEEehhhhcCC
Confidence            99999999999999999998776554443 34444 334  36999999999997654

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.78  E-value=4e-05  Score=59.55  Aligned_cols=65  Identities=18%  Similarity=0.151  Sum_probs=37.5

Q ss_pred             EEEEEEeCCCCccccccc-----c-ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcE-EEEeeCCccccc
Q 030961           56 VNLGLWDTAGQEDYNRLR-----P-LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPV-VLVGTKLDLRED  127 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~-----~-~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~-ivv~nK~D~~~~  127 (168)
                      ..+.++||+|........     . ..+..++.+++|+|++....   . ......+.+   ..++ -+|.||.|....
T Consensus       176 ~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq~---a-v~~a~~F~~---~l~i~gvIlTKlD~~a~  247 (437)
T PRK00771        176 ADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQQ---A-KNQAKAFHE---AVGIGGIIITKLDGTAK  247 (437)
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccHH---H-HHHHHHHHh---cCCCCEEEEecccCCCc
Confidence            478899999975432111     0 11336788999999876532   1 122233332   2333 466799997643

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=97.74  E-value=2.6e-05  Score=54.22  Aligned_cols=23  Identities=13%  Similarity=0.120  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+..+++|+.||||||+++.+..
T Consensus         3 ~ya~lV~GpAgSGKSTyC~~~~~   25 (273)
T KOG1534|consen    3 RYAQLVMGPAGSGKSTYCSSMYE   25 (273)
T ss_pred             ceeEEEEccCCCCcchHHHHHHH
Confidence            56789999999999999998754

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=97.74  E-value=5.9e-05  Score=57.15  Aligned_cols=160  Identities=13%  Similarity=0.089  Sum_probs=92.7

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC--CCC---------------C------CCCceeece--eEEEE-----ECCe
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK--FPT---------------D------YIPTVFDNF--SANVV-----AEGT   54 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~--~~~---------------~------~~~~~~~~~--~~~~~-----~~~~   54 (168)
                      +...++++|+|.-.+||||+-..+....  ...               .      +-.+-..+.  .+++.     ..-.
T Consensus        76 pk~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~FEte  155 (501)
T KOG0459|consen   76 PKEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYFETE  155 (501)
T ss_pred             CCCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEEEec
Confidence            4567899999999999999987765421  000               0      000000111  11111     1223


Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChh---HHHHH-HHhHHHHHchhCCCCcEEEEeeCCcccccchh
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRA---SYENV-LKKWIPELQHYSPGVPVVLVGTKLDLREDKHY  130 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~~~~-~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~  130 (168)
                      ..++.+.|.||+..|-...-.-..+||..++|+++...+   .|+.- ...=..++.+...-..+|++.||.|-...+ +
T Consensus       156 ~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~gv~~lVv~vNKMddPtvn-W  234 (501)
T KOG0459|consen  156 NKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVN-W  234 (501)
T ss_pred             ceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhhccceEEEEEEeccCCccC-c
Confidence            456788999999988776666778899999999874322   12211 000111222222346789999999976432 1


Q ss_pred             hhcCCCCCcccHHHHHHHHHHhCC-----cEEEEecccCccCC
Q 030961          131 LADHPGLVPVTTAQGEELRKQIGA-----SYYIECSSKTQQVC  168 (168)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i  168 (168)
                      ..+   ......+....+.+..|.     +.|+++|..+|.|+
T Consensus       235 s~e---Ry~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~  274 (501)
T KOG0459|consen  235 SNE---RYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANV  274 (501)
T ss_pred             chh---hHHHHHHHHHHHHHHhcccCCCCceeeecccccccch
Confidence            111   011345556666664433     57999999999875

>PRK08118 topology modulation protein; Reviewed

Probab=97.71  E-value=3.2e-05  Score=52.49  Aligned_cols=23  Identities=22%  Similarity=0.372  Sum_probs=20.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .||+|+|++|||||||..++...
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999988753

>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=97.70  E-value=3e-05  Score=49.48  Aligned_cols=22  Identities=14%  Similarity=0.167  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .|+|.|+|||||||+++.|...
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            4899999999999999999763

...

>KOG3929 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.69  E-value=5.3e-06  Score=59.21  Aligned_cols=147  Identities=19%  Similarity=0.188  Sum_probs=84.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECC--eEEEEEEEeCCCCcccccccccc-----ccC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEG--TTVNLGLWDTAGQEDYNRLRPLS-----YRG   79 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~i~D~~g~~~~~~~~~~~-----~~~   79 (168)
                      ....|.+.|+.+  ||++|++++...- ....++...+|+-...+.+  ..--..+|+.+|......+....     ++.
T Consensus        44 ~E~~I~~~Gn~~--~tt~I~~~FdR~e-~~~~ptlaLEYtygRR~~g~~~kdiaN~WELGgg~~~~~LLsVPit~~~l~~  120 (363)
T KOG3929|consen   44 FEFFIGSKGNGG--KTTIILRCFDRDE-PPKPPTLALEYTYGRRAKGHNPKDIANFWELGGGTSLLDLLSVPITGDTLRT  120 (363)
T ss_pred             ceeEEEEecCCc--eeEeehhhcCccc-CCCCCceeeeeehhhhccCCCchhHHHHHHhcCCccHHHHhcCcccccchhh
Confidence            456778887655  4899999886542 2335666666643322322  33345679999987665543333     223


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchh------------------------------C--------CCCcEEEEeeC
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHY------------------------------S--------PGVPVVLVGTK  121 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~------------------------------~--------~~~p~ivv~nK  121 (168)
                      + .+|++.|++++..+...++..++.+.+.                              .        -.+|++||+.|
T Consensus       121 ~-slIL~LDls~p~~~W~t~E~~~~~~R~~vd~~~~~~~k~~~~L~E~mrqR~~~rvgqd~~d~e~~dP~P~PV~IVgsK  199 (363)
T KOG3929|consen  121 F-SLILVLDLSKPNDLWPTMENLLQATRSHVDKVIMKLGKTNAKLVEEMRQRIWNRVGQDHPDHELIDPFPVPVVIVGSK  199 (363)
T ss_pred             h-hheeeeecCChHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHhcccCCCchhhcCCCCCceEEeccc
Confidence            3 6778899999876654433332222210                              0        02799999999


Q ss_pred             CcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961          122 LDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus       122 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      .|.-...++.     .+.-...-++.++..||. ..+..|++
T Consensus       200 YDvFq~Fese-----kRkH~C~~LRf~Ah~yGa-aLlmfSsk  235 (363)
T KOG3929|consen  200 YDVFQDFESE-----KRKHICKTLRFVAHYYGA-ALLMFSSK  235 (363)
T ss_pred             hhhhccccHH-----HHHHHHHHHHHHHHHhhh-HHHHHHHh
Confidence            9987664311     111223335566667776 44444544

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.68  E-value=3.9e-05  Score=52.58  Aligned_cols=23  Identities=13%  Similarity=0.306  Sum_probs=21.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+|+++|+|||||||+..++...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999875

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.68  E-value=0.00027  Score=53.88  Aligned_cols=66  Identities=26%  Similarity=0.330  Sum_probs=36.8

Q ss_pred             EEEEEEEeCCCCcccccccccc----cc--CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcE-EEEeeCCccccc
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLS----YR--GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPV-VLVGTKLDLRED  127 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~----~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~-ivv~nK~D~~~~  127 (168)
                      .+.+.++||.|...+..+.-..    +.  ...-+.+|++++...  ..+ +..+..+..    .|+ -+++||.|....
T Consensus       281 ~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~--~dl-kei~~~f~~----~~i~~~I~TKlDET~s  353 (407)
T COG1419         281 DCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKY--EDL-KEIIKQFSL----FPIDGLIFTKLDETTS  353 (407)
T ss_pred             cCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcch--HHH-HHHHHHhcc----CCcceeEEEcccccCc
Confidence            5678899999976654432222    11  123455566665433  222 445555554    333 356799998654

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.67  E-value=0.00026  Score=56.04  Aligned_cols=23  Identities=22%  Similarity=0.094  Sum_probs=19.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.++|+|++|+||||++..|..
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa  372 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQ  372 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999988764

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=97.64  E-value=8.2e-05  Score=54.56  Aligned_cols=60  Identities=20%  Similarity=0.215  Sum_probs=37.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCC------CCCceeeceeEEEEECCeEEEEEEEeCCCC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTD------YIPTVFDNFSANVVAEGTTVNLGLWDTAGQ   66 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   66 (168)
                      ...+.++|+|-||+|||||+|.+...+....      ..+..+......+.+.+.. .+.+.||||-
T Consensus       141 ~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp-~vy~iDTPGi  206 (335)
T KOG2485|consen  141 NSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRP-PVYLIDTPGI  206 (335)
T ss_pred             CCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCC-ceEEecCCCc
Confidence            3578999999999999999998865443221      1122222223333443322 2556999994

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.64  E-value=0.00028  Score=54.59  Aligned_cols=23  Identities=22%  Similarity=0.099  Sum_probs=19.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-+++++|+.|+||||++.++.+
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~  213 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAA  213 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            34799999999999999997754

>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=97.63  E-value=0.00016  Score=55.64  Aligned_cols=72  Identities=19%  Similarity=0.283  Sum_probs=52.2

Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCCh----------hHHHHHHHhHHHHHchh-C-CCCcEEEEeeCCc
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSR----------ASYENVLKKWIPELQHY-S-PGVPVVLVGTKLD  123 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~----------~s~~~~~~~~~~~l~~~-~-~~~p~ivv~nK~D  123 (168)
                      ..+.++|++|+..-+.-|...+.++++++||+++++=          ..+.+.+ .++..+... . .+.|++|++||.|
T Consensus       236 ~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl-~lF~~i~~~~~~~~~~iil~lnK~D  314 (389)
T PF00503_consen  236 RKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESL-NLFESICNNPWFKNTPIILFLNKID  314 (389)
T ss_dssp             EEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHH-HHHHHHHTSGGGTTSEEEEEEE-HH
T ss_pred             cccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHH-HHHHHHHhCcccccCceEEeeecHH
Confidence            4568899999998889999999999999999997531          2244442 333333332 2 6899999999999


Q ss_pred             ccccc
Q 030961          124 LREDK  128 (168)
Q Consensus       124 ~~~~~  128 (168)
                      +-.+.
T Consensus       315 ~f~~K  319 (389)
T PF00503_consen  315 LFEEK  319 (389)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87653

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 ....

>PRK07261 topology modulation protein; Provisional

Probab=97.61  E-value=5.6e-05  Score=51.51  Aligned_cols=21  Identities=19%  Similarity=0.276  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      +|+++|.+|||||||...+..
T Consensus         2 ri~i~G~~GsGKSTla~~l~~   22 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQ   22 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            799999999999999998864

>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=97.60  E-value=4.9e-05  Score=49.90  Aligned_cols=20  Identities=15%  Similarity=0.223  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      |+++|+|||||||++.++..
T Consensus         2 ii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999874

...

>TIGR00959 ffh signal recognition particle protein

Probab=97.59  E-value=0.00018  Score=55.88  Aligned_cols=86  Identities=16%  Similarity=0.082  Sum_probs=47.8

Q ss_pred             EEEEEEEeCCCCccccccccc------cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           55 TVNLGLWDTAGQEDYNRLRPL------SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~------~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                      .+.+.++||+|........-.      .....+.+++|+|+......    ......+.... ++ .=++.||.|.....
T Consensus       182 ~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq~~----~~~a~~f~~~v-~i-~giIlTKlD~~~~~  255 (428)
T TIGR00959       182 GFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQDA----VNTAKTFNERL-GL-TGVVLTKLDGDARG  255 (428)
T ss_pred             CCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchHHH----HHHHHHHHhhC-CC-CEEEEeCccCcccc
Confidence            467889999996432211001      12357888999998754322    22333443221 22 24668999975432


Q ss_pred             hhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961          129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                                    -.+...+...+. |+.+++
T Consensus       256 --------------G~~lsi~~~~~~-PI~fi~  273 (428)
T TIGR00959       256 --------------GAALSVRSVTGK-PIKFIG  273 (428)
T ss_pred             --------------cHHHHHHHHHCc-CEEEEe
Confidence                          225666666776 555443

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.

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.55  E-value=4.2e-05  Score=57.69  Aligned_cols=94  Identities=16%  Similarity=0.112  Sum_probs=53.7

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC----CCCC-----CCCC-cee-----------eceeEE------E--------
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN----KFPT-----DYIP-TVF-----------DNFSAN------V--------   49 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~----~~~~-----~~~~-~~~-----------~~~~~~------~--------   49 (168)
                      +.+.--|+++|..|+||||.+.+|..-    .+..     ++.. ...           ..+...      .        
T Consensus        98 K~kpsVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ygsyte~dpv~ia~egv~  177 (483)
T KOG0780|consen   98 KGKPSVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEGVD  177 (483)
T ss_pred             cCCCcEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCeeEecccccchHHHHHHHHH
Confidence            345567999999999999999877531    1110     0000 000           000000      0        


Q ss_pred             EECCeEEEEEEEeCCCCccccc-cccc-----cccCCcEEEEEEeCCChhHHHHH
Q 030961           50 VAEGTTVNLGLWDTAGQEDYNR-LRPL-----SYRGADVFVLAFSLVSRASYENV   98 (168)
Q Consensus        50 ~~~~~~~~~~i~D~~g~~~~~~-~~~~-----~~~~~~~~i~v~d~~~~~s~~~~   98 (168)
                      ....+.+.+.|.||+|...-.. +.+.     ..-..|-++||.|++-....+..
T Consensus       178 ~fKke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~Q  232 (483)
T KOG0780|consen  178 RFKKENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQ  232 (483)
T ss_pred             HHHhcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHHH
Confidence            0133568899999999543211 1111     13358999999999877665544

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.54  E-value=0.00012  Score=50.61  Aligned_cols=23  Identities=9%  Similarity=0.092  Sum_probs=20.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .=|+++|++|||||||+++|+..
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            44899999999999999999864

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.52  E-value=0.0025  Score=42.70  Aligned_cols=56  Identities=20%  Similarity=0.221  Sum_probs=35.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTA   64 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   64 (168)
                      ..+||.+-|.||+||||++.++... +.... ...+-.+...+.-++...-+.+.|+.
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~-L~~~g-~kvgGf~t~EVR~gGkR~GF~Ivdl~   59 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEK-LREKG-YKVGGFITPEVREGGKRIGFKIVDLA   59 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHH-HHhcC-ceeeeEEeeeeecCCeEeeeEEEEcc
Confidence            4689999999999999999988642 10110 12222233444455666666667766

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=97.50  E-value=0.00089  Score=48.21  Aligned_cols=89  Identities=16%  Similarity=0.142  Sum_probs=57.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEEC----CeEEEEEEEeCCCCccccc-------ccccc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAE----GTTVNLGLWDTAGQEDYNR-------LRPLS   76 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~i~D~~g~~~~~~-------~~~~~   76 (168)
                      .-+|-++|-|.+||||++..+.+..-     +....+++.-..+.    -..-++++.|.||.-+-..       ..-..
T Consensus        59 ~a~vg~vgFPSvGksTl~~~l~g~~s-----~vasyefttl~~vpG~~~y~gaKiqlldlpgiiegakdgkgrg~qviav  133 (358)
T KOG1487|consen   59 DARVGFVGFPSVGKSTLLSKLTGTFS-----EVAAYEFTTLTTVPGVIRYKGAKIQLLDLPGIIEGAKDGKGRGKQVIAV  133 (358)
T ss_pred             ceeeeEEecCccchhhhhhhhcCCCC-----ccccccceeEEEecceEeccccceeeecCcchhcccccCCCCccEEEEE
Confidence            34899999999999999998876431     11111222222232    2345677799999543211       12234


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHh
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKK  101 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~  101 (168)
                      .+.|+.+++|.|+-.+-+-..+.+.
T Consensus       134 artcnli~~vld~~kp~~hk~~ie~  158 (358)
T KOG1487|consen  134 ARTCNLIFIVLDVLKPLSHKKIIEK  158 (358)
T ss_pred             eecccEEEEEeeccCcccHHHHHHH
Confidence            5789999999999988887766443

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.49  E-value=0.00016  Score=50.79  Aligned_cols=26  Identities=23%  Similarity=0.331  Sum_probs=21.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+..-|+++|++|||||||+++|...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            34566889999999999999999754

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.49  E-value=7.9e-05  Score=50.85  Aligned_cols=25  Identities=20%  Similarity=0.283  Sum_probs=21.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      ..-+++.|++|+||||++++|+...
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4558999999999999999998765

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=97.48  E-value=0.00018  Score=56.20  Aligned_cols=117  Identities=15%  Similarity=0.158  Sum_probs=75.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC-CCCC-----CCC--CceeeceeEEE-----------------------EECC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN-KFPT-----DYI--PTVFDNFSANV-----------------------VAEG   53 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~-~~~~-----~~~--~~~~~~~~~~~-----------------------~~~~   53 (168)
                      +..+-+..++-+-..|||||...|+.. ....     ..-  -|-.++....+                       ..++
T Consensus        16 ~~NiRNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~   95 (842)
T KOG0469|consen   16 KKNIRNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDG   95 (842)
T ss_pred             ccccccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCC
Confidence            344567889999999999999988742 1110     000  00000000001                       1255


Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccc
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR  125 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~  125 (168)
                      ..+-+.++|.||+-.|.+.....++-.|+.++|+|..+.--.+.. --+-+.+.+   .+.-+++.||.|..
T Consensus        96 ~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTE-TVLrQA~~E---RIkPvlv~NK~DRA  163 (842)
T KOG0469|consen   96 NGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTE-TVLRQAIAE---RIKPVLVMNKMDRA  163 (842)
T ss_pred             cceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechH-HHHHHHHHh---hccceEEeehhhHH
Confidence            678889999999999999999999999999999998776544432 222333333   34455667999954

>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=97.47  E-value=0.00013  Score=41.93  Aligned_cols=21  Identities=14%  Similarity=0.205  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |++.|++|+||||+.+.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            688999999999999988764

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.

>TIGR00235 udk uridine kinase

Probab=97.46  E-value=0.00016  Score=50.81  Aligned_cols=27  Identities=19%  Similarity=0.037  Sum_probs=23.1

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+.+..-|.++|++|||||||++.+.+
T Consensus         2 ~~~~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         2 DKPKGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CCCCeEEEEEECCCCCCHHHHHHHHHH
Confidence            455567799999999999999999875

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.45  E-value=0.00068  Score=42.03  Aligned_cols=82  Identities=13%  Similarity=0.148  Sum_probs=48.9

Q ss_pred             EEEEC-CCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           11 CVTVG-DGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        11 i~vvG-~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      |++.| ..|+||||+...+...- .....+..-.+      .+ ..+.+.++|+|+.....  ....+..+|.++++.+.
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~-~~~~~~vl~~d------~d-~~~d~viiD~p~~~~~~--~~~~l~~ad~viv~~~~   71 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAAL-ARRGKRVLLID------LD-PQYDYIIIDTPPSLGLL--TRNALAAADLVLIPVQP   71 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHH-HhCCCcEEEEe------CC-CCCCEEEEeCcCCCCHH--HHHHHHHCCEEEEeccC
Confidence            56666 67999999987664321 11111111111      11 11778899999865322  22567789999999885


Q ss_pred             CChhHHHHHHHhHHH
Q 030961           90 VSRASYENVLKKWIP  104 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~  104 (168)
                       +..++..+ ..+++
T Consensus        72 -~~~s~~~~-~~~~~   84 (104)
T cd02042          72 -SPLDLDGL-EKLLE   84 (104)
T ss_pred             -CHHHHHHH-HHHHH
Confidence             55666665 55554

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.45  E-value=0.00074  Score=43.81  Aligned_cols=25  Identities=16%  Similarity=0.118  Sum_probs=21.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      ...+++.|++|+|||++++.+...-
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4468999999999999999988753

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.

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=97.45  E-value=3.4e-05  Score=54.41  Aligned_cols=74  Identities=20%  Similarity=0.279  Sum_probs=42.3

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCC----------ChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCC
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLV----------SRASYENVLKKWIPELQHYS--PGVPVVLVGTKL  122 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~----------~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~  122 (168)
                      .+.+++.|.+|+..-+.-|-+.+.++-.++|++..+          +....++. ..++..+-.+.  .+.+++++.||.
T Consensus       198 ~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeES-kALFrTIi~yPWF~nssVIlFLNKk  276 (359)
T KOG0085|consen  198 KIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEES-KALFRTIITYPWFQNSSVILFLNKK  276 (359)
T ss_pred             hheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHH-HHHHHHHhccccccCCceEEEechh
Confidence            344566777777665555555555554444443321          22222222 33444444433  578999999999


Q ss_pred             cccccch
Q 030961          123 DLREDKH  129 (168)
Q Consensus       123 D~~~~~~  129 (168)
                      |+..+..
T Consensus       277 DlLEekI  283 (359)
T KOG0085|consen  277 DLLEEKI  283 (359)
T ss_pred             hhhhhhh
Confidence            9987743

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.44  E-value=0.0012  Score=48.63  Aligned_cols=81  Identities=19%  Similarity=0.192  Sum_probs=54.7

Q ss_pred             cccccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh
Q 030961           74 PLSYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI  152 (168)
Q Consensus        74 ~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (168)
                      .....+.|-.++++++.+|+ +...+ +.++-....  .++..+|++||+|+..+..          ...++........
T Consensus        74 Rp~v~n~d~~iiIvs~~~P~~~~~~l-dR~Lv~ae~--~gi~pvIvlnK~DL~~~~~----------~~~~~~~~~y~~~  140 (301)
T COG1162          74 RPPVANNDQAIIVVSLVDPDFNTNLL-DRYLVLAEA--GGIEPVIVLNKIDLLDDEE----------AAVKELLREYEDI  140 (301)
T ss_pred             CCcccccceEEEEEeccCCCCCHHHH-HHHHHHHHH--cCCcEEEEEEccccCcchH----------HHHHHHHHHHHhC
Confidence            33344688888888888876 34443 555555555  4677788899999987743          2223444555567


Q ss_pred             CCcEEEEecccCccCC
Q 030961          153 GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ~~~~~~~~Sa~~~~~i  168 (168)
                      +. +.+.+|+++++|+
T Consensus       141 gy-~v~~~s~~~~~~~  155 (301)
T COG1162         141 GY-PVLFVSAKNGDGL  155 (301)
T ss_pred             Ce-eEEEecCcCcccH
Confidence            76 7899999998764

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.43  E-value=8.6e-05  Score=50.06  Aligned_cols=22  Identities=23%  Similarity=0.422  Sum_probs=17.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ||+|.|.+++|||||++.|...
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            7999999999999999999764

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.42  E-value=0.0012  Score=39.84  Aligned_cols=68  Identities=21%  Similarity=0.192  Sum_probs=42.9

Q ss_pred             EEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccc-ccccccCCcEEEEEEeC
Q 030961           11 CVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRL-RPLSYRGADVFVLAFSL   89 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-~~~~~~~~~~~i~v~d~   89 (168)
                      +++.|.+|+||||+...+...-- ...        .+...++    .+.++|+++....... .......++.++++.+.
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~-~~g--------~~v~~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~~   68 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALA-KRG--------KRVLLID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTP   68 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-HCC--------CeEEEEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecCC
Confidence            67889999999999987765311 000        1111222    6788999987543221 13455678888888876


Q ss_pred             CC
Q 030961           90 VS   91 (168)
Q Consensus        90 ~~   91 (168)
                      ..
T Consensus        69 ~~   70 (99)
T cd01983          69 EA   70 (99)
T ss_pred             ch
Confidence            43

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PRK06217 hypothetical protein; Validated

Probab=97.42  E-value=0.00014  Score=50.01  Aligned_cols=23  Identities=13%  Similarity=0.228  Sum_probs=20.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+|+|+|.+||||||+..+|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999998753

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.41  E-value=0.0012  Score=54.52  Aligned_cols=21  Identities=29%  Similarity=0.251  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -++++|+.|+||||++.++..
T Consensus       187 Vi~lVGpnGvGKTTTiaKLA~  207 (767)
T PRK14723        187 VLALVGPTGVGKTTTTAKLAA  207 (767)
T ss_pred             EEEEECCCCCcHHHHHHHHHh
Confidence            589999999999999998874

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.39  E-value=0.0033  Score=45.12  Aligned_cols=151  Identities=17%  Similarity=0.217  Sum_probs=83.5

Q ss_pred             eeEEEEECCCCC--CHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCe----EEEEEEEeCCCCccccccccccccCCc
Q 030961            8 FIKCVTVGDGAV--GKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT----TVNLGLWDTAGQEDYNRLRPLSYRGAD   81 (168)
Q Consensus         8 ~~~i~vvG~~~~--GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~i~D~~g~~~~~~~~~~~~~~~~   81 (168)
                      ..-++++|-+|+  ||-++.+||....|.......-.+++ ..-+++++    .+.+.+--.... .+... .......-
T Consensus         4 rp~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~-hgwtid~kyysadi~lcishicde-~~lpn-~~~a~pl~   80 (418)
T KOG4273|consen    4 RPCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEF-HGWTIDNKYYSADINLCISHICDE-KFLPN-AEIAEPLQ   80 (418)
T ss_pred             CceEEEecccccccchHHHHHHhcchhheeeccccCceee-eceEecceeeecceeEEeecccch-hccCC-ccccccee
Confidence            345789999999  99999999988777543222221111 11122222    233333222111 11111 11122345


Q ss_pred             EEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccch-------hhh--------------cC------
Q 030961           82 VFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH-------YLA--------------DH------  134 (168)
Q Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~-------~~~--------------~~------  134 (168)
                      +++++||.+....+..+ +.|+.-..-+. =-.++.++||.|..+..-       +..              +.      
T Consensus        81 a~vmvfdlse~s~l~al-qdwl~htdins-fdillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgisete  158 (418)
T KOG4273|consen   81 AFVMVFDLSEKSGLDAL-QDWLPHTDINS-FDILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISETE  158 (418)
T ss_pred             eEEEEEeccchhhhHHH-Hhhcccccccc-chhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhccccccc
Confidence            88999999999999887 77866432211 123467899999765410       000              00      


Q ss_pred             -------CCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961          135 -------PGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus       135 -------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                             +...-.....+.++|-+.++ .|++.+|-.
T Consensus       159 gssllgsedasldirga~lewc~e~~~-efieacasn  194 (418)
T KOG4273|consen  159 GSSLLGSEDASLDIRGAALEWCLEHGF-EFIEACASN  194 (418)
T ss_pred             cccccccccchhhHHHHHHHHHHhcCc-eeeeecCCc
Confidence                   00111234457888999998 899988843

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.37  E-value=4.8e-05  Score=55.77  Aligned_cols=147  Identities=16%  Similarity=0.151  Sum_probs=81.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC---CCCCCCCCcee--ece--eEEEEE----------------------------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN---KFPTDYIPTVF--DNF--SANVVA----------------------------   51 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~---~~~~~~~~~~~--~~~--~~~~~~----------------------------   51 (168)
                      -.++|.-+|+-..||||++..+.+-   +|.......++  .-|  .+.+..                            
T Consensus        37 ATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~~~g  116 (466)
T KOG0466|consen   37 ATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCDRPG  116 (466)
T ss_pred             eeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCcccCC
Confidence            4789999999999999999887653   12211111111  111  011110                            


Q ss_pred             -CC---eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCC--h--hHHHHHHHhHHHHHchhCCCCcEEEEeeCCc
Q 030961           52 -EG---TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVS--R--ASYENVLKKWIPELQHYSPGVPVVLVGTKLD  123 (168)
Q Consensus        52 -~~---~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~--~--~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D  123 (168)
                       .+   .-..+.+.|+||++-+-..+-.-..-.|++++++..+.  +  .+.+.+.   .-++.+   =..++++-||+|
T Consensus       117 ~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLa---aveiM~---LkhiiilQNKiD  190 (466)
T KOG0466|consen  117 CEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLA---AVEIMK---LKHIIILQNKID  190 (466)
T ss_pred             CCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHH---HHHHhh---hceEEEEechhh
Confidence             11   11346679999998653322222223466666665543  2  2333321   111222   257889999999


Q ss_pred             ccccchhhhcCCCCCcccHHHHHHHHHH---hCCcEEEEecccCccCC
Q 030961          124 LREDKHYLADHPGLVPVTTAQGEELRKQ---IGASYYIECSSKTQQVC  168 (168)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~i  168 (168)
                      +..+.+..        ...++...|...   -+. +++++||.-++||
T Consensus       191 li~e~~A~--------eq~e~I~kFi~~t~ae~a-PiiPisAQlkyNI  229 (466)
T KOG0466|consen  191 LIKESQAL--------EQHEQIQKFIQGTVAEGA-PIIPISAQLKYNI  229 (466)
T ss_pred             hhhHHHHH--------HHHHHHHHHHhccccCCC-ceeeehhhhccCh
Confidence            98775411        234445555543   244 8999999988875

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=97.37  E-value=0.00023  Score=48.52  Aligned_cols=25  Identities=16%  Similarity=0.031  Sum_probs=21.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...-+.++|.+|||||||+.++...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHH
Confidence            4557899999999999999998753

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=97.36  E-value=0.0039  Score=46.77  Aligned_cols=90  Identities=17%  Similarity=0.055  Sum_probs=48.1

Q ss_pred             EEEEEEeCCCCcccccccc-----ccc---cCCcEEEEEEeCCChhHHHH-HHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           56 VNLGLWDTAGQEDYNRLRP-----LSY---RGADVFVLAFSLVSRASYEN-VLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~-----~~~---~~~~~~i~v~d~~~~~s~~~-~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      ....++++.|--.-.+...     ..+   -..|+++.|+|+.+-..-.. ..+...+++.-     -=+|++||.|+..
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            4455677777433211111     111   24678999999876544322 22333444433     3367789999987


Q ss_pred             cchhhhcCCCCCcccHHHHHHHHHHhCC-cEEEEecc
Q 030961          127 DKHYLADHPGLVPVTTAQGEELRKQIGA-SYYIECSS  162 (168)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa  162 (168)
                      +..            .+..+...+..+. .+++++|.
T Consensus       160 ~~~------------l~~l~~~l~~lnp~A~i~~~~~  184 (323)
T COG0523         160 AEE------------LEALEARLRKLNPRARIIETSY  184 (323)
T ss_pred             HHH------------HHHHHHHHHHhCCCCeEEEccc
Confidence            632            3444455544443 25666554

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.34  E-value=0.00022  Score=49.90  Aligned_cols=22  Identities=27%  Similarity=0.525  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|++|||||||++.+-+-
T Consensus        30 vv~iiGpSGSGKSTlLRclN~L   51 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNGL   51 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            5899999999999999988654

>PRK14530 adenylate kinase; Provisional

Probab=97.34  E-value=0.0002  Score=50.62  Aligned_cols=22  Identities=14%  Similarity=0.137  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+|+++|+|||||||+.++|..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998864

>PRK03839 putative kinase; Provisional

Probab=97.33  E-value=0.0002  Score=49.09  Aligned_cols=22  Identities=23%  Similarity=0.222  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      +|+++|.|||||||+..++...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999988653

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.32  E-value=0.00024  Score=50.70  Aligned_cols=24  Identities=25%  Similarity=0.242  Sum_probs=21.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..++|+++|+|||||||+..++..
T Consensus         5 ~~mrIvl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          5 GPLKIVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998865

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.32  E-value=0.0024  Score=47.89  Aligned_cols=24  Identities=21%  Similarity=0.162  Sum_probs=20.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ..-.++.|--|||||||+++++..
T Consensus         4 ipv~iltGFLGaGKTTll~~ll~~   27 (318)
T PRK11537          4 IAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_pred             cCEEEEEECCCCCHHHHHHHHHhc
Confidence            455788899999999999999854

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.31  E-value=0.00022  Score=50.89  Aligned_cols=21  Identities=19%  Similarity=0.305  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      ++++|++|||||||++-+.+-
T Consensus        32 vsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          32 VAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999988764

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.31  E-value=0.00026  Score=45.55  Aligned_cols=24  Identities=21%  Similarity=0.191  Sum_probs=21.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      -.++++|++|+|||+++..+...-
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~   26 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALAREL   26 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcc
Confidence            468999999999999999987753

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.30  E-value=0.00023  Score=45.85  Aligned_cols=21  Identities=19%  Similarity=0.210  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |++.|++|+|||++++.+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            689999999999999998764

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 ....

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.30  E-value=0.00019  Score=55.03  Aligned_cols=93  Identities=17%  Similarity=0.069  Sum_probs=52.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC----CCC------CCCCCce-----------eece-eE-----EEEE-------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN----KFP------TDYIPTV-----------FDNF-SA-----NVVA-------   51 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~----~~~------~~~~~~~-----------~~~~-~~-----~~~~-------   51 (168)
                      .++..|+++|..|+||||.+-+|...    ...      ..|-|..           +..+ ..     .+.+       
T Consensus        98 ~~P~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~  177 (451)
T COG0541          98 KPPTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEK  177 (451)
T ss_pred             CCCeEEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHH
Confidence            45778999999999999998876431    110      0111110           0000 00     0000       


Q ss_pred             -CCeEEEEEEEeCCCCcccccc-cc-----ccccCCcEEEEEEeCCChhHHHHH
Q 030961           52 -EGTTVNLGLWDTAGQEDYNRL-RP-----LSYRGADVFVLAFSLVSRASYENV   98 (168)
Q Consensus        52 -~~~~~~~~i~D~~g~~~~~~~-~~-----~~~~~~~~~i~v~d~~~~~s~~~~   98 (168)
                       ....+.+.|+||.|....... ..     ....+.|=+++|+|+.-.....+.
T Consensus       178 ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDam~GQdA~~~  231 (451)
T COG0541         178 AKEEGYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMIGQDAVNT  231 (451)
T ss_pred             HHHcCCCEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEecccchHHHHH
Confidence             223467889999997554321 11     113468899999998776655444

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.29  E-value=0.00022  Score=50.46  Aligned_cols=22  Identities=23%  Similarity=0.229  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|++|||||||+|-+-+-
T Consensus        33 ~vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            3799999999999999988654

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.28  E-value=0.00034  Score=53.02  Aligned_cols=57  Identities=18%  Similarity=0.138  Sum_probs=0.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG   65 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   65 (168)
                      ...+++.|+|-|++||||+||+|...+....-....-+.....+..+.   .+.+.|.||
T Consensus       250 k~sIrvGViG~PNVGKSSvINsL~~~k~C~vg~~pGvT~smqeV~Ldk---~i~llDsPg  306 (435)
T KOG2484|consen  250 KTSIRVGIIGYPNVGKSSVINSLKRRKACNVGNVPGVTRSMQEVKLDK---KIRLLDSPG  306 (435)
T ss_pred             CcceEeeeecCCCCChhHHHHHHHHhccccCCCCccchhhhhheeccC---CceeccCCc

>PRK07429 phosphoribulokinase; Provisional

Probab=97.28  E-value=0.00035  Score=52.47  Aligned_cols=30  Identities=30%  Similarity=0.335  Sum_probs=26.6

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      |.+...+.+.|.+.|.+|||||||.+.+..
T Consensus         1 ~~~~~~~~~IIgI~G~SGSGKSTla~~L~~   30 (327)
T PRK07429          1 MTSMPDRPVLLGVAGDSGCGKTTFLRGLAD   30 (327)
T ss_pred             CCCCCCCCEEEEEECCCCCCHHHHHHHHHh
Confidence            676777889999999999999999998874

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.27  E-value=0.00033  Score=49.20  Aligned_cols=26  Identities=19%  Similarity=0.143  Sum_probs=22.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+...|.+.|++|||||||++.+...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999988753

>PRK14532 adenylate kinase; Provisional

Probab=97.27  E-value=0.00026  Score=48.81  Aligned_cols=21  Identities=19%  Similarity=0.159  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      +|+++|+|||||||+..++..
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999875

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.26  E-value=0.00029  Score=46.25  Aligned_cols=21  Identities=29%  Similarity=0.371  Sum_probs=19.1

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      ++++|++|+|||||++++...
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.

>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=97.26  E-value=0.0003  Score=47.81  Aligned_cols=21  Identities=29%  Similarity=0.309  Sum_probs=18.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      ||++-|.+|+||||++.+++.
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~   21 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIE   21 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHH
Confidence            689999999999999999875

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.

>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=97.25  E-value=0.00023  Score=45.65  Aligned_cols=21  Identities=19%  Similarity=0.063  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |++.|.+||||||+++.|...
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            689999999999999998764

...

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.25  E-value=0.00039  Score=38.95  Aligned_cols=21  Identities=19%  Similarity=0.317  Sum_probs=18.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..++.|+.|+||||++..+..
T Consensus        25 ~tli~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999988754

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.25  E-value=0.00031  Score=48.44  Aligned_cols=22  Identities=18%  Similarity=0.259  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|++|+|||||++.+...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999999654

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.24  E-value=0.00029  Score=48.42  Aligned_cols=22  Identities=18%  Similarity=0.031  Sum_probs=19.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|+++|++||||||+++++..
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999873

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.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.23  E-value=0.00029  Score=48.17  Aligned_cols=22  Identities=23%  Similarity=0.256  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|++||||||+++.+...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998664

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=97.22  E-value=0.00038  Score=52.93  Aligned_cols=24  Identities=17%  Similarity=0.339  Sum_probs=21.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      -+++++|.+|+|||||+|.+.+..
T Consensus       196 ~~~~lvG~sgvGKStLin~L~g~~  219 (356)
T PRK01889        196 KTVALLGSSGVGKSTLVNALLGEE  219 (356)
T ss_pred             CEEEEECCCCccHHHHHHHHHHhc
Confidence            478999999999999999998753

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.21  E-value=0.0003  Score=46.37  Aligned_cols=22  Identities=23%  Similarity=0.261  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .|+++|+.++|||||+..+++.
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            5899999999999999998763

>PRK14531 adenylate kinase; Provisional

Probab=97.20  E-value=0.00037  Score=47.96  Aligned_cols=22  Identities=14%  Similarity=0.141  Sum_probs=19.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+|+++|+|||||||+..++..
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~   24 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCA   24 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=97.19  E-value=0.029  Score=38.06  Aligned_cols=125  Identities=11%  Similarity=0.034  Sum_probs=78.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      ..-.|++||..+.++..|...++....      +    +.           +++.-...-+-- ......=...|.|+|+
T Consensus        14 n~atiLLVg~e~~~~~~LA~a~l~~~~------~----~~-----------l~Vh~a~sLPLp-~e~~~lRprIDlIVFv   71 (176)
T PF11111_consen   14 NTATILLVGTEEALLQQLAEAMLEEDK------E----FK-----------LKVHLAKSLPLP-SENNNLRPRIDLIVFV   71 (176)
T ss_pred             ceeEEEEecccHHHHHHHHHHHHhhcc------c----ee-----------EEEEEeccCCCc-ccccCCCceeEEEEEE
Confidence            466799999999999999999886321      0    11           111111111000 0011112358999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      +|..+.-|++.+ +.-+..+.... -++-++ +.+-....+...          +...+..+++..|.+ +++.+.-.+.
T Consensus        72 inl~sk~SL~~v-e~SL~~vd~~fflGKVCf-l~t~a~~~~~~s----------v~~~~V~kla~~y~~-plL~~~le~~  138 (176)
T PF11111_consen   72 INLHSKYSLQSV-EASLSHVDPSFFLGKVCF-LATNAGRESHCS----------VHPNEVRKLAATYNS-PLLFADLENE  138 (176)
T ss_pred             EecCCcccHHHH-HHHHhhCChhhhccceEE-EEcCCCcccccc----------cCHHHHHHHHHHhCC-CEEEeecccc
Confidence            999999999988 65555555443 344444 445444444333          788999999999998 8877665544


Q ss_pred             c
Q 030961          166 Q  166 (168)
Q Consensus       166 ~  166 (168)
                      +
T Consensus       139 ~  139 (176)
T PF11111_consen  139 E  139 (176)
T ss_pred             h
Confidence            4

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>PRK02496 adk adenylate kinase; Provisional

Probab=97.18  E-value=0.0004  Score=47.74  Aligned_cols=22  Identities=14%  Similarity=0.276  Sum_probs=19.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+++++|+|||||||+...+..
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.18  E-value=0.00033  Score=45.61  Aligned_cols=22  Identities=23%  Similarity=0.314  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|+|||||++.+.+.
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~   34 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGL   34 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEEccCCCccccceeeeccc
Confidence            5899999999999999988775

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 ....

>PRK13949 shikimate kinase; Provisional

Probab=97.17  E-value=0.0004  Score=47.23  Aligned_cols=21  Identities=24%  Similarity=0.219  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      +|+++|.+|+||||+...+..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998764

>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=97.16  E-value=0.00034  Score=45.77  Aligned_cols=22  Identities=23%  Similarity=0.226  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .|+++|++|+|||+++..+...
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~   22 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAAL   22 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999987653

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.

>PRK08233 hypothetical protein; Provisional

Probab=97.16  E-value=0.00047  Score=47.11  Aligned_cols=24  Identities=17%  Similarity=-0.015  Sum_probs=20.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ..-|++.|.+|||||||..++...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            356888999999999999998753

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.15  E-value=0.0004  Score=47.61  Aligned_cols=20  Identities=15%  Similarity=0.137  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      |+++|+|||||||+..++..
T Consensus         2 i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998865

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.15  E-value=0.00042  Score=47.40  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|++||||||+++.+...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4799999999999999999874

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.

>PLN02674 adenylate kinase

Probab=97.13  E-value=0.00042  Score=49.85  Aligned_cols=25  Identities=12%  Similarity=0.053  Sum_probs=21.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ....+|+++|+|||||+|+..++..
T Consensus        29 ~~~~~i~l~G~PGsGKgT~a~~La~   53 (244)
T PLN02674         29 KPDKRLILIGPPGSGKGTQSPIIKD   53 (244)
T ss_pred             ccCceEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998875

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=97.13  E-value=0.0018  Score=40.48  Aligned_cols=99  Identities=15%  Similarity=0.077  Sum_probs=55.6

Q ss_pred             ECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChh
Q 030961           14 VGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRA   93 (168)
Q Consensus        14 vG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~   93 (168)
                      =+..|+||||+...|-..--......+.-.+...     .....+.++|+|+....  .....+..+|.++++.+. +..
T Consensus         6 ~~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~d~-----~~~~D~IIiDtpp~~~~--~~~~~l~~aD~vlvvv~~-~~~   77 (106)
T cd03111           6 GAKGGVGATTLAANLAVALAKEAGRRVLLVDLDL-----QFGDDYVVVDLGRSLDE--VSLAALDQADRVFLVTQQ-DLP   77 (106)
T ss_pred             CCCCCCcHHHHHHHHHHHHHhcCCCcEEEEECCC-----CCCCCEEEEeCCCCcCH--HHHHHHHHcCeEEEEecC-ChH
Confidence            3568999999877654321000011111111000     00116888999986542  223456789999998875 455


Q ss_pred             HHHHHHHhHHHHHchhC-C-CCcEEEEeeC
Q 030961           94 SYENVLKKWIPELQHYS-P-GVPVVLVGTK  121 (168)
Q Consensus        94 s~~~~~~~~~~~l~~~~-~-~~p~ivv~nK  121 (168)
                      ++... ..+.+.+.+.. + ...+.+|+|+
T Consensus        78 s~~~~-~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          78 SIRNA-KRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             HHHHH-HHHHHHHHHcCCCCcCceEEEecC
Confidence            66665 66777666654 3 3466677764

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.

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=97.12  E-value=0.0004  Score=47.96  Aligned_cols=22  Identities=14%  Similarity=0.158  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      +|+++|+|||||||+..+|...
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998753

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.11  E-value=0.00044  Score=48.11  Aligned_cols=21  Identities=19%  Similarity=0.126  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |.+.|++|||||||++.+.+.
T Consensus         2 igi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999998663

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.

>TIGR01351 adk adenylate kinases

Probab=97.10  E-value=0.00042  Score=48.78  Aligned_cols=21  Identities=19%  Similarity=0.172  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      +|+|+|+|||||||+..+|..
T Consensus         1 rI~i~G~pGsGKsT~a~~La~   21 (210)
T TIGR01351         1 RLVLLGPPGSGKGTQAKRIAE   21 (210)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999864

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=97.09  E-value=0.0093  Score=40.46  Aligned_cols=66  Identities=12%  Similarity=-0.065  Sum_probs=42.6

Q ss_pred             EEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           57 NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        57 ~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      .+.++|+|+....  .....+..+|.++++.+.. ..++..+ ..+++.+.+. ......++.|+.+....
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~-~~s~~~~-~~~~~~~~~~-~~~~~~iv~N~~~~~~~  129 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPE-ISSLRDA-DRVKGLLEAL-GIKVVGVIVNRVRPDMV  129 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCC-cchHHHH-HHHHHHHHHc-CCceEEEEEeCCccccc
Confidence            6889999986432  2234467899999998764 3445554 4555555552 22346688999987543

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.

>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=97.09  E-value=0.00054  Score=42.85  Aligned_cols=21  Identities=24%  Similarity=0.455  Sum_probs=18.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHh
Q 030961            9 IKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~   29 (168)
                      -.++++|++|+|||||++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            358999999999999999875

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

>PRK06547 hypothetical protein; Provisional

Probab=97.07  E-value=0.00067  Score=46.29  Aligned_cols=27  Identities=19%  Similarity=0.267  Sum_probs=22.6

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ......|++.|.+||||||+.+.+...
T Consensus        12 ~~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         12 GGGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            345678889999999999999998753

>PRK00625 shikimate kinase; Provisional

Probab=97.06  E-value=0.00059  Score=46.61  Aligned_cols=21  Identities=24%  Similarity=0.207  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      +|+++|.|||||||+...+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998854

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.05  E-value=0.00049  Score=45.40  Aligned_cols=26  Identities=12%  Similarity=0.127  Sum_probs=22.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+..++|++.|-||+|||||..++..
T Consensus         4 ~r~~PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    4 ERERPNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             hhcCCCEEEeCCCCCCchhHHHHHHH
Confidence            35678999999999999999999864

>PLN02200 adenylate kinase family protein

Probab=97.05  E-value=0.0008  Score=48.21  Aligned_cols=24  Identities=13%  Similarity=0.011  Sum_probs=20.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ....|+++|.|||||||+..++..
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999998864

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.04  E-value=0.0008  Score=45.91  Aligned_cols=24  Identities=17%  Similarity=0.014  Sum_probs=20.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +..-|++.|.+||||||+.+.+..
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~   29 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYE   29 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH
Confidence            345899999999999999988764

>PRK14527 adenylate kinase; Provisional

Probab=97.04  E-value=0.00076  Score=46.70  Aligned_cols=23  Identities=13%  Similarity=0.040  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|+++|+|||||||+..++..
T Consensus         6 ~~~i~i~G~pGsGKsT~a~~La~   28 (191)
T PRK14527          6 NKVVIFLGPPGAGKGTQAERLAQ   28 (191)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999998863

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.04  E-value=0.0015  Score=44.58  Aligned_cols=45  Identities=18%  Similarity=0.128  Sum_probs=29.8

Q ss_pred             cEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           81 DVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        81 ~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      |++++|+|+.++.+-..  ..+.+.+.-...+.|+++|+||+|+.+.
T Consensus         1 DvVl~VvDar~p~~~~~--~~i~~~~~l~~~~kp~IlVlNK~DL~~~   45 (172)
T cd04178           1 DVILEVLDARDPLGCRC--PQVEEAVLQAGGNKKLVLVLNKIDLVPK   45 (172)
T ss_pred             CEEEEEEECCCCCCCCC--HHHHHHHHhccCCCCEEEEEehhhcCCH
Confidence            68999999988754332  2333332111146899999999999654

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

>PRK00300 gmk guanylate kinase; Provisional

Probab=97.03  E-value=0.00059  Score=47.67  Aligned_cols=24  Identities=17%  Similarity=0.216  Sum_probs=20.7

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .--|+++|++|||||||++.+.+.
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            345899999999999999998764

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.01  E-value=0.00051  Score=46.24  Aligned_cols=21  Identities=19%  Similarity=0.289  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |+++|++||||||+.+.+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            578999999999999988754

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.01  E-value=0.00064  Score=47.43  Aligned_cols=21  Identities=19%  Similarity=0.292  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      +++.|++||||||+++.+...
T Consensus         4 ilI~GptGSGKTTll~~ll~~   24 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDY   24 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999987764

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.

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.00  E-value=0.00069  Score=47.85  Aligned_cols=22  Identities=14%  Similarity=0.235  Sum_probs=19.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+|+|+|+|||||||+..++..
T Consensus         1 ~~I~v~G~pGsGKsT~a~~la~   22 (215)
T PRK00279          1 MRLILLGPPGAGKGTQAKFIAE   22 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998764

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=96.98  E-value=0.00056  Score=44.07  Aligned_cols=23  Identities=22%  Similarity=0.202  Sum_probs=18.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      --+++.|++|+|||++++++...
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~   27 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQ   27 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHH
T ss_pred             cccEEEcCCCCCHHHHHHHHHHH
Confidence            34789999999999999999874

>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=96.98  E-value=0.00076  Score=48.34  Aligned_cols=26  Identities=19%  Similarity=0.290  Sum_probs=22.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ....+++|+|.+|||||+|+..++..
T Consensus        11 ~~~fr~viIG~sGSGKT~li~~lL~~   36 (241)
T PF04665_consen   11 KDPFRMVIIGKSGSGKTTLIKSLLYY   36 (241)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHh
Confidence            34679999999999999999988754

This is thought to be an ATPase involved in viral DNA packaging [].

>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=96.98  E-value=0.00064  Score=48.27  Aligned_cols=20  Identities=25%  Similarity=0.209  Sum_probs=18.0

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      |.+.|++|||||||++.+.+
T Consensus         2 igI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHH
Confidence            67899999999999998875

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK14528 adenylate kinase; Provisional

Probab=96.97  E-value=0.0008  Score=46.48  Aligned_cols=22  Identities=14%  Similarity=0.116  Sum_probs=19.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+|+++|+|||||||+.+++..
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~   23 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCE   23 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998864

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=96.97  E-value=0.0053  Score=41.90  Aligned_cols=85  Identities=20%  Similarity=0.266  Sum_probs=58.1

Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD  133 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~  133 (168)
                      ..+.+.++|+|+....  .....+..+|.++++...+ ..+...+ ..+.+.+.+.  +.|+.+|.||+|....      
T Consensus        91 ~~~d~viiDtpp~~~~--~~~~~l~~aD~vliv~~~~-~~~~~~~-~~~~~~l~~~--~~~~~vV~N~~~~~~~------  158 (179)
T cd03110          91 EGAELIIIDGPPGIGC--PVIASLTGADAALLVTEPT-PSGLHDL-ERAVELVRHF--GIPVGVVINKYDLNDE------  158 (179)
T ss_pred             cCCCEEEEECcCCCcH--HHHHHHHcCCEEEEEecCC-cccHHHH-HHHHHHHHHc--CCCEEEEEeCCCCCcc------
Confidence            4578899999976432  2234567899999999875 3455555 5666666653  4678899999987543      


Q ss_pred             CCCCCcccHHHHHHHHHHhCCcEEE
Q 030961          134 HPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                             ..++.+++.+.++. +++
T Consensus       159 -------~~~~~~~~~~~~~~-~vl  175 (179)
T cd03110         159 -------IAEEIEDYCEEEGI-PIL  175 (179)
T ss_pred             -------hHHHHHHHHHHcCC-CeE
Confidence                   23566777887776 543

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>PRK14529 adenylate kinase; Provisional

Probab=96.97  E-value=0.0008  Score=47.80  Aligned_cols=22  Identities=14%  Similarity=0.137  Sum_probs=19.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++|+++|+|||||||+..++..
T Consensus         1 m~I~l~G~PGsGK~T~a~~La~   22 (223)
T PRK14529          1 MNILIFGPNGSGKGTQGALVKK   22 (223)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999988764

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.96  E-value=0.0025  Score=41.52  Aligned_cols=23  Identities=22%  Similarity=0.231  Sum_probs=20.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      --+++.|+.|+|||||++.+...
T Consensus        23 ~~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        23 TVVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            35899999999999999998865

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.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.96  E-value=0.00072  Score=50.76  Aligned_cols=21  Identities=24%  Similarity=0.355  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      ++++|++|||||||++.+.+-
T Consensus        32 ~vllGPSGcGKSTlLr~IAGL   52 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGL   52 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999988764

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=96.96  E-value=0.0019  Score=47.70  Aligned_cols=102  Identities=20%  Similarity=0.272  Sum_probs=58.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc----------------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY----------------   69 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----------------   69 (168)
                      .+...++++|++|.|||+++.+|........ .+            +...+.+....+|..+..                
T Consensus        59 ~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~-d~------------~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~  125 (302)
T PF05621_consen   59 HRMPNLLIVGDSNNGKTMIIERFRRLHPPQS-DE------------DAERIPVVYVQMPPEPDERRFYSAILEALGAPYR  125 (302)
T ss_pred             cCCCceEEecCCCCcHHHHHHHHHHHCCCCC-CC------------CCccccEEEEecCCCCChHHHHHHHHHHhCcccC
Confidence            3557799999999999999999998653211 11            111234555566542211                


Q ss_pred             --------cccccccccCCcEEEEEEeCCCh---hHHHHHHHhHHHHHchhC--CCCcEEEEeeC
Q 030961           70 --------NRLRPLSYRGADVFVLAFSLVSR---ASYENVLKKWIPELQHYS--PGVPVVLVGTK  121 (168)
Q Consensus        70 --------~~~~~~~~~~~~~~i~v~d~~~~---~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK  121 (168)
                              .......++...+=++++|--+-   -+.... ...+..++...  -++|+|.+|++
T Consensus       126 ~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~q-r~~Ln~LK~L~NeL~ipiV~vGt~  189 (302)
T PF05621_consen  126 PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQ-REFLNALKFLGNELQIPIVGVGTR  189 (302)
T ss_pred             CCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHH-HHHHHHHHHHhhccCCCeEEeccH
Confidence                    11112234567777888884221   122222 44555555554  36899999864

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.96  E-value=0.00078  Score=44.65  Aligned_cols=21  Identities=19%  Similarity=0.240  Sum_probs=18.7

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      +++.|.+||||||+...+...
T Consensus         2 i~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhh
Confidence            688999999999999988764

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK06762 hypothetical protein; Provisional

Probab=96.95  E-value=0.00079  Score=45.44  Aligned_cols=23  Identities=17%  Similarity=0.212  Sum_probs=19.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-|++.|.+||||||+.+.|...
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999988653

>PHA00729 NTP-binding motif containing protein

Probab=96.95  E-value=0.00093  Score=47.40  Aligned_cols=24  Identities=25%  Similarity=0.433  Sum_probs=21.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ..+|++.|+||+|||+|+.++...
T Consensus        17 f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         17 FVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999998754

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.95  E-value=0.0009  Score=46.19  Aligned_cols=24  Identities=21%  Similarity=0.178  Sum_probs=21.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-.++++|++|+||||+++.+++.
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~   48 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAF   48 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            346899999999999999988764

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.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.92  E-value=0.00073  Score=47.37  Aligned_cols=20  Identities=25%  Similarity=0.587  Sum_probs=17.4

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      -+++|++|||||||++.|-.
T Consensus        36 TAlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          36 TALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            58999999999999987743

>PRK13695 putative NTPase; Provisional

Probab=96.92  E-value=0.00092  Score=45.57  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=19.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +++++.|.+|+|||||+..+.+
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998654

>PRK14526 adenylate kinase; Provisional

Probab=96.90  E-value=0.00096  Score=47.06  Aligned_cols=21  Identities=24%  Similarity=0.275  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      +++++|+|||||||+.+.+..
T Consensus         2 ~i~l~G~pGsGKsT~a~~La~   22 (211)
T PRK14526          2 KLVFLGPPGSGKGTIAKILSN   22 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            789999999999999998864

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.89  E-value=0.001  Score=45.40  Aligned_cols=23  Identities=17%  Similarity=0.120  Sum_probs=20.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+|+++|++|+||||+...+...
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~   27 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHH
Confidence            36999999999999999998753

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.89  E-value=0.0016  Score=45.80  Aligned_cols=25  Identities=20%  Similarity=0.207  Sum_probs=22.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+.+=|.+-|.+||||||+++++..
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~   30 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSE   30 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHH
Confidence            6678899999999999999998875

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.88  E-value=0.0017  Score=46.19  Aligned_cols=21  Identities=19%  Similarity=0.387  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -|+++|++|+|||||++.+.+
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            479999999999999998876

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=96.88  E-value=0.0008  Score=45.94  Aligned_cols=23  Identities=22%  Similarity=0.281  Sum_probs=16.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+++.|.+|+|||+|++++..
T Consensus        24 ~~~~ll~G~~G~GKT~ll~~~~~   46 (185)
T PF13191_consen   24 PRNLLLTGESGSGKTSLLRALLD   46 (185)
T ss_dssp             ---EEE-B-TTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999998764

>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=96.88  E-value=0.0012  Score=45.30  Aligned_cols=21  Identities=19%  Similarity=0.197  Sum_probs=18.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHh
Q 030961            9 IKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~   29 (168)
                      -.++++|+.|+|||||++.+.
T Consensus        22 ~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          22 VLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            368999999999999999875

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.

>PF05729 NACHT: NACHT domain

Probab=96.88  E-value=0.00099  Score=44.52  Aligned_cols=21  Identities=19%  Similarity=0.246  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      +++.|.+|+|||+++.++...
T Consensus         3 l~I~G~~G~GKStll~~~~~~   23 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQ   23 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            789999999999999988754

>PRK04040 adenylate kinase; Provisional

Probab=96.87  E-value=0.0011  Score=45.85  Aligned_cols=22  Identities=32%  Similarity=0.215  Sum_probs=19.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|++.|.||+||||+++.+..
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~   24 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALE   24 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            4689999999999999998854

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.87  E-value=0.0011  Score=45.43  Aligned_cols=21  Identities=19%  Similarity=0.314  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+.++|++|+|||||+|-+-+
T Consensus        27 ~vAi~GpSGaGKSTLLnLIAG   47 (231)
T COG3840          27 IVAILGPSGAGKSTLLNLIAG   47 (231)
T ss_pred             EEEEECCCCccHHHHHHHHHh
Confidence            689999999999999998755

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	168
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		4e-82
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		4e-81
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		2e-80
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		3e-78
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		1e-56
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		1e-56
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		1e-56
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		1e-56
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		2e-56
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		2e-56
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		2e-56
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		2e-56
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		2e-56
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		1e-55
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		1e-55
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		1e-55
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		1e-55
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		1e-55
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		1e-55
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		2e-55
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		2e-55
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		2e-55
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		2e-55
1mh1_A	186	Small G-Protein Length = 186		2e-55
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		2e-55
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		3e-55
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		3e-55
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		4e-55
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		4e-55
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		4e-55
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		5e-55
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		2e-54
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		5e-54
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		9e-49
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		3e-48
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		4e-48
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		4e-48
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		4e-48
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		5e-48
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		5e-48
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		5e-48
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		5e-48
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		6e-48
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		6e-48
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		6e-48
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		6e-48
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		7e-48
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		7e-48
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		8e-48
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		1e-47
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		1e-47
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		2e-47
2kb0_A	178	Cdc42(T35a) Length = 178		2e-47
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		3e-47
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		4e-47
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		4e-47
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		5e-47
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		2e-44
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		2e-44
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		2e-44
1s1c_A	183	Crystal Structure Of The Complex Between The Human		2e-44
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		2e-44
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		2e-44
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		2e-44
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		3e-44
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		3e-44
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		7e-44
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		7e-44
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		8e-44
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		8e-44
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		9e-44
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		1e-43
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		2e-43
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		2e-43
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		3e-43
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		4e-43
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		8e-43
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		2e-42
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		2e-38
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		6e-37
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		8e-37
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		1e-30
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		2e-30
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		3e-30
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		1e-27
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		1e-27
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		2e-27
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		7e-19
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		1e-18
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		4e-18
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		4e-18
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		5e-18
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		1e-17
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		2e-17
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		2e-17
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		3e-17
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		3e-17
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		3e-17
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		3e-17
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		4e-17
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		4e-17
2efc_B	181	Ara7-GdpATVPS9A Length = 181		5e-17
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		5e-17
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		5e-17
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		5e-17
4fmc_B	171	Espg-Rab1 Complex Length = 171		6e-17
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		6e-17
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		6e-17
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		6e-17
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		6e-17
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		7e-17
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		7e-17
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		7e-17
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		7e-17
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		7e-17
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		7e-17
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		7e-17
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		8e-17
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		8e-17
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		8e-17
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		9e-17
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		9e-17
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		9e-17
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-16
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		1e-16
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		1e-16
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		1e-16
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		1e-16
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		2e-16
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		2e-16
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		2e-16
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		2e-16
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		3e-16
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		3e-16
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		3e-16
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		3e-16
4fmc_F	117	Espg-Rab1 Complex Length = 117		3e-16
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		5e-16
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		5e-16
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		9e-16
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		1e-15
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		2e-15
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		2e-15
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		2e-15
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		2e-15
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		2e-15
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		2e-15
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		2e-15
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		2e-15
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		3e-15
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		3e-15
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		3e-15
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		3e-15
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		3e-15
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		3e-15
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		4e-15
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		5e-15
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		5e-15
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		6e-15
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		6e-15
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		6e-15
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		6e-15
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		8e-15
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		8e-15
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		8e-15
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		9e-15
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		1e-14
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		1e-14
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		1e-14
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		1e-14
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		2e-14
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		2e-14
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		2e-14
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		2e-14
1vg1_A	185	Gdp-bound Rab7 Length = 185		5e-14
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		5e-14
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		5e-14
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		5e-14
1wq1_R	166	Ras-Rasgap Complex Length = 166		5e-14
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		5e-14
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		5e-14
6q21_A	171	Molecular Switch For Signal Transduction: Structura		5e-14
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		5e-14
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		6e-14
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		6e-14
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		6e-14
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		6e-14
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		6e-14
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		7e-14
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		7e-14
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		7e-14
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		7e-14
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		8e-14
4q21_A	189	Molecular Switch For Signal Transduction: Structura		8e-14
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		9e-14
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		1e-13
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		1e-13
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		1e-13
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		1e-13
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		1e-13
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		1e-13
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		1e-13
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		1e-13
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		1e-13
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		1e-13
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		1e-13
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		1e-13
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		1e-13
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		1e-13
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		1e-13
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		2e-13
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		2e-13
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		2e-13
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-13
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-13
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		2e-13
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-13
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		2e-13
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		2e-13
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		3e-13
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		3e-13
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		3e-13
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		4e-13
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		4e-13
2bku_A	177	Kap95p:rangtp Complex Length = 177		4e-13
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		4e-13
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		5e-13
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		5e-13
1byu_A	216	Canine Gdp-Ran Length = 216		5e-13
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		5e-13
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		5e-13
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		6e-13
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		6e-13
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		6e-13
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		7e-13
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		1e-12
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		1e-12
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		1e-12
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		1e-12
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		2e-12
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		2e-12
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		2e-12
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		2e-12
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		2e-12
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		3e-12
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		4e-12
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		5e-12
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		5e-12
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		5e-12
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		5e-12
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		5e-12
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		5e-12
3icq_B	171	Karyopherin Nuclear State Length = 171		6e-12
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		7e-12
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		8e-12
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		1e-11
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		1e-11
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		2e-11
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		3e-11
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		4e-11
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		4e-11
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		5e-11
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		5e-11
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		6e-11
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		4e-10
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		5e-10
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		5e-10
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		6e-10
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		9e-10
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		1e-09
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		1e-09
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		2e-09
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		2e-09
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		5e-09
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		2e-08
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		5e-08
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		4e-07
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		1e-06
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		8e-06
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		1e-05
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		2e-05
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		4e-05
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		5e-05
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		6e-05
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		7e-05
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		3e-04
3d6t_B	171	Structure Of The Roc Domain From The Parkinson's Di		7e-04
2zej_A	184	Structure Of The Roc Domain From The Parkinson's Di		7e-04
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		9e-04

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score =  300 bits (767), Expect = 4e-82,   Method: Compositional matrix adjust.
 Identities = 136/163 (83%), Positives = 150/163 (92%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           SASRFIKCVTVGDGAVGKTCMLI YTSN FPTDY+PTVFDNFSANVV +G TVNLGLWDT
Sbjct: 2   SASRFIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVVDGNTVNLGLWDT 61
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP++LVGTKLD
Sbjct: 62  AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLD 121
Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+DK +  DHPG VP+TT QGEEL+K IG+  YIECSSKTQQ
Sbjct: 122 LRDDKQFFIDHPGAVPITTNQGEELKKLIGSPIYIECSSKTQQ 164

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score =  296 bits (757), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 135/163 (82%), Positives = 149/163 (91%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           SASRFIKCVTVGDGAVGKTC+LI YTSN FPTDY+PTVFDNFSANVV  G TVNLGLWDT
Sbjct: 4   SASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVNGATVNLGLWDT 63
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP+VLVGTKLD
Sbjct: 64  AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLD 123
Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+DK +  DHPG VP+TT QGEEL+K IGA  YIECSSK+Q+
Sbjct: 124 LRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQE 166

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score =  294 bits (752), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 132/163 (80%), Positives = 149/163 (91%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           S +RFIKCVTVGDGAVGKTCMLI YT N FPTDY+PTVFDNFSANVV +G+TVNLGLWDT
Sbjct: 2   STARFIKCVTVGDGAVGKTCMLISYTGNTFPTDYVPTVFDNFSANVVVDGSTVNLGLWDT 61
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYEN+ KKW+PEL+HY+PG+P+VLVGTKLD
Sbjct: 62  AGQEDYNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPELKHYAPGIPIVLVGTKLD 121
Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+DK +L DHPG   +TTAQGEELRK IGA  Y+ECSSKTQQ
Sbjct: 122 LRDDKQFLKDHPGAASITTAQGEELRKMIGAVRYLECSSKTQQ 164

>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 =  286 bits (733), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 133/163 (81%), Positives = 149/163 (91%), Gaps = 2/163 (1%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           S S+FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV  +G  VNLGLWDT
Sbjct: 5   SVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVAVDGQIVNLGLWDT 64
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDY+RLRPLSYRGAD+FVLAFSL+S+ASYENVLKKW+PEL+ ++P VP+VLVGTKLD
Sbjct: 65  AGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLD 124
Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+DK YLADH  +  +T+ QGEELRKQIGA+ YIECSSKTQQ
Sbjct: 125 LRDDKGYLADHTNV--ITSTQGEELRKQIGAAAYIECSSKTQQ 165

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score =  215 bits (547), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 102/167 (61%), Positives = 126/167 (75%), Gaps = 2/167 (1%)
Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
            SS  + IKCV VGDGAVGK C+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLW
Sbjct: 4   GSSGMQAIKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLW 63
Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK 121
           DTAGQEDY+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTK
Sbjct: 64  DTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTK 123
Query: 122 LDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LDLR+DK  +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 124 LDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 170

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score =  215 bits (547), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 101/160 (63%), Positives = 124/160 (77%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 23  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 82
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 83  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 142
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 143 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 182

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score =  214 bits (546), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 101/160 (63%), Positives = 124/160 (77%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 124 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 163

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score =  214 bits (546), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 101/160 (63%), Positives = 124/160 (77%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 124 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 163

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score =  214 bits (546), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 101/160 (63%), Positives = 124/160 (77%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 124 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 163

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score =  214 bits (546), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 101/160 (63%), Positives = 124/160 (77%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 124 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 163

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score =  214 bits (545), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 101/160 (63%), Positives = 124/160 (77%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 124 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 163

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score =  214 bits (545), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 101/160 (63%), Positives = 124/160 (77%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 124 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 163

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score =  214 bits (544), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 101/160 (63%), Positives = 124/160 (77%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 90
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 91  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 150
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 151 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 190

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score =  212 bits (539), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 100/160 (62%), Positives = 123/160 (76%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N  P +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNALPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 90
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 91  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 150
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 151 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 190

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score =  211 bits (538), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 100/160 (62%), Positives = 122/160 (76%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +   VNLGLWDTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDSKPVNLGLWDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS ASYENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPIILVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  L K+I +  Y+ECS+ TQ+
Sbjct: 124 DTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQR 163

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score =  211 bits (538), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 101/167 (60%), Positives = 125/167 (74%), Gaps = 2/167 (1%)
Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
            S   + IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLW
Sbjct: 1   GSKLMQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLW 60
Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK 121
           DTAGQEDY+RLRPLSY   DV ++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTK
Sbjct: 61  DTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTK 120
Query: 122 LDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LDLR+DK  +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 121 LDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 167

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score =  211 bits (538), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 100/160 (62%), Positives = 123/160 (76%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAG ED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 124 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 163

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score =  211 bits (538), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 100/160 (62%), Positives = 123/160 (76%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAG ED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 124 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 163

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score =  211 bits (537), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 100/160 (62%), Positives = 123/160 (76%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAG ED
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLED 66
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 67  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 126
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 127 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 166

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score =  211 bits (537), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 100/160 (62%), Positives = 123/160 (76%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DV ++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 124 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 163

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score =  211 bits (537), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 100/160 (62%), Positives = 123/160 (76%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAG ED
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLED 90
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 91  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 150
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 151 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 190

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score =  211 bits (537), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 100/160 (62%), Positives = 123/160 (76%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DV ++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 124 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 163

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score =  211 bits (536), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 100/160 (62%), Positives = 123/160 (76%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N F  +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 14  IKCVVVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 73
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 74  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 133
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 134 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 173

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score =  211 bits (536), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 100/160 (62%), Positives = 123/160 (76%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 65
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DV ++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 66  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK 125
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 126 DTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 165

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score =  210 bits (535), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 99/166 (59%), Positives = 124/166 (74%), Gaps = 2/166 (1%)
Query: 3   SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWD 62
            +A   IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWD
Sbjct: 150 EAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 209
Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKL 122
           TAG EDY+RLRPLSY   DVF++ FSLVS AS+ +V  KW PE++H+ P  P++LVGTKL
Sbjct: 210 TAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGTKL 269
Query: 123 DLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           DLR+DK  +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 270 DLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 315

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score =  210 bits (535), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 99/166 (59%), Positives = 124/166 (74%), Gaps = 2/166 (1%)
Query: 3   SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWD 62
            +A   IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWD
Sbjct: 150 EAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 209
Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKL 122
           TAG EDY+RLRPLSY   DVF++ FSLVS AS+ +V  KW PE++H+ P  P++LVGTKL
Sbjct: 210 TAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGTKL 269
Query: 123 DLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           DLR+DK  +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 270 DLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 315

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score =  210 bits (535), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 99/168 (58%), Positives = 125/168 (74%), Gaps = 2/168 (1%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           +  +A   IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGL
Sbjct: 148 IDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGL 207
Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAG EDY+RLRPLSY   DVF++ FSLVS AS+ +V  KW PE++H+ P  P++LVGT
Sbjct: 208 WDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGT 267
Query: 121 KLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLR+DK  +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 268 KLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 315

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score =  210 bits (534), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 99/160 (61%), Positives = 124/160 (77%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 64
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 65  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPILLVGTKLDLRDDK 124
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + ++IG+  Y+ECS+ TQ+
Sbjct: 125 DTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQR 164

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score =  210 bits (534), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 99/160 (61%), Positives = 124/160 (77%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPILLVGTKLDLRDDK 123
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + ++IG+  Y+ECS+ TQ+
Sbjct: 124 DTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQR 163

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score =  209 bits (533), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 99/160 (61%), Positives = 124/160 (77%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 64
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 65  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPILLVGTKLDLRDDK 124
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  + ++IG+  Y+ECS+ TQ+
Sbjct: 125 DTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQR 164

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score =  209 bits (533), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 101/167 (60%), Positives = 124/167 (74%), Gaps = 2/167 (1%)
Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
            S  S+ IKCV VGD AVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +   VNLGLW
Sbjct: 3   GSGGSQAIKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDSKPVNLGLW 62
Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK 121
           DTAGQEDY+RLRPLSY   DVF++ FSLVS ASYENV  KW PE++H+ P  P++LVGTK
Sbjct: 63  DTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPIILVGTK 122
Query: 122 LDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LDLR+DK  +       L P+T  QG  L K+I +  Y+ECS+ TQ+
Sbjct: 123 LDLRDDKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQR 169

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score =  207 bits (527), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 99/160 (61%), Positives = 121/160 (75%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGD AVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +   VNLGLWDTAGQED
Sbjct: 11  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDSKPVNLGLWDTAGQED 70
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FSLVS ASYENV  KW PE++H+ P  P++LVGTKLDLR+DK
Sbjct: 71  YDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPIILVGTKLDLRDDK 130
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +       L P+T  QG  L K+I +  Y+ECS+ TQ+
Sbjct: 131 DTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQR 170

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score =  206 bits (524), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 104/179 (58%), Positives = 127/179 (70%), Gaps = 21/179 (11%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTAGQED
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED 65
Query: 69  YNRLRPLSY--------------RG-----ADVFVLAFSLVSRASYENVLKKWIPELQHY 109
           Y+RLRPLSY              RG     ADVF++ FSLVS AS+ENV  KW PE++H+
Sbjct: 66  YDRLRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVRHH 125
Query: 110 SPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            P  P++LVGTKLDLR+DK  +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 126 CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 184

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score =  189 bits (479), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 90/166 (54%), Positives = 122/166 (73%), Gaps = 4/166 (2%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           SA + IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DT
Sbjct: 6   SAMQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDT 65
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDY+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++D
Sbjct: 66  AGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQID 125
Query: 124 LREDK---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+D      LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 126 LRDDPSTIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 170

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score =  187 bits (474), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 87/164 (53%), Positives = 119/164 (72%), Gaps = 2/164 (1%)
Query: 5   ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTA 64
            S+ IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTA
Sbjct: 4   GSQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTA 63
Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDL 124
           GQEDY+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DL
Sbjct: 64  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDL 123
Query: 125 REDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           R+D   +         P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 RDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQK 167

>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 =  186 bits (473), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 89/168 (52%), Positives = 121/168 (72%), Gaps = 4/168 (2%)
Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
            SS  + IKCV VGDGAVGK C+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+
Sbjct: 4   GSSGMQTIKCVVVGDGAVGKNCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLF 63
Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK 121
           DTAGQEDY+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT+
Sbjct: 64  DTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQ 123
Query: 122 LDLREDK---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +DLR+D      LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 IDLRDDPSTIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 170

>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 =  186 bits (473), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 88/161 (54%), Positives = 119/161 (73%), Gaps = 4/161 (2%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 ---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 163

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score =  186 bits (473), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 88/161 (54%), Positives = 119/161 (73%), Gaps = 4/161 (2%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 14  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 73
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 74  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 133
Query: 129 ---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 134 STIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 173

>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 =  186 bits (473), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 88/161 (54%), Positives = 119/161 (73%), Gaps = 4/161 (2%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 64
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 65  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 124
Query: 129 ---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 125 STIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 164

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score =  186 bits (472), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 88/161 (54%), Positives = 119/161 (73%), Gaps = 4/161 (2%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 ---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 163

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score =  186 bits (472), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 88/161 (54%), Positives = 119/161 (73%), Gaps = 4/161 (2%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 ---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 163

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score =  186 bits (472), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 89/166 (53%), Positives = 121/166 (72%), Gaps = 4/166 (2%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           S  + IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DT
Sbjct: 1   SHMQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDT 60
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDY+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++D
Sbjct: 61  AGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQID 120
Query: 124 LREDK---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+D      LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 121 LRDDPSTIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 165

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score =  186 bits (472), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 89/166 (53%), Positives = 121/166 (72%), Gaps = 4/166 (2%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           S  + IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DT
Sbjct: 2   SHMQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDT 61
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDY+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++D
Sbjct: 62  AGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQID 121
Query: 124 LREDK---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+D      LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 122 LRDDPSTIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 166

>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 =  186 bits (472), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 89/166 (53%), Positives = 121/166 (72%), Gaps = 4/166 (2%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           S  + IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DT
Sbjct: 2   SHMQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDT 61
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDY+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++D
Sbjct: 62  AGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQID 121
Query: 124 LREDK---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+D      LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 122 LRDDPSTIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 166

>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 =  186 bits (472), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 86/160 (53%), Positives = 117/160 (73%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +         P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQK 163

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score =  186 bits (472), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 86/160 (53%), Positives = 117/160 (73%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +         P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQK 163

>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 =  186 bits (471), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 86/160 (53%), Positives = 117/160 (73%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 65
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 66  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 125
Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +         P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 126 STIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQK 165

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score =  186 bits (471), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 86/160 (53%), Positives = 117/160 (73%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +         P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQR 163

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score =  186 bits (471), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 86/160 (53%), Positives = 117/160 (73%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +         P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQR 163

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score =  185 bits (470), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 88/161 (54%), Positives = 118/161 (73%), Gaps = 4/161 (2%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V   G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVXIGGEPYTLGLFDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 ---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 163

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score =  185 bits (469), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 84/161 (52%), Positives = 121/161 (75%), Gaps = 2/161 (1%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQE 67
            +KCV VGDGAVGKTC+L+ Y ++ FP +Y+PTVFD+++ +V   G    LGL+DTAGQE
Sbjct: 18  MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQE 77
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           DY+RLRPLSY   DVF++ FS+V+ AS++NV ++W+PEL+ Y+P VP +L+GT++DLR+D
Sbjct: 78  DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDD 137
Query: 128 KHYLADHPGL--VPVTTAQGEELRKQIGASYYIECSSKTQQ 166
              LA    +   P+   QG++L K+IGA  Y+ECS+ TQ+
Sbjct: 138 PKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQK 178

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score =  184 bits (468), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 86/160 (53%), Positives = 116/160 (72%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLRDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +         P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQK 163

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score =  184 bits (467), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 85/160 (53%), Positives = 116/160 (72%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+P VFDN++  V+  G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPAVFDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +         P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQK 163

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score =  184 bits (466), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 85/160 (53%), Positives = 116/160 (72%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NK P++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKLPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +         P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQK 163

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score =  183 bits (464), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 87/161 (54%), Positives = 118/161 (73%), Gaps = 4/161 (2%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAG ED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGLED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 ---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 163

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score =  183 bits (464), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 87/161 (54%), Positives = 118/161 (73%), Gaps = 4/161 (2%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGD AVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDVAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123
Query: 129 ---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 163

>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 =  183 bits (464), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 87/161 (54%), Positives = 118/161 (73%), Gaps = 4/161 (2%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAG ED
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGLED 67
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 68  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 127
Query: 129 ---HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                LA +    P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 128 STIEKLAKN-KQKPITPETAEKLARDLKAVKYVECSALTQK 167

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score =  174 bits (442), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 81/164 (49%), Positives = 114/164 (69%), Gaps = 2/164 (1%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           SA+   K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDT
Sbjct: 5   SAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDT 64
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDY+RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K D
Sbjct: 65  AGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKD 124
Query: 124 LREDKHYLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
           LR D+H   +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 125 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 168

>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 =  174 bits (441), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 79/158 (50%), Positives = 111/158 (70%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 68
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 69  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 128
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 129 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 166

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score =  174 bits (441), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 78/159 (49%), Positives = 113/159 (71%), Gaps = 2/159 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDY 86
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR+D+H
Sbjct: 87  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFXPNVPIILVGNKKDLRQDEH 146
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQQ 166
              +   +   PV + +G ++  +I A  Y+ECS+KT++
Sbjct: 147 TRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKE 185

>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 =  174 bits (441), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 81/166 (48%), Positives = 114/166 (68%), Gaps = 2/166 (1%)
Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
            S A+   K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LW
Sbjct: 1   GSMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALW 60
Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK 121
           DTAGQEDY+RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K
Sbjct: 61  DTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNK 120
Query: 122 LDLREDKHYLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
            DLR D+H   +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 121 KDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 166

>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 =  174 bits (441), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 79/158 (50%), Positives = 111/158 (70%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 8   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 67
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 68  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 127
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 128 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 165

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score =  174 bits (441), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 79/158 (50%), Positives = 111/158 (70%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 7   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 66
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 67  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 126
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 127 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 164

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score =  174 bits (441), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 79/158 (50%), Positives = 111/158 (70%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 10  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 69
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 70  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 129
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 130 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 167

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score =  174 bits (440), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 78/159 (49%), Positives = 113/159 (71%), Gaps = 2/159 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDY 86
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR+D+H
Sbjct: 87  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEH 146
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQQ 166
              +   +   PV + +G ++  +I A  Y+ECS+KT++
Sbjct: 147 TRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKE 185

>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 =  174 bits (440), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 79/158 (50%), Positives = 111/158 (70%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 68
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 69  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 128
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 129 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 166

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score =  172 bits (437), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 78/159 (49%), Positives = 112/159 (70%), Gaps = 2/159 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI  + ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDY 66
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR+D+H
Sbjct: 67  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEH 126
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQQ 166
              +   +   PV + +G ++  +I A  Y+ECS+KT++
Sbjct: 127 TRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKE 165

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score =  172 bits (436), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 79/158 (50%), Positives = 110/158 (69%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI  + ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 66
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 67  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 126
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 127 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 164

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score =  172 bits (436), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 79/158 (50%), Positives = 110/158 (69%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI  + ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 66
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 67  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 126
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 127 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 164

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score =  172 bits (436), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 79/158 (50%), Positives = 110/158 (69%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI  + ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 66
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 67  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 126
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 127 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 164

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score =  172 bits (436), Expect = 9e-44,   Method: Compositional matrix adjust.
 Identities = 79/158 (50%), Positives = 110/158 (69%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI  + ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 64
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 65  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 124
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 125 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 162

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score =  172 bits (435), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 79/158 (50%), Positives = 110/158 (69%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI  + ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 64
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 65  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 124
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 125 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 162

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score =  171 bits (433), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 78/158 (49%), Positives = 110/158 (69%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGD A GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 7   KLVIVGDVACGKTCLLIVFSKDQFPAVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 66
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +R RPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 67  DRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 126
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV  A+G ++  +IGA  Y+ECS+KT+
Sbjct: 127 TARELAKMKQEPVKPAEGRDMANRIGAFGYMECSAKTK 164

>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 =  171 bits (432), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 80/165 (48%), Positives = 113/165 (68%), Gaps = 2/165 (1%)
Query: 3   SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWD 62
           S A+   K V VGD A GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWD
Sbjct: 1   SMAAIRKKLVIVGDVACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWD 60
Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKL 122
           TAGQEDY+RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K 
Sbjct: 61  TAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKK 120
Query: 123 DLREDKHYLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
           DLR D+H   +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 121 DLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 165

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score =  170 bits (431), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 78/159 (49%), Positives = 110/159 (69%), Gaps = 2/159 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQEDY
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDY 86
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW+PE++H+ P VP++LV  K DLR D+H
Sbjct: 87  DRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEH 146
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQQ 166
              +   +   PV T  G  +  +I A  Y+ECS+KT++
Sbjct: 147 VRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKE 185

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score =  170 bits (430), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 81/160 (50%), Positives = 114/160 (71%), Gaps = 2/160 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           +KCV VGDGAVGKT +++ YT+N +PT+YIPT FDNFSA V  +G  V L L DTAGQ++
Sbjct: 21  VKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDE 80
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           +++LRPL Y   D+F+L FS+VS +S++NV +KW+PE++ + P  P++LVGT+ DLRED 
Sbjct: 81  FDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLREDV 140
Query: 129 HYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             L   D     PV     + L ++I A+ YIECS+ TQ+
Sbjct: 141 KVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQK 180

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score =  169 bits (427), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 78/158 (49%), Positives = 109/158 (68%), Gaps = 2/158 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI  + ++FP  Y+PTVF+N+ A++  +G  V L LWDTAG EDY
Sbjct: 10  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGLEDY 69
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+H
Sbjct: 70  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 129
Query: 130 YLADHPGLV--PVTTAQGEELRKQIGASYYIECSSKTQ 165
              +   +   PV   +G ++  +IGA  Y+ECS+KT+
Sbjct: 130 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK 167

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score =  167 bits (424), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 81/157 (51%), Positives = 108/157 (68%), Gaps = 2/157 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDGA GKTC+LI  +  +FP  Y+PTVF+N+ A+V  +G  V L LWDTAGQEDY
Sbjct: 12  KLVIVGDGACGKTCLLIVNSKGQFPEVYVPTVFENYVADVEVDGRRVELALWDTAGQEDY 71
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           +RLRPLSY  ++V ++ FS+    S ENV +KWI E+ H+  GVP++LVG K+DLR D  
Sbjct: 72  DRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEVLHFCQGVPIILVGCKVDLRNDPQ 131
Query: 130 YLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            +      G  PVT+ +G+ +  QIGA+ Y ECS+KT
Sbjct: 132 TIEQLRQEGQQPVTSQEGQSVADQIGATGYYECSAKT 168

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 71/164 (43%), Positives = 104/164 (63%), Gaps = 2/164 (1%)
Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
           A    R +K V VGDG  GKT +L+ +    FP  Y PTVF+ +  N+  +G  V+L +W
Sbjct: 28  APPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVNLQVKGKPVHLHIW 87
Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK 121
           DTAGQ+DY+RLRPL Y  A V +L F + S  S++N+  +W PE+ H+   VP+++VG K
Sbjct: 88  DTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCK 147
Query: 122 LDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            DLR+DK  +      GL PVT  +G+E+ + +GA  Y+ECS++
Sbjct: 148 TDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSAR 191

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score =  149 bits (376), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 73/159 (45%), Positives = 105/159 (66%), Gaps = 8/159 (5%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           +  + +K V VGDGAVGKTC+L+ ++  + PT Y+PTVF+NFS  +  +     L LWDT
Sbjct: 18  NGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMKYKNEEFILHLWDT 77
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQE+Y+RLRPLSY  +DV +L F++ +R S++N+  KW PE++HY      VLVG K+D
Sbjct: 78  AGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVD 137
Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS 162
           LR+D        G   VT  +G++L +++G   YIE SS
Sbjct: 138 LRKD--------GSDDVTKQEGDDLCQKLGCVAYIEASS 168

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score =  149 bits (376), Expect = 8e-37,   Method: Compositional matrix adjust.
 Identities = 73/159 (45%), Positives = 105/159 (66%), Gaps = 8/159 (5%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           +  + +K V VGDGAVGKTC+L+ ++  + PT Y+PTVF+NFS  +  +     L LWDT
Sbjct: 19  NGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMKYKNEEFILHLWDT 78
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQE+Y+RLRPLSY  +DV +L F++ +R S++N+  KW PE++HY      VLVG K+D
Sbjct: 79  AGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVD 138
Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS 162
           LR+D        G   VT  +G++L +++G   YIE SS
Sbjct: 139 LRKD--------GSDDVTKQEGDDLCQKLGCVAYIEASS 169

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score =  128 bits (322), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 64/158 (40%), Positives = 96/158 (60%), Gaps = 4/158 (2%)
Query: 9   IKC--VTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
           +KC  V VGD   GKT +L  +  + FP +Y+PTVF+N++A+   +   + L LWDT+G 
Sbjct: 22  VKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGS 81
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE 126
             Y+ +RPLSY  +D  ++ F +    + ++VLKKW  E+Q + P   ++LVG K DLR 
Sbjct: 82  PYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT 141
Query: 127 DKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSS 162
           D   L +  +    PV+  QG  + KQIGA+ YIECS+
Sbjct: 142 DVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA 179

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score =  128 bits (321), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 64/162 (39%), Positives = 99/162 (61%), Gaps = 4/162 (2%)
Query: 5   ASRFIKC--VTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWD 62
           +++ +KC  V VGD   GKT +L  +  + FP +Y+PTVF+N++A+   +   + L LWD
Sbjct: 2   SNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWD 61
Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKL 122
           T+G   Y+ +RPLSY  +D  ++ F +    + ++VLKKW  E+Q + P   ++LVG K 
Sbjct: 62  TSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKS 121
Query: 123 DLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSS 162
           DLR D   L +  +    PV+  QG  + KQIGA+ YIECS+
Sbjct: 122 DLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA 163

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score =  127 bits (319), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 64/158 (40%), Positives = 96/158 (60%), Gaps = 4/158 (2%)
Query: 9   IKC--VTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
           +KC  V VGD   GKT +L  +  + FP +Y+PTVF+N++A+   +   + L LWDT+G 
Sbjct: 27  VKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGS 86
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE 126
             Y+ +RPLSY  +D  ++ F +    + ++VLKKW  E+Q + P   ++LVG K DLR 
Sbjct: 87  PYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT 146
Query: 127 DKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSS 162
           D   L +  +    PV+  QG  + KQIGA+ YIECS+
Sbjct: 147 DVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA 184

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score =  118 bits (296), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 62/159 (38%), Positives = 89/159 (55%), Gaps = 2/159 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGD   GKT ML     + +P  Y+PTVF+N++A +  E   V L LWDT+G   Y
Sbjct: 13  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSPYY 72
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           + +RPL Y  +D  +L F +    + ++ LKKW  E+  Y P   V+L+G K DLR D  
Sbjct: 73  DNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLS 132
Query: 130 YLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            L +  H    P++  QG  + KQ+GA  Y+E S+ T +
Sbjct: 133 TLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSE 171

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score =  118 bits (296), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 62/159 (38%), Positives = 89/159 (55%), Gaps = 2/159 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGD   GKT ML     + +P  Y+PTVF+N++A +  E   V L LWDT+G   Y
Sbjct: 29  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSPYY 88
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           + +RPL Y  +D  +L F +    + ++ LKKW  E+  Y P   V+L+G K DLR D  
Sbjct: 89  DNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLS 148
Query: 130 YLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            L +  H    P++  QG  + KQ+GA  Y+E S+ T +
Sbjct: 149 TLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSE 187

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score =  118 bits (296), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 62/159 (38%), Positives = 89/159 (55%), Gaps = 2/159 (1%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGD   GKT ML     + +P  Y+PTVF+N++A +  E   V L LWDT+G   Y
Sbjct: 12  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSPYY 71
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
           + +RPL Y  +D  +L F +    + ++ LKKW  E+  Y P   V+L+G K DLR D  
Sbjct: 72  DNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLS 131
Query: 130 YLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            L +  H    P++  QG  + KQ+GA  Y+E S+ T +
Sbjct: 132 TLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSE 170

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 89.7 bits (221), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 53/159 (33%), Positives = 83/159 (52%), Gaps = 14/159 (8%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K + +GD  VGK+C+L+ +  + +   YI T+  +F    ++ E  TV L +WDTAGQ
Sbjct: 9   LFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQ 68
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLR 125
           E +  +    YRGA   ++ + +  R S++NV K+WI E+  Y+   V  +LVG K DL 
Sbjct: 69  ERFRTITSSYYRGAHGIIIVYDVTDRDSFDNV-KQWIQEIDRYAMENVNKLLVGNKCDLV 127
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
             +           VT+ +G EL    G   +IE S+K 
Sbjct: 128 SKR----------VVTSDEGRELADSHGIK-FIETSAKN 155

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 89.0 bits (219), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 58/168 (34%), Positives = 88/168 (52%), Gaps = 18/168 (10%)
Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGL 60
            S  S  +K + +GDG VGK+ ++  Y +NKF +    T+   F + ++  +G  V L +
Sbjct: 1   GSGKSLLLKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQI 60
Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-----PGVPV 115
           WDTAGQE +  LR   YRGAD  +L FS+  R S+EN L  W  E  +Y+        P 
Sbjct: 61  WDTAGQERFKSLRTPFYRGADCCLLTFSVDDRQSFEN-LGNWQKEFIYYADVKDPEHFPF 119
Query: 116 VLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           V++G K+D +ED+           VTT + +    + G   Y+E S+K
Sbjct: 120 VVLGNKVD-KEDRQ----------VTTEEAQTWCMENGDYPYLETSAK 156

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 87.0 bits (214), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 48/150 (32%), Positives = 83/150 (55%), Gaps = 13/150 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQED 68
           K V +G+G VGKT +++ Y  NKF   +I T+  +F +  +   G  VNL +WDTAGQE 
Sbjct: 8   KVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQER 67
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           ++ L P+ YR ++  +L + +    S++ V K W+ EL+      + + +VG K+DL ++
Sbjct: 68  FHALGPIYYRDSNGAILVYDITDEDSFQKV-KNWVKELRKMLGNEICLCIVGNKIDLEKE 126
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYY 157
           +H          V+  + E   + +GA +Y
Sbjct: 127 RH----------VSIQEAESYAESVGAKHY 146

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 87.0 bits (214), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 48/150 (32%), Positives = 83/150 (55%), Gaps = 13/150 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQED 68
           K V +G+G VGKT +++ Y  NKF   +I T+  +F +  +   G  VNL +WDTAGQE 
Sbjct: 8   KVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQER 67
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           ++ L P+ YR ++  +L + +    S++ V K W+ EL+      + + +VG K+DL ++
Sbjct: 68  FHALGPIYYRDSNGAILVYDITDEDSFQKV-KNWVKELRKMLGNEICLCIVGNKIDLEKE 126
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYY 157
           +H          V+  + E   + +GA +Y
Sbjct: 127 RH----------VSIQEAESYAESVGAKHY 146

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 87.0 bits (214), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 48/150 (32%), Positives = 83/150 (55%), Gaps = 13/150 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQED 68
           K V +G+G VGKT +++ Y  NKF   +I T+  +F +  +   G  VNL +WDTAGQE 
Sbjct: 22  KVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQER 81
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           ++ L P+ YR ++  +L + +    S++ V K W+ EL+      + + +VG K+DL ++
Sbjct: 82  FHALGPIYYRDSNGAILVYDITDEDSFQKV-KNWVKELRKMLGNEICLCIVGNKIDLEKE 140
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYY 157
           +H          V+  + E   + +GA +Y
Sbjct: 141 RH----------VSIQEAESYAESVGAKHY 160

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 85.5 bits (210), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 52/161 (32%), Positives = 82/161 (50%), Gaps = 15/161 (9%)
Query: 5   ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDT 63
            S  +K + +GD  VGK+C+L+ +  +KF   +I T+  +F    V   G  V L LWDT
Sbjct: 4   GSSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDT 63
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKL 122
           AGQE +  +    YRGA   +L + +    ++ N+ K+W   + +H +    ++LVG K 
Sbjct: 64  AGQERFRTITTAYYRGAMGIILVYDVTDERTFTNI-KQWFKTVNEHANDEAQLLLVGNKS 122
Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           D+               VT  QGE L K++G   +IE S+K
Sbjct: 123 DMETR-----------VVTADQGEALAKELGIP-FIESSAK 151

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 85.1 bits (209), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 55/169 (32%), Positives = 87/169 (51%), Gaps = 19/169 (11%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLG 59
           MA  +S F K + +GDG VGK+ ++  Y +NKF T    T+   F + ++  +G  V + 
Sbjct: 1   MAGKSSLF-KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQ 59
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-----PGVP 114
           +WDTAGQE +  LR   YRG+D  +L FS+    S++N L  W  E  +Y+        P
Sbjct: 60  IWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQN-LSNWKKEFIYYADVKEPESFP 118
Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            V++G K+D+ E +           V+T + +   +  G   Y E S+K
Sbjct: 119 FVILGNKIDISERQ-----------VSTEEAQAWCRDNGDYPYFETSAK 156

>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 = 84.7 bits (208), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 55/169 (32%), Positives = 87/169 (51%), Gaps = 19/169 (11%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLG 59
           MA  +S F K + +GDG VGK+ ++  Y +NKF T    T+   F + ++  +G  V + 
Sbjct: 3   MAGKSSLF-KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQ 61
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-----PGVP 114
           +WDTAGQE +  LR   YRG+D  +L FS+    S++N L  W  E  +Y+        P
Sbjct: 62  IWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQN-LSNWKKEFIYYADVKEPESFP 120
Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            V++G K+D+ E +           V+T + +   +  G   Y E S+K
Sbjct: 121 FVILGNKIDISERQ-----------VSTEEAQAWCRDNGDYPYFETSAK 158

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 52/164 (31%), Positives = 82/164 (50%), Gaps = 15/164 (9%)
Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGL 60
             S    +K + +GD  VGK+C+L+ +  +KF   +I T+  +F    V   G  V L L
Sbjct: 14  GKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQL 73
Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVG 119
           WDTAGQE +  +    YRGA   +L + +    ++ N+ K+W   + +H +    ++LVG
Sbjct: 74  WDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNI-KQWFKTVNEHANDEAQLLLVG 132
Query: 120 TKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            K D+               VT  QGE L K++G   +IE S+K
Sbjct: 133 NKSDMETR-----------VVTADQGEALAKELGIP-FIESSAK 164

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 63/172 (36%), Positives = 82/172 (47%), Gaps = 25/172 (14%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV---AEGTT--------V 56
            IK + +GD  VGKT  L  YT NKF   +I TV  +F    V   A+G          V
Sbjct: 25  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKV 84
Query: 57  NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ--HYSPGVP 114
           +L LWDTAGQE +  L    +R A  F+L F L S+ S+ NV + W+ +LQ   Y     
Sbjct: 85  HLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNV-RNWMSQLQANAYCENPD 143
Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +VL+G K DL          P    V   Q  EL  + G  Y+ E S+ T Q
Sbjct: 144 IVLIGNKADL----------PDQREVNERQARELADKYGIPYF-ETSAATGQ 184

>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 = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 43/123 (34%), Positives = 68/123 (55%), Gaps = 3/123 (2%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K + +GD  VGK+C+L+ +  + +   YI T+  +F    +  +G T+ L +WDTAGQ
Sbjct: 9   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 68
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   ++ + +  + SY NV K+W+ E+  Y S  V  +LVG K DL 
Sbjct: 69  ERFRTITSSYYRGAHGIIVVYDVTDQESYANV-KQWLQEIDRYASENVNKLLVGNKSDLT 127
Query: 126 EDK 128
             K
Sbjct: 128 TKK 130

>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 = 84.0 bits (206), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 43/123 (34%), Positives = 68/123 (55%), Gaps = 3/123 (2%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K + +GD  VGK+C+L+ +  + +   YI T+  +F    +  +G T+ L +WDTAGQ
Sbjct: 9   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 68
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   ++ + +  + SY NV K+W+ E+  Y S  V  +LVG K DL 
Sbjct: 69  ERFRTITSSYYRGAHGIIVVYDVTDQESYANV-KQWLQEIDRYASENVNKLLVGNKSDLT 127
Query: 126 EDK 128
             K
Sbjct: 128 TKK 130

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score = 84.0 bits (206), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 44/120 (36%), Positives = 69/120 (57%), Gaps = 3/120 (2%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQ 66
             K V +GD  VGK+ +L  +T N+F  +   T+   F+  ++  +G T+   +WDTAGQ
Sbjct: 5   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ 64
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLR 125
           E Y R+    YRGA   +L + +    +YENV ++W+ EL+ H    + ++LVG K DLR
Sbjct: 65  ERYRRITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELRDHADSNIVIMLVGNKSDLR 123

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 84.0 bits (206), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 50/157 (31%), Positives = 81/157 (51%), Gaps = 15/157 (9%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQE 67
           +K + +GD  VGK+C+L+ +  +KF   +I T+  +F    V   G  V L +WDTAGQE
Sbjct: 4   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE 63
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDLRE 126
            +  +    YRGA   +L + +    ++ N+ K+W   + +H +    ++LVG K D+  
Sbjct: 64  RFRTITTAYYRGAMGIILVYDITDERTFTNI-KQWFKTVNEHANDEAQLLLVGNKSDMET 122
Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
                        VT  QGE L K++G   +IE S+K
Sbjct: 123 R-----------VVTADQGEALAKELGIP-FIESSAK 147

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 83.6 bits (205), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 53/170 (31%), Positives = 87/170 (51%), Gaps = 20/170 (11%)
Query: 1   MASSASRFI--KCVTVGDGAVGKTCMLICYTSNKF---PTDYIPTVFDNFSANVVAEGTT 55
           MA++ ++ I  K V +GD   GK+ +++ +  ++F       I   F  FS  +     T
Sbjct: 3   MAAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAF--FSQTLAVNDAT 60
Query: 56  VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVP 114
           V   +WDTAGQE Y+ L P+ YRGA   ++ F + ++AS+E   KKW+ ELQ   +P + 
Sbjct: 61  VKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERA-KKWVQELQAQGNPNMV 119
Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           + L G K DL + +             TA+  +   Q    +++E S+KT
Sbjct: 120 MALAGNKSDLLDARK-----------VTAEDAQTYAQENGLFFMETSAKT 158

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 83.6 bits (205), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 83/172 (48%), Gaps = 25/172 (14%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV------AEGTT-----V 56
            IK + +GD  VGKT  L  YT NKF   +I TV  +F    V      A+G +     V
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 57  NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ--HYSPGVP 114
           +L LWDTAG E +  L    +R A  F+L F L S+ S+ NV + W+ +LQ   Y     
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNV-RNWMSQLQANAYCENPD 129
Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +VL+G K DL          P    V   Q  EL ++ G  Y+ E S+ T Q
Sbjct: 130 IVLIGNKADL----------PDQREVNERQARELAEKYGIPYF-ETSAATGQ 170

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 83.6 bits (205), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 52/168 (30%), Positives = 85/168 (50%), Gaps = 18/168 (10%)
Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGL 60
           ++  S   K + +GDG VGK+ ++  Y +NKF +    T+   F + ++  +G  V + +
Sbjct: 5   SAGKSSLFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQI 64
Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-----PGVPV 115
           WDTAGQE +  LR   YRG+D  +L FS+    S++N L  W  E  +Y+        P 
Sbjct: 65  WDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQN-LSNWKKEFIYYADVKEPESFPF 123
Query: 116 VLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           V++G K D++E +           V+T + +   K  G   Y E S+K
Sbjct: 124 VILGNKTDIKERQ-----------VSTEEAQAWCKDNGDYPYFETSAK 160

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 83.6 bits (205), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 51/156 (32%), Positives = 83/156 (53%), Gaps = 14/156 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQED 68
           K + +GD  VGK+C+L+ +  + +   YI T+  +F    +  +G T+ L +WDTAGQE 
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 60
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           +  +    YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  +LVG K DL   
Sbjct: 61  FRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTK 119
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           K        +V  TTA+  E    +G   ++E S+K
Sbjct: 120 K--------VVDYTTAK--EFADSLGIP-FLETSAK 144

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 83.2 bits (204), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 83/158 (52%), Gaps = 14/158 (8%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K + +GD  VGK+C+L+ +  + +   YI T+  +F    +  +G T+ L +WDTAGQ
Sbjct: 6   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 65
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  +LVG K DL 
Sbjct: 66  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDLT 124
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
             K        +V  TTA+  E    +G   ++E S+K
Sbjct: 125 TKK--------VVDYTTAK--EFADSLGIP-FLETSAK 151

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 83.2 bits (204), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 83/158 (52%), Gaps = 14/158 (8%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K + +GD  VGK+C+L+ +  + +   YI T+  +F    +  +G T+ L +WDTAGQ
Sbjct: 6   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 65
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  +LVG K DL 
Sbjct: 66  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDLT 124
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
             K        +V  TTA+  E    +G   ++E S+K
Sbjct: 125 TKK--------VVDYTTAK--EFADSLGIP-FLETSAK 151

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 83.2 bits (204), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 47/165 (28%), Positives = 86/165 (52%), Gaps = 14/165 (8%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLG 59
           MA +     K + +GD  VGKTC+L  ++ + F + +I T+  +F    +  +G  + L 
Sbjct: 1   MAKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQ 60
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLV 118
           +WDTAGQE +  +    YRGA   +L + + +  S++N+ + WI  + +H S  V  +++
Sbjct: 61  IWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI-RNWIRNIEEHASADVEKMIL 119
Query: 119 GTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           G K D+ + +           V+  +GE+L    G   ++E S+K
Sbjct: 120 GNKCDVNDKRQ----------VSKERGEKLALDYGIK-FMETSAK 153

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 83.2 bits (204), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 42/130 (32%), Positives = 73/130 (56%), Gaps = 3/130 (2%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLG 59
           M S      K + +G+  VGK+C+L+ ++ + +  DYI T+  +F    V  +G TV L 
Sbjct: 1   MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQ 60
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPG-VPVVLV 118
           +WDTAGQE +  +    YRG+   ++ + +  + S+ N +K W+ E+  Y+   V  +LV
Sbjct: 61  IWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESF-NGVKMWLQEIDRYATSTVLKLLV 119
Query: 119 GTKLDLREDK 128
           G K DL++ +
Sbjct: 120 GNKCDLKDKR 129

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 83.2 bits (204), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 42/130 (32%), Positives = 73/130 (56%), Gaps = 3/130 (2%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLG 59
           M S      K + +G+  VGK+C+L+ ++ + +  DYI T+  +F    V  +G TV L 
Sbjct: 1   MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQ 60
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPG-VPVVLV 118
           +WDTAGQE +  +    YRG+   ++ + +  + S+ N +K W+ E+  Y+   V  +LV
Sbjct: 61  IWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESF-NGVKMWLQEIDRYATSTVLKLLV 119
Query: 119 GTKLDLREDK 128
           G K DL++ +
Sbjct: 120 GNKCDLKDKR 129

>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 = 83.2 bits (204), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 83/158 (52%), Gaps = 14/158 (8%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K + +GD  VGK+C+L+ +  + +   YI T+  +F    +  +G T+ L +WDTAGQ
Sbjct: 16  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 75
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  +LVG K DL 
Sbjct: 76  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDLT 134
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
             K        +V  TTA+  E    +G   ++E S+K
Sbjct: 135 TKK--------VVDYTTAK--EFADSLGIP-FLETSAK 161

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 83.2 bits (204), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 83/158 (52%), Gaps = 14/158 (8%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K + +GD  VGK+C+L+ +  + +   YI T+  +F    +  +G T+ L +WDTAGQ
Sbjct: 25  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 84
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  +LVG K DL 
Sbjct: 85  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDLT 143
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
             K        +V  TTA+  E    +G   ++E S+K
Sbjct: 144 TKK--------VVDYTTAK--EFADSLGIP-FLETSAK 170

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 83.2 bits (204), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 83/158 (52%), Gaps = 14/158 (8%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K + +GD  VGK+C+L+ +  + +   YI T+  +F    +  +G T+ L +WDTAGQ
Sbjct: 33  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 92
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  +LVG K DL 
Sbjct: 93  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDLT 151
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
             K        +V  TTA+  E    +G   ++E S+K
Sbjct: 152 TKK--------VVDYTTAK--EFADSLGIP-FLETSAK 178

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 83.2 bits (204), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 82/172 (47%), Gaps = 25/172 (14%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV------AEGTT-----V 56
            IK + +GD  VGKT  L  YT NKF   +I TV  +F    V      A+G +     V
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 57  NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ--HYSPGVP 114
           +L LWDTAG E +  L    +R A  F+L F L S+ S+ NV + W  +LQ   Y     
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNV-RNWXSQLQANAYCENPD 129
Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +VL+G K DL          P    V   Q  EL ++ G  Y+ E S+ T Q
Sbjct: 130 IVLIGNKADL----------PDQREVNERQARELAEKYGIPYF-ETSAATGQ 170

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 83.2 bits (204), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 51/156 (32%), Positives = 79/156 (50%), Gaps = 15/156 (9%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQED 68
           K + +GD  VGK+C+L+ +  +KF   +I T+  +F    V   G  V L LWDTAGQE 
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQER 64
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDLRED 127
           +  +    YRGA   +L + +    ++ N+ K+W   + +H +    ++LVG K D    
Sbjct: 65  FRTITTAYYRGAXGIILVYDVTDERTFTNI-KQWFKTVNEHANDEAQLLLVGNKSDXETR 123
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
                       VT  QGE L K++G   +IE S+K
Sbjct: 124 -----------VVTADQGEALAKELGIP-FIESSAK 147

>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 = 83.2 bits (204), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 81/158 (51%), Gaps = 13/158 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G  V + + DTAG EDY
Sbjct: 5   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGLEDY 64
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
             +R   +R  + F+L FS+    S+      ++ I  ++     +P+++VG K DL E 
Sbjct: 65  AAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEER 124
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           +         VPV  A+    + +     Y+E S+KT+
Sbjct: 125 RQ--------VPVEEARS---KAEEWGVQYVETSAKTR 151

>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 = 82.8 bits (203), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 54/159 (33%), Positives = 84/159 (52%), Gaps = 15/159 (9%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VG   VGK+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y
Sbjct: 5   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY 64
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           + +R    R  + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL   
Sbjct: 65  SAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL--- 120
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                       V + Q ++L +  G   YIE S+KT+Q
Sbjct: 121 --------AARTVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 82.8 bits (203), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 83/172 (48%), Gaps = 25/172 (14%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV------AEGTT-----V 56
            IK + +GD  VGKT  L  YT NKF   +I TV  +F    V      A+G +     V
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 57  NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ--HYSPGVP 114
           +L LWDTAG E +  L    +R A  F+L F L S+ S+ NV + W+ +LQ   Y     
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNV-RNWMSQLQANAYCENPD 129
Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +VL+G K DL          P    V   Q  EL ++ G  Y+ E S+ T Q
Sbjct: 130 IVLIGNKADL----------PDQREVNERQARELAEKYGIPYF-ETSAATGQ 170

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 82.8 bits (203), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 85/159 (53%), Gaps = 15/159 (9%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQ 66
            K + VGD  VGKTC+L+ +    F    +I TV  +F   V+  +G  V L +WDTAGQ
Sbjct: 11  FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ 70
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSP-GVPVVLVGTKLDLR 125
           E +  +    YR A   +L + + ++AS++N+ + W+ E+  Y+   V ++L+G K+D  
Sbjct: 71  ERFRSVTHAYYRDAHALLLLYDVTNKASFDNI-QAWLTEIHEYAQHDVALMLLGNKVDSA 129
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            ++           V    GE+L K+ G   ++E S+KT
Sbjct: 130 HER----------VVKREDGEKLAKEYGLP-FMETSAKT 157

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 82.8 bits (203), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 81/158 (51%), Gaps = 13/158 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G  V + + DTAG EDY
Sbjct: 9   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGLEDY 68
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
             +R   +R  + F+L FS+    S+      ++ I  ++     +P+++VG K DL E 
Sbjct: 69  AAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEER 128
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           +         VPV  A+    + +     Y+E S+KT+
Sbjct: 129 RQ--------VPVEEARS---KAEEWGVQYVETSAKTR 155

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 82.8 bits (203), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 83/158 (52%), Gaps = 14/158 (8%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K + +GD  VGK+C+L+ +  + +   YI T+  +F    +  +G T+ L +WDTAGQ
Sbjct: 8   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 67
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  +LVG K DL 
Sbjct: 68  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGIKCDLT 126
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
             K        +V  TTA+  E    +G   ++E S+K
Sbjct: 127 TKK--------VVDYTTAK--EFADSLGIP-FLETSAK 153

>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 = 82.8 bits (203), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 82/158 (51%), Gaps = 14/158 (8%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K + +GD  VGK C+L+ +  + +   YI T+  +F    +  +G T+ L +WDTAGQ
Sbjct: 16  LFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 75
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  +LVG K DL 
Sbjct: 76  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDLT 134
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
             K        +V  TTA+  E    +G   ++E S+K
Sbjct: 135 TKK--------VVDYTTAK--EFADSLGIP-FLETSAK 161

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score = 82.8 bits (203), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 82/172 (47%), Gaps = 25/172 (14%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV------AEGTT-----V 56
            IK + +GD  VGKT  L  YT NKF   +I TV  +F    V      A+G +     V
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 57  NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ--HYSPGVP 114
           +L LWDTAG E +  L    +R A  F+L F L S+ S+ NV + W  +LQ   Y     
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNV-RNWXSQLQANAYCENPD 129
Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +VL+G K DL          P    V   Q  EL ++ G  Y+ E S+ T Q
Sbjct: 130 IVLIGNKADL----------PDQREVNERQARELAEKYGIPYF-ETSAATGQ 170

>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 = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 54/159 (33%), Positives = 84/159 (52%), Gaps = 15/159 (9%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VG   VGK+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y
Sbjct: 5   KLVVVGARGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY 64
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           + +R    R  + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL   
Sbjct: 65  SAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL--- 120
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                       V + Q ++L +  G   YIE S+KT+Q
Sbjct: 121 --------AARTVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 50/156 (32%), Positives = 79/156 (50%), Gaps = 15/156 (9%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQED 68
           K + +GD  VGK+C+L+ +  +KF   +I T+  +F    V   G  V L +WDTAGQE 
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQER 64
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDLRED 127
           +  +    YRGA   +L + +    ++ N+ K+W   + +H +    ++LVG K D    
Sbjct: 65  FRTITTAYYRGAXGIILVYDITDERTFTNI-KQWFKTVNEHANDEAQLLLVGNKSDXETR 123
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
                       VT  QGE L K++G   +IE S+K
Sbjct: 124 -----------VVTADQGEALAKELGIP-FIESSAK 147

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 55/159 (34%), Positives = 85/159 (53%), Gaps = 15/159 (9%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VG   VGK+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY 65
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           + +R    R  + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL   
Sbjct: 66  SAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKD-SEDVPMVLVGNKSDL--- 121
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                  P    V T Q ++L +  G   +IE S+KT+Q
Sbjct: 122 -------PSRT-VDTKQAQDLARSYGIP-FIETSAKTRQ 151

>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 = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 55/159 (34%), Positives = 85/159 (53%), Gaps = 15/159 (9%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VG   VGK+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY 65
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           + +R    R  + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL   
Sbjct: 66  SAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKD-SEDVPMVLVGNKCDL--- 121
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                  P    V T Q ++L +  G   +IE S+KT+Q
Sbjct: 122 -------PSRT-VDTKQAQDLARSYGIP-FIETSAKTRQ 151

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 82.0 bits (201), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 51/157 (32%), Positives = 83/157 (52%), Gaps = 14/157 (8%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQE 67
            K + +G+ +VGKT  L  Y  + F   ++ TV  +F    V      V L +WDTAGQE
Sbjct: 24  FKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQE 83
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLRE 126
            Y  +    YRGA  F+L + + +  S+ N ++ W  +++ YS     V+LVG K D+ E
Sbjct: 84  RYRTITTAYYRGAMGFILMYDITNEESF-NAVQDWATQIKTYSWDNAQVILVGNKCDMEE 142
Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           ++        +VP  T +G+ L +Q+G  ++ E S+K
Sbjct: 143 ER--------VVP--TEKGQLLAEQLGFDFF-EASAK 168

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 54/159 (33%), Positives = 84/159 (52%), Gaps = 15/159 (9%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VG   VGK+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y
Sbjct: 5   KLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY 64
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           + +R    R  + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL   
Sbjct: 65  SAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL--- 120
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                       V + Q ++L +  G   YIE S+KT+Q
Sbjct: 121 --------AARTVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 81.3 bits (199), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 47/145 (32%), Positives = 77/145 (53%), Gaps = 10/145 (6%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQ 66
             K V +GD  VGK+ +L  +T N+F  +   T+   F+  ++  +G T+   +WDTAGQ
Sbjct: 20  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ 79
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLR 125
           E Y  +    YRGA   +L + +    +YENV ++W+ EL+ H    + ++LVG K DLR
Sbjct: 80  ERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELRDHADSNIVIMLVGNKSDLR 138
Query: 126 -------EDKHYLADHPGLVPVTTA 143
                  ++    A+  GL  + T+
Sbjct: 139 HLRAVPTDEARAFAEKNGLSFIETS 163

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 81.3 bits (199), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 46/120 (38%), Positives = 62/120 (51%), Gaps = 2/120 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
           IK V VG+GAVGK+ M+  Y    F  DY  T+  D     +      V L LWDTAGQE
Sbjct: 6   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE 65
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           +++ +    YRGA   VL FS   R S+E  +  W  ++      +P  LV  K+DL +D
Sbjct: 66  EFDAITKAYYRGAQACVLVFSTTDRESFE-AISSWREKVVAEVGDIPTALVQNKIDLLDD 124

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 81.3 bits (199), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 10/148 (6%)
Query: 5   ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDT 63
            S   K + +GD  VGK+C+L+ +T  +F   +  T+   F A +V  +G  + L +WDT
Sbjct: 18  GSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDT 77
Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKL 122
           AGQE +  +    YRGA   +L + +  R ++ N L  W+ +  QH S  + ++L+G K 
Sbjct: 78  AGQESFRSITRSYYRGAAGALLVYDITRRETF-NHLTSWLEDARQHSSSNMVIMLIGNKS 136
Query: 123 DL-------REDKHYLADHPGLVPVTTA 143
           DL       RE+    A   GL+ + T+
Sbjct: 137 DLESRRDVKREEGEAFAREHGLIFMETS 164

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 47/145 (32%), Positives = 77/145 (53%), Gaps = 10/145 (6%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQ 66
             K V +GD  VGK+ +L  +T N+F  +   T+   F+  ++  +G T+   +WDTAGQ
Sbjct: 29  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ 88
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLR 125
           E Y  +    YRGA   +L + +    +YENV ++W+ EL+ H    + ++LVG K DLR
Sbjct: 89  ERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELRDHADSNIVIMLVGNKSDLR 147
Query: 126 -------EDKHYLADHPGLVPVTTA 143
                  ++    A+  GL  + T+
Sbjct: 148 HLRAVPTDEARAFAEKNGLSFIETS 172

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 40/123 (32%), Positives = 71/123 (57%), Gaps = 3/123 (2%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K + +G+  VGK+C+L+ ++ + +  DYI T+  +F    V  +G TV L +WDTAGQ
Sbjct: 21  LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ 80
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPG-VPVVLVGTKLDLR 125
           E +  +    YRG+   ++ + +  + S+ N +K W+ E+  Y+   V  +LVG K DL+
Sbjct: 81  ERFRTITSSYYRGSHGIIIVYDVTDQESF-NGVKMWLQEIDRYATSTVLKLLVGNKCDLK 139
Query: 126 EDK 128
           + +
Sbjct: 140 DKR 142

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 45/156 (28%), Positives = 83/156 (53%), Gaps = 14/156 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQED 68
           K + +GD  VGKTC+L  ++ + F + +I T+  +F    +  +G  + L +WDTAGQE 
Sbjct: 8   KLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQER 67
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDLRED 127
           +  +    YRGA   +L + + +  S++N+ + WI  + +H S  V  +++G K D+ + 
Sbjct: 68  FRTITTAYYRGAMGIMLVYDITNEKSFDNI-RNWIRNIEEHASADVEKMILGNKCDVNDK 126
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           +           V+  +GE+L    G   ++E S+K
Sbjct: 127 RQ----------VSKERGEKLALDYGIK-FMETSAK 151

>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 = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 54/159 (33%), Positives = 84/159 (52%), Gaps = 15/159 (9%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VG   VGK+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y
Sbjct: 5   KLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY 64
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           + +R    R  + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL   
Sbjct: 65  SAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL--- 120
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                       V + Q ++L +  G   YIE S+KT+Q
Sbjct: 121 --------AGRTVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 40/113 (35%), Positives = 65/113 (57%), Gaps = 3/113 (2%)
Query: 14  VGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQEDYNRL 72
           +GD  VGK+C+L+ +  + +   YI T+  +F    +  +G T+ L +WDTAGQE +  +
Sbjct: 4   IGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTI 63
Query: 73  RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDL 124
               YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  +LVG K DL
Sbjct: 64  TSSYYRGAHGIIVVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDL 115

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 80.1 bits (196), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 56/163 (34%), Positives = 78/163 (47%), Gaps = 24/163 (14%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-------AN----VVAEGTTV 56
            IK + +GD  VGKT +L  YT  KF + +I TV  +F        AN     V  G  +
Sbjct: 11  LIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRI 70
Query: 57  NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQH--YSPGVP 114
           +L LWDTAG E +  L    +R A  F+L F L +  S+ NV + WI +LQ   YS    
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNV-RNWISQLQMHAYSENPD 129
Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYY 157
           +VL G K DL + +           V   +  EL ++ G  Y+
Sbjct: 130 IVLCGNKSDLEDQR----------AVKEEEARELAEKYGIPYF 162

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 80.1 bits (196), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 53/160 (33%), Positives = 83/160 (51%), Gaps = 17/160 (10%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTV-NL 58
           M+S     +K + +GD  VGKT ++  Y ++K+   Y  T+  +F +  V  +G  V  +
Sbjct: 1   MSSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATM 60
Query: 59  GLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPE-LQHY---SPGV- 113
            +WDTAGQE +  L    YRGAD  VL + + + +S+EN+ K W  E L H    SP   
Sbjct: 61  QVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENI-KSWRDEFLVHANVNSPETF 119
Query: 114 PVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG 153
           P V++G K+D  E K  +++            +EL K +G
Sbjct: 120 PFVILGNKIDAEESKKIVSEKS---------AQELAKSLG 150

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 79.3 bits (194), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 77/158 (48%), Gaps = 14/158 (8%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K V +G+  VGKTC++  +T   FP     T+  +F    V   G  V L +WDTAGQ
Sbjct: 26  LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQ 85
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YR A+  +L + +    S+   L +W+ E++ Y S  V  VLVG K+DL 
Sbjct: 86  ERFRSITQSYYRSANALILTYDITCEESF-RCLPEWLREIEQYASNKVITVLVGNKIDLA 144
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           E +           V+  + EE   +    YY+E S+K
Sbjct: 145 ERRE----------VSQQRAEEF-SEAQDMYYLETSAK 171

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/166 (28%), Positives = 85/166 (51%), Gaps = 14/166 (8%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLG 59
           + S+ +   K + +GD  VGK+C+L+ +T  +F   +  T+   F A ++  +G  + L 
Sbjct: 3   LGSAYAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQ 62
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLV 118
           +WDTAGQE +  +    YRGA   +L + +  R ++ N L  W+ +  QH +  + ++L+
Sbjct: 63  IWDTAGQESFRSITRSYYRGAAGALLVYDITRRDTF-NHLTTWLEDARQHSNSNMVIMLI 121
Query: 119 GTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           G K DL   +           V   +GE   ++ G   ++E S+KT
Sbjct: 122 GNKSDLESRR----------EVKKEEGEAFAREHGL-IFMETSAKT 156

>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 = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 52/158 (32%), Positives = 80/158 (50%), Gaps = 14/158 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G  V + + DTAGQEDY
Sbjct: 20  KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDY 79
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
             +R   +R  + F+  FS+    S+      ++ I  ++     VP +LVG K DL ED
Sbjct: 80  AAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKE-DENVPFLLVGNKSDL-ED 137
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           K         V V  A+    R +     Y+E S+KT+
Sbjct: 138 KRQ-------VSVEEAKN---RAEQWNVNYVETSAKTR 165

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 52/158 (32%), Positives = 80/158 (50%), Gaps = 14/158 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G  V + + DTAGQEDY
Sbjct: 8   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDY 67
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
             +R   +R  + F+  FS+    S+      ++ I  ++     VP +LVG K DL ED
Sbjct: 68  AAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKE-DENVPFLLVGNKSDL-ED 125
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           K         V V  A+    R +     Y+E S+KT+
Sbjct: 126 KRQ-------VSVEEAKN---RAEQWNVNYVETSAKTR 153

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/145 (31%), Positives = 76/145 (52%), Gaps = 10/145 (6%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQ 66
             K V +GD  VGK+ +L  +T N+F  +   T+   F+  ++  +G T+   +WDTAG 
Sbjct: 8   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 67
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLR 125
           E Y  +    YRGA   +L + +    +YENV ++W+ EL+ H    + ++LVG K DLR
Sbjct: 68  ERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELRDHADSNIVIMLVGNKSDLR 126
Query: 126 -------EDKHYLADHPGLVPVTTA 143
                  ++    A+  GL  + T+
Sbjct: 127 HLRAVPTDEARAFAEKNGLSFIETS 151

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/156 (30%), Positives = 72/156 (46%), Gaps = 9/156 (5%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLG 59
           MA       K + +GD  VGK+ +L+ +  N F   YI T+  +F    V   G  V L 
Sbjct: 2   MARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQ 61
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVG 119
           +WDTAGQE +  +    YRG    ++ + + S  S+ NV K+W+ E+      V  +LVG
Sbjct: 62  IWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNV-KRWLHEINQNCDDVCRILVG 120
Query: 120 TKLD-------LREDKHYLADHPGLVPVTTAQGEEL 148
            K D         ED +  A   G+    T+  E +
Sbjct: 121 NKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENV 156

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 47/146 (32%), Positives = 75/146 (51%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+ AVGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P+ YRGA   ++ + + +  S+    K W+ ELQ   SP + + L G K DL  
Sbjct: 68  RYHSLAPMYYRGAQAAIVVYDITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLAN 126
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 127 KRAVDFQEAQSYADDNSLLFMETSAK 152

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 52/158 (32%), Positives = 80/158 (50%), Gaps = 14/158 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G  V + + DTAGQEDY
Sbjct: 16  KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDY 75
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
             +R   +R  + F+  FS+    S+      ++ I  ++     VP +LVG K DL ED
Sbjct: 76  AAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKE-DENVPFLLVGNKSDL-ED 133
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           K         V V  A+    R +     Y+E S+KT+
Sbjct: 134 KRQ-------VSVEEAKN---RAEQWNVNYVETSAKTR 161

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 47/146 (32%), Positives = 75/146 (51%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+ AVGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P+ YRGA   ++ + + +  S+    K W+ ELQ   SP + + L G K DL  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLAN 125
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 126 KRAVDFQEAQSYADDNSLLFMETSAK 151

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 51/144 (35%), Positives = 73/144 (50%), Gaps = 10/144 (6%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTT-VNLGLWDTAGQE 67
            K V +G+  VGKT +L  +T N+F  D   T+   FS   V  GT  V   +WDTAG E
Sbjct: 11  FKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLE 70
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDLR- 125
            Y  +    YRGA   +L F L    +Y  V+++W+ EL  H    + V+LVG K DL  
Sbjct: 71  RYRAITSAYYRGAVGALLVFDLTKHQTYA-VVERWLKELYDHAEATIVVMLVGNKSDLSQ 129
Query: 126 ------EDKHYLADHPGLVPVTTA 143
                 E+    A++ GL+ + T+
Sbjct: 130 AREVPTEEARMFAENNGLLFLETS 153

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score = 77.8 bits (190), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 46/145 (31%), Positives = 76/145 (52%), Gaps = 10/145 (6%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQ 66
             K V +GD  VGK+ +L  +T N+F  +   T+   F+  ++  +G T+   +WDTAG 
Sbjct: 29  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 88
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLR 125
           E Y  +    YRGA   +L + +    +YENV ++W+ EL+ H    + ++LVG K DLR
Sbjct: 89  ERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELRDHADSNIVIMLVGNKSDLR 147
Query: 126 -------EDKHYLADHPGLVPVTTA 143
                  ++    A+  GL  + T+
Sbjct: 148 HLRAVPTDEARAFAEKNGLSFIETS 172

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 77.8 bits (190), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 49/153 (32%), Positives = 80/153 (52%), Gaps = 13/153 (8%)
Query: 4   SASRF--IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGL 60
           SAS+    K V +G+ AVGK+ +++ +   +F      T+   F + +V  + TTV   +
Sbjct: 2   SASKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEI 61
Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVG 119
           WDTAGQE Y+ L P+ YRGA   ++ + + ++ ++    K W+ ELQ   SP + + L G
Sbjct: 62  WDTAGQERYHSLAPMYYRGAQAAIVVYDITNQETFARA-KTWVKELQRQASPSIVIALAG 120
Query: 120 TKLDL--------REDKHYLADHPGLVPVTTAQ 144
            K DL         E + Y  D+  L   T+A+
Sbjct: 121 NKADLANKRMVEYEEAQAYADDNSLLFMETSAK 153

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score = 77.8 bits (190), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 46/145 (31%), Positives = 75/145 (51%), Gaps = 10/145 (6%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQ 66
             K V +GD  VGK+ +L  +T N+F  +   T+   F+  ++  +G T+   +WDTAG 
Sbjct: 5   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 64
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLR 125
           E Y  +    YRGA   +L + +    +YENV ++W+ EL+ H    + + LVG K DLR
Sbjct: 65  ERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELRDHADSNIVIXLVGNKSDLR 123
Query: 126 -------EDKHYLADHPGLVPVTTA 143
                  ++    A+  GL  + T+
Sbjct: 124 HLRAVPTDEARAFAEKNGLSFIETS 148

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 77.8 bits (190), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 51/144 (35%), Positives = 73/144 (50%), Gaps = 10/144 (6%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTT-VNLGLWDTAGQE 67
            K V +G+  VGKT +L  +T N+F  D   T+   FS   V  GT  V   +WDTAG E
Sbjct: 26  FKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLE 85
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDLR- 125
            Y  +    YRGA   +L F L    +Y  V+++W+ EL  H    + V+LVG K DL  
Sbjct: 86  RYRAITSAYYRGAVGALLVFDLTKHQTYA-VVERWLKELYDHAEATIVVMLVGNKSDLSQ 144
Query: 126 ------EDKHYLADHPGLVPVTTA 143
                 E+    A++ GL+ + T+
Sbjct: 145 AREVPTEEARMFAENNGLLFLETS 168

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score = 77.4 bits (189), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 46/145 (31%), Positives = 75/145 (51%), Gaps = 10/145 (6%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQ 66
             K V +GD  VGK+ +L  +T N+F  +   T+   F+  ++  +G T+   +WDTAG 
Sbjct: 11  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 70
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLR 125
           E Y  +    YRGA   +L + +    +YENV ++W+ EL+ H    + + LVG K DLR
Sbjct: 71  ERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELRDHADSNIVIXLVGNKSDLR 129
Query: 126 -------EDKHYLADHPGLVPVTTA 143
                  ++    A+  GL  + T+
Sbjct: 130 HLRAVPTDEARAFAEKNGLSFIETS 154

>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 = 77.4 bits (189), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 80/158 (50%), Gaps = 14/158 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G  V + + DTAGQEDY
Sbjct: 6   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDY 65
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
             +R   +R  + F+  FS+    S+      ++ I  ++     VP +LVG K DL ED
Sbjct: 66  AAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKE-DENVPFLLVGNKSDL-ED 123
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           K         V V  A+    +  +    Y+E S+KT+
Sbjct: 124 KRQ-------VSVEEAKNRADQWNVN---YVETSAKTR 151

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 77.4 bits (189), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 45/157 (28%), Positives = 80/157 (50%), Gaps = 14/157 (8%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTT-VNLGLWDTAGQE 67
            K + +G+ +VGKT  L  Y  + F   ++ TV  +F    +      + L +WDTAGQE
Sbjct: 6   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQE 65
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLRE 126
            Y  +    YRGA  F+L + + +  S+ N ++ W  +++ YS     V+LVG K D+ +
Sbjct: 66  RYRTITTAYYRGAMGFILMYDITNEESF-NAVQDWSTQIKTYSWDNAQVLLVGNKCDMED 124
Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           ++           V++ +G +L   +G  ++ E S+K
Sbjct: 125 ER----------VVSSERGRQLADHLGFEFF-EASAK 150

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 77.0 bits (188), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 47/146 (32%), Positives = 74/146 (50%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+ AVGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P  YRGA   ++ + + +  S+    K W+ ELQ   SP + + L G K DL  
Sbjct: 68  RYHSLAPXYYRGAQAAIVVYDITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLAN 126
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 127 KRAVDFQEAQSYADDNSLLFXETSAK 152

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 77.0 bits (188), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 75/146 (51%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+ AVGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAGQE
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQE 65
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P+ YRGA   ++ + + +  ++    K W+ ELQ   SP + + L G K DL  
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARA-KNWVKELQRQASPNIVIALAGNKADLAS 124
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 125 KRAVEFQEAQAYADDNSLLFMETSAK 150

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 76.6 bits (187), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 75/146 (51%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+ AVGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAGQE
Sbjct: 4   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 63
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P+ YRGA   ++ + + +  ++    K W+ ELQ   SP + + L G K DL  
Sbjct: 64  RYHSLAPMYYRGAQAAIVVYDITNTDTFARA-KNWVKELQRQASPNIVIALAGNKADLAS 122
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 123 KRAVEFQEAQAYADDNSLLFMETSAK 148

>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 = 76.6 bits (187), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 45/145 (31%), Positives = 77/145 (53%), Gaps = 14/145 (9%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I +  + F TDY PT+ D+++   V +     L + DTAGQE++  +R    R  
Sbjct: 18  KSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTG 77
Query: 81  DVFVLAFSLVSRASYENVLK--KWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+L FS+  R S+E + K  + I  ++      P++L+G K DL        DH    
Sbjct: 78  EGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDE-FPMILIGNKADL--------DHQR-- 126
Query: 139 PVTTAQGEELRKQIGASYYIECSSK 163
            VT  +G++L +Q+  + Y+E S+K
Sbjct: 127 QVTQEEGQQLARQLKVT-YMEASAK 150

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 76.6 bits (187), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 49/158 (31%), Positives = 81/158 (51%), Gaps = 11/158 (6%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
           IK V +G+ AVGK+ +++ + SN F  +  PT+   F +  V     TV   +WDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDLRE 126
            +  L P  YR A   ++ + +    S+    + W+ EL +  S  + + LVG K+D  +
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKA-RHWVKELHEQASKDIIIALVGNKIDXLQ 122
Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +        G   V   +GE+L ++ G  ++ E S+KT
Sbjct: 123 E-------GGERKVAREEGEKLAEEKGLLFF-ETSAKT 152

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 76.6 bits (187), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 46/157 (29%), Positives = 77/157 (49%), Gaps = 13/157 (8%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQE 67
           ++ + +G   VGKT ++  +T + F      TV  +F    V   G  + L +WDTAGQE
Sbjct: 27  LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQE 86
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            +N +    YR A   +L + +  + ++++ L KW+  +  Y S    ++LVG KLD   
Sbjct: 87  RFNSITSAYYRSAKGIILVYDITKKETFDD-LPKWMKMIDKYASEDAELLLVGNKLDCET 145
Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           D+           +T  QGE+  +QI    + E S+K
Sbjct: 146 DRE----------ITRQQGEKFAQQITGMRFCEASAK 172

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 76.3 bits (186), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 74/146 (50%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+  VGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAGQE
Sbjct: 7   FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P+ YRGA   ++ + + +  S+    K W+ ELQ   SP + + L G K DL  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLAN 125
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 126 KRAVDFQEAQSYADDNSLLFMETSAK 151

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 76.3 bits (186), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 74/146 (50%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+  VGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAGQE
Sbjct: 7   FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P+ YRGA   ++ + + +  S+    K W+ ELQ   SP + + L G K DL  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLAN 125
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 126 KRAVDFQEAQSYADDNSLLFMETSAK 151

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 76.3 bits (186), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 44/124 (35%), Positives = 65/124 (52%), Gaps = 3/124 (2%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQ 66
             K + +G    GK+C+L  +  NKF  D   T+   F + VV   G TV L +WDTAGQ
Sbjct: 25  LFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQ 84
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   +L + + SR +Y N L  W+ + +   SP + V+L G K DL 
Sbjct: 85  ERFRSVTRSYYRGAAGALLVYDITSRETY-NSLAAWLTDARTLASPNIVVILCGNKKDLD 143
Query: 126 EDKH 129
            ++ 
Sbjct: 144 PERE 147

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 75.9 bits (185), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 74/146 (50%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+  VGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAGQE
Sbjct: 7   FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P+ YRGA   ++ + + +  S+    K W+ ELQ   SP + + L G K DL  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLAN 125
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 126 KRAVDFQEAQSYADDNSLLFMETSAK 151

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 74/146 (50%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+  VGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAGQE
Sbjct: 7   FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P+ YRGA   ++ + + +  S+    K W+ ELQ   SP + + L G K DL  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLAN 125
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 126 KRAVDFQEAQSYADDNSLLFMETSAK 151

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 81/161 (50%), Gaps = 14/161 (8%)
Query: 6   SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTA 64
           S   K + +GD  VGK+C+L  +T  KF  D   T+   F   ++   G  + L +WDTA
Sbjct: 13  SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTA 72
Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLD 123
           GQE +  +    YRGA   ++ + +  R++Y N L  W+ + ++ + P   ++L+G K D
Sbjct: 73  GQERFRAVTRSYYRGAAGALMVYDITRRSTY-NHLSSWLTDARNLTNPNTVIILIGNKAD 131
Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           L   +           VT  + ++  ++ G   ++E S+KT
Sbjct: 132 LEAQR----------DVTYEEAKQFAEENGL-LFLEASAKT 161

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 74/146 (50%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+  VGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAGQE
Sbjct: 7   FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P+ YRGA   ++ + + +  S+    K W+ ELQ   SP + + L G K DL  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLAN 125
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 126 KRAVDFQEAQSYADDNSLLFMETSAK 151

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 51/163 (31%), Positives = 85/163 (52%), Gaps = 14/163 (8%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL-WD 62
           SA R +K   +GD  VGK+ ++  +  + F  +  PT+  +F    V  G  ++  L WD
Sbjct: 19  SAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWD 78
Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSP-GVPVVLVGTK 121
           TAGQE ++ L P+ YRG+   V+ + +  + S+   LKKW+ EL+ + P  + + + G K
Sbjct: 79  TAGQERFHSLAPMYYRGSAAAVIVYDITKQDSF-YTLKKWVKELKEHGPENIVMAIAGNK 137
Query: 122 LDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            DL + +         VP+  A+  E  + IGA   +E S+K 
Sbjct: 138 CDLSDIRE--------VPLKDAK--EYAESIGA-IVVETSAKN 169

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 49/157 (31%), Positives = 80/157 (50%), Gaps = 14/157 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQED 68
           K V +G+ +VGKT ++  +  + F   Y  T+  D  S  +  E  TV L LWDTAGQE 
Sbjct: 4   KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 63
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLRED 127
           +  L P   R + V V+ + + +  S++    KWI +++      V ++LVG K DL + 
Sbjct: 64  FRSLIPSYIRDSTVAVVVYDITNLNSFQQT-SKWIDDVRTERGSDVIIMLVGNKTDLADK 122
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +           +T  +GE+  K++    +IE S+KT
Sbjct: 123 RQ----------ITIEEGEQRAKELSV-MFIETSAKT 148

>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 = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 79/158 (50%), Gaps = 14/158 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G  V + + DTAG EDY
Sbjct: 8   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGLEDY 67
Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLRED 127
             +R   +R  + F+  FS+    S+      ++ I  ++     VP +LVG K DL ED
Sbjct: 68  AAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKE-DENVPFLLVGNKSDL-ED 125
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
           K         V V  A+    R +     Y+E S+KT+
Sbjct: 126 KRQ-------VSVEEAKN---RAEQWNVNYVETSAKTR 153

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 74/146 (50%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+ AVGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P+ YRGA   ++ + + +  S+    K W+ ELQ   SP + + L G K DL  
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLAN 124
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 125 KRAVDFQEAQSYADDNSLLFMETSAK 150

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 74.7 bits (182), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 42/126 (33%), Positives = 66/126 (52%), Gaps = 5/126 (3%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWD 62
           S SR  K + +GD  VGKTC+   + + +FP     T+  +F    V  +G  + + LWD
Sbjct: 16  SRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWD 75
Query: 63  TAGQEDYNR-LRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVG 119
           TAGQE + + +    YR     V  + + + AS+ + L  WI E + +  +  +P +LVG
Sbjct: 76  TAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHS-LPAWIEECKQHLLANDIPRILVG 134
Query: 120 TKLDLR 125
            K DLR
Sbjct: 135 NKCDLR 140

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 45/130 (34%), Positives = 67/130 (51%), Gaps = 7/130 (5%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLG 59
           M S     +K + +GD  VGKT ++  Y + KF   Y  T+  +F +  V+ +   V + 
Sbjct: 1   MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQ 60
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPE-LQHYSP----GVP 114
           +WDTAGQE +  L    YRGAD  VL F + +  +++  L  W  E L   SP      P
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFK-TLDSWRDEFLIQASPRDPENFP 119
Query: 115 VVLVGTKLDL 124
            V++G K+DL
Sbjct: 120 FVVLGNKIDL 129

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 50/159 (31%), Positives = 79/159 (49%), Gaps = 14/159 (8%)
Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAG 65
           R  K V +G+ +VGKT ++  +  + F   Y  T+  D  S  +  E  TV L LWDTAG
Sbjct: 13  RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 72
Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL 124
           QE +  L P   R + V V+ + + +  S+     KWI +++      V ++LVG K DL
Sbjct: 73  QERFRSLIPSYIRDSTVAVVVYDITNTNSFHQT-SKWIDDVRTERGSDVIIMLVGNKTDL 131
Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            + +           V+T +GE   K++    +IE S+K
Sbjct: 132 SDKRQ----------VSTEEGERKAKELNV-MFIETSAK 159

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 46/138 (33%), Positives = 68/138 (49%), Gaps = 10/138 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQE 67
            K + +G+ +VGKT  L  Y  + F   ++ TV  +F    V      + L +WDTAGQE
Sbjct: 23  FKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQE 82
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLR- 125
            Y  +    YRGA  F+L + + ++ S+  V + W  +++ YS     V+LVG K DL  
Sbjct: 83  RYRTITTAYYRGAMGFLLMYDIANQESFAAV-QDWATQIKTYSWDNAQVILVGNKCDLED 141
Query: 126 ------EDKHYLADHPGL 137
                 ED   LAD  G 
Sbjct: 142 ERVVPAEDGRRLADDLGF 159

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 45/130 (34%), Positives = 67/130 (51%), Gaps = 7/130 (5%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLG 59
           M S     +K + +GD  VGKT ++  Y + KF   Y  T+  +F +  V+ +   V + 
Sbjct: 1   MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQ 60
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPE-LQHYSP----GVP 114
           +WDTAGQE +  L    YRGAD  VL F + +  +++  L  W  E L   SP      P
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFK-TLDSWRDEFLIQASPRDPENFP 119
Query: 115 VVLVGTKLDL 124
            V++G K+DL
Sbjct: 120 FVVLGNKIDL 129

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>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 = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>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 = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>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 = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDEYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 80
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 81  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 128
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 129 TVESRQAQDLARSYGIP-YIETSAKTRQ 155

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 80
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 81  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 128
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 129 TVESRQAQDLARSYGIP-YIETSAKTRQ 155

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 23  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 82
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 83  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 130
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 131 TVESRQAQDLARSYGIP-YIETSAKTRQ 157

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 73.2 bits (178), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 45/146 (30%), Positives = 74/146 (50%), Gaps = 11/146 (7%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+ AVGK+ +++ +   +F      T+   F +  V  + TTV   +WDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL-- 124
            Y+ L P+ YRGA   ++ + + +  ++    K W+ ELQ   SP + + L G K DL  
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARA-KNWVKELQRQASPNIVIALAGNKADLAS 124
Query: 125 ------REDKHYLADHPGLVPVTTAQ 144
                 +E + Y  D+  L   T+A+
Sbjct: 125 KRAVEFQEAQAYADDNSLLFMETSAK 150

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 73.2 bits (178), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K  + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KNALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 73.2 bits (178), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 49/148 (33%), Positives = 79/148 (53%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 76
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL          P   
Sbjct: 77  EGFLCVFAINNTKSFEDIHHYREQIKRVKD-SEDVPMVLVGNKSDL----------PSRT 125
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V T Q ++L +  G   +IE S+KT+Q
Sbjct: 126 -VDTKQAQDLARSYGIP-FIETSAKTRQ 151

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 73.2 bits (178), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 49/148 (33%), Positives = 79/148 (53%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 76
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL          P   
Sbjct: 77  EGFLCVFAINNTKSFEDIHHYREQIKRVKD-SEDVPMVLVGNKSDL----------PSRT 125
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V T Q ++L +  G   +IE S+KT+Q
Sbjct: 126 -VDTKQAQDLARSYGIP-FIETSAKTRQ 151

>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 = 72.8 bits (177), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 44/157 (28%), Positives = 78/157 (49%), Gaps = 14/157 (8%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTT-VNLGLWDTAGQE 67
            K + +G+ +VGKT  L  Y  + F   ++ TV  +F    +      + L +WDTAG E
Sbjct: 9   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLE 68
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLRE 126
            Y  +    YRGA  F+L + + +  S+ N ++ W  +++ YS     V+LVG K D  +
Sbjct: 69  RYRTITTAYYRGAXGFILXYDITNEESF-NAVQDWSTQIKTYSWDNAQVLLVGNKCDXED 127
Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           ++           V++ +G +L   +G  ++ E S+K
Sbjct: 128 ER----------VVSSERGRQLADHLGFEFF-EASAK 153

>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 = 72.8 bits (177), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 72.8 bits (177), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 45/161 (27%), Positives = 80/161 (49%), Gaps = 14/161 (8%)
Query: 6   SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTA 64
           S   K + +GD  VGK+C+L  +T  KF  D   T+   F   ++   G  + L +WDTA
Sbjct: 28  SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTA 87
Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLD 123
           GQ  +  +    YRGA   ++ + +  R++Y N L  W+ + ++ + P   ++L+G K D
Sbjct: 88  GQGRFRAVTRSYYRGAAGALMVYDITRRSTY-NHLSSWLTDARNLTNPNTVIILIGNKAD 146
Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           L   +           VT  + ++  ++ G   ++E S+KT
Sbjct: 147 LEAQR----------DVTYEEAKQFAEENGL-LFLEASAKT 176

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 42/119 (35%), Positives = 62/119 (52%), Gaps = 3/119 (2%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K V +GD  VGK+ +L  +T N+F  D   T+   F+   +  EG  +   +WDTAGQ
Sbjct: 13  LFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQ 72
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDL 124
           E Y  +    YRGA   ++ + +   +SYEN    W+ EL ++    V V L+G K DL
Sbjct: 73  ERYRAITSAYYRGAVGALIVYDISKSSSYENC-NHWLSELRENADDNVAVGLIGNKSDL 130

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 52/166 (31%), Positives = 85/166 (51%), Gaps = 17/166 (10%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           MA SA   +K    G   VGK+ +++ + + +F  +Y PT+   +      +   V++ +
Sbjct: 23  MAKSAE--VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEI 80
Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLV 118
            DTAGQED  + R    R  + FVL + +  R S+E V  LK  + E++     V ++LV
Sbjct: 81  LDTAGQEDTIQ-REGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKK-PKNVTLILV 138
Query: 119 GTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           G K DL        DH     V+T +GE+L  ++  ++Y ECS+ T
Sbjct: 139 GNKADL--------DHSR--QVSTEEGEKLATELACAFY-ECSACT 173

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F   Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVEKYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>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 = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG + DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNRCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/124 (33%), Positives = 64/124 (51%), Gaps = 5/124 (4%)
Query: 6   SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTA 64
           SR  K + +GD  VGKTC+   + + +FP     T+  +F    V  +G  + + LWDTA
Sbjct: 27  SRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTA 86
Query: 65  GQEDYNR-LRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTK 121
           GQE + + +    YR     V  +   + AS+ + L  WI E + +  +  +P +LVG K
Sbjct: 87  GQERFRKSMVQHYYRNVHAVVFVYDXTNXASFHS-LPAWIEECKQHLLANDIPRILVGNK 145
Query: 122 LDLR 125
            DLR
Sbjct: 146 CDLR 149

>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 = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F   Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDKYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 82/161 (50%), Gaps = 13/161 (8%)
Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
           R  K V +G G VGK+ + + +    F   Y PT+ D++   V  +     L + DTAG 
Sbjct: 2   REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDAQQCMLEILDTAGT 61
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDL 124
           E +  +R L  +    F L +S+ +++++ ++  L++ I  ++  +  VP++LVG K DL
Sbjct: 62  EQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKD-TDDVPMILVGNKCDL 120
Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
            +++           V   QG+ L +Q     ++E S+K++
Sbjct: 121 EDER----------VVGKEQGQNLARQWNNCAFLESSAKSK 151

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 40/131 (30%), Positives = 66/131 (50%), Gaps = 3/131 (2%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLG 59
           M+ +     K + +G+   GK+C+L  +   KF  D   T+   F + ++   G  V L 
Sbjct: 3   MSETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQ 62
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLV 118
           +WDTAGQE +  +    YRGA   +L + + SR +Y N L  W+ + +   S  + ++L 
Sbjct: 63  IWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETY-NALTNWLTDARMLASQNIVIILC 121
Query: 119 GTKLDLREDKH 129
           G K DL  D+ 
Sbjct: 122 GNKKDLDADRE 132

>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 = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y P++ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPSIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 44/130 (33%), Positives = 66/130 (50%), Gaps = 7/130 (5%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLG 59
           M S     +K + +GD  VGKT ++  Y + KF   Y  T+  +F +  V+ +   V + 
Sbjct: 1   MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQ 60
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPE-LQHYSP----GVP 114
           +WDTAGQE +  L    YRGAD  VL F + +  +++  L  W  E L   SP      P
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFK-TLDSWRDEFLIQASPRDPENFP 119
Query: 115 VVLVGTKLDL 124
            V++G K+D 
Sbjct: 120 FVVLGNKIDF 129

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 38/118 (32%), Positives = 64/118 (54%), Gaps = 4/118 (3%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQE 67
           +K + +G+  VGK+ +L+ +T + F  +   T+  +F    ++ +G    L +WDTAGQE
Sbjct: 16  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 75
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVV--LVGTKLD 123
            +  L P  YRGA   +L + +  R ++   L  W+ EL+ Y     +V  LVG K+D
Sbjct: 76  RFRTLTPSYYRGAQGVILVYDVTRRDTFVK-LDNWLNELETYCTRNDIVNXLVGNKID 132

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 51/148 (34%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 93
Query: 81  DVFVLAFSLVSRASYE--NVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+   N+ ++ I  ++  S  VP+VLVG K DL          P   
Sbjct: 94  EGFLCVFAINNSKSFADINLYREQIKRVKD-SDDVPMVLVGNKCDL----------PTRT 142
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V T Q  EL K  G   +IE S+KT+Q
Sbjct: 143 -VDTKQAHELAKSYGIP-FIETSAKTRQ 168

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y P++ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 22  KSALTIQLIQNHFVDEYDPSIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 81
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 82  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 129
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 130 TVESRQAQDLARSYGIP-YIETSAKTRQ 156

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 80/158 (50%), Gaps = 13/158 (8%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQ 66
             K V VGD +VGKTC++  + +  F      T+  +F+   +  +G  V L +WDTAGQ
Sbjct: 29  LFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQ 88
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLR 125
           E +  +    YR A+  +LA+ +  R+S+ +V   WI +++ Y+   +  +L+G K DL 
Sbjct: 89  ERFRTITQSYYRSANGAILAYDITKRSSFLSV-PHWIEDVRKYAGSNIVQLLIGNKSDLS 147
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           E          L  V+ A+ + L +       IE S+K
Sbjct: 148 E----------LREVSLAEAQSLAEHYDILCAIETSAK 175

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  ++ PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEFDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAG+E+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGKEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTA QE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAAQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKXDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTA QE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAAQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKXDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>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 = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DT GQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTTGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>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 = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ +++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEESYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DT GQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTGGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>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 = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAG E+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGHEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G    L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGEICLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAG E+Y+ +R    R  
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGHEEYSAMRDQYMRTG 93
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL          P   
Sbjct: 94  EGFLCVFAINNTKSFEDIHHYREQIKRVKD-SEDVPMVLVGNKCDL----------PSRT 142
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V T Q ++L +  G   +IE S+KT+Q
Sbjct: 143 -VDTKQAQDLARSYGIP-FIETSAKTRQ 168

>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 = 71.2 bits (173), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 83/161 (51%), Gaps = 13/161 (8%)
Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
           R  K V +G G VGK+ + + +    F  +Y PT+ D++   V  +     L + DTAG 
Sbjct: 2   REYKLVVLGSGGVGKSALTVQFVQGIFVDEYDPTIEDSYRKQVEVDCQQCMLEILDTAGT 61
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDL 124
           E +  +R L  +    F L +S+ +++++ ++  L++ I  ++  +  VP++LVG K DL
Sbjct: 62  EQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKD-TEDVPMILVGNKCDL 120
Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
            +++           V   QG+ L +Q     ++E S+K++
Sbjct: 121 EDER----------VVGKEQGQNLARQWCNCAFLESSAKSK 151

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 65/121 (53%), Gaps = 4/121 (3%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV--AEGTTVNLGLWDTAG 65
             K V +GD  VGK+ +L  +T ++F  +   T+   F+   +       +   +WDTAG
Sbjct: 7   LFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTAG 66
Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL 124
           QE Y  +    YRGA   +L + +  + S+EN+ +KW+ EL+ +    + ++LVG K DL
Sbjct: 67  QERYRAITSAYYRGAVGALLVYDITKKNSFENI-EKWLKELRDNADSNIVILLVGNKSDL 125
Query: 125 R 125
           +
Sbjct: 126 K 126

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 39/124 (31%), Positives = 63/124 (50%), Gaps = 3/124 (2%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQ 66
             K + +G+   GK+C+L  +   KF  D   T+   F + ++   G  V L +WDTAGQ
Sbjct: 11  LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQ 70
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   +L + + SR +Y N L  W+ + +   S  + ++L G K DL 
Sbjct: 71  ERFRSVTRSYYRGAAGALLVYDITSRETY-NALTNWLTDARMLASQNIVIILCGNKKDLD 129
Query: 126 EDKH 129
            D+ 
Sbjct: 130 ADRE 133

>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 = 70.9 bits (172), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 48/156 (30%), Positives = 78/156 (50%), Gaps = 14/156 (8%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQED 68
           K V +G+ +VGKT ++  +  + F   Y  T+  D  S  +  E  TV L LWDTAGQE 
Sbjct: 3   KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 62
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLRED 127
           +  L P   R + V V+ + + +  S++    KWI +++      V ++LVG K DL + 
Sbjct: 63  FRSLIPSYIRDSTVAVVVYDITNVNSFQQT-TKWIDDVRTERGSDVIIMLVGNKTDLADK 121
Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
           +           V+  +GE   K++    +IE S+K
Sbjct: 122 RQ----------VSIEEGERKAKELNV-MFIETSAK 146

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 70.5 bits (171), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAG E+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETXLLDILDTAGGEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 70.5 bits (171), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 40/121 (33%), Positives = 61/121 (50%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+PT+       V       +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 129
Query: 128 K 128
           K
Sbjct: 130 K 130

>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 = 70.5 bits (171), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 82/161 (50%), Gaps = 13/161 (8%)
Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
           R  K V +G G VGK+ + + +    F   Y PT+ D++   V  +     L + DTAG 
Sbjct: 2   REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGT 61
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDL 124
           E +  +R L  +    F L +S+ +++++ ++  L++ I  ++  +  VP++LVG K DL
Sbjct: 62  EQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKD-TEDVPMILVGNKCDL 120
Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
            +++           V   QG+ L +Q     ++E S+K++
Sbjct: 121 EDER----------VVGKEQGQNLARQWCNCAFLESSAKSK 151

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 70.5 bits (171), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 44/130 (33%), Positives = 66/130 (50%), Gaps = 7/130 (5%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLG 59
           M S     +K + +GD  VGKT ++  Y + KF   Y  T+  +F +  V+ +   V + 
Sbjct: 1   MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQ 60
Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPE-LQHYSP----GVP 114
           +WDTAG E +  L    YRGAD  VL F + +  +++  L  W  E L   SP      P
Sbjct: 61  IWDTAGLERFQSLGVAFYRGADCCVLVFDVTAPNTFK-TLDSWRDEFLIQASPRDPENFP 119
Query: 115 VVLVGTKLDL 124
            V++G K+DL
Sbjct: 120 FVVLGNKIDL 129

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 70.5 bits (171), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAG E+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGGEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 70.1 bits (170), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 40/121 (33%), Positives = 61/121 (50%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+PT+       V       +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 129
Query: 128 K 128
           K
Sbjct: 130 K 130

>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 = 70.1 bits (170), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAG E+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGLEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>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 = 70.1 bits (170), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+ + +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEASAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 70.1 bits (170), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAG E+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGVEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 70.1 bits (170), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAG E+Y+ +R    R  
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGLEEYSAMRDQYMRTG 80
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 81  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 128
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 129 TVESRQAQDLARSYGIP-YIETSAKTRQ 155

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 70.1 bits (170), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +Y PT+ D++   VV +G T  L + DTAG E+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGIEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 69.7 bits (169), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 82/162 (50%), Gaps = 8/162 (4%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSAN-VVAEGTTVNLGLWD 62
           S+ +  K V  GD AVGK+  L+    N+F  +   T+  +F    ++ +G    L LWD
Sbjct: 24  SSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWD 83
Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTK 121
           TAGQE +  +    +R AD  +L + +    S+ N+ ++W+  ++  +   VP++LVG K
Sbjct: 84  TAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNI-REWVDMIEDAAHETVPIMLVGNK 142
Query: 122 LDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            D+R+     A   G   V    GE+L    GA  + E S+K
Sbjct: 143 ADIRD----TAATEGQKCVPGHFGEKLAMTYGA-LFCETSAK 179

>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 = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 77/148 (52%), Gaps = 15/148 (10%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I    N F  +  PT+ D++   VV +G T  L + DTAGQE+Y+ +R    R  
Sbjct: 16  KSALTIQLIQNHFVDECDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           + F+  F++ +  S+E++   ++ I  ++  S  VP+VLVG K DL              
Sbjct: 76  EGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKSDL-----------AAR 123
Query: 139 PVTTAQGEELRKQIGASYYIECSSKTQQ 166
            V + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TVESRQAQDLARSYGIP-YIETSAKTRQ 150

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 47/159 (29%), Positives = 78/159 (49%), Gaps = 14/159 (8%)
Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAG 65
           R  K V +G+ +VGKT ++  +  + F   Y  T+  D  S  +  E  T+ L LWDTAG
Sbjct: 5   RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAG 64
Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL 124
           QE +  L P   R +   V+ + + +  S++    KWI +++      V ++LVG K DL
Sbjct: 65  QERFRSLIPSYIRDSAAAVVVYDITNVNSFQQT-TKWIDDVRTERGSDVIIMLVGNKTDL 123
Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            + +           V+  +GE   K++    +IE S+K
Sbjct: 124 ADKRQ----------VSIEEGERKAKELNV-MFIETSAK 151

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 37/127 (29%), Positives = 66/127 (51%), Gaps = 3/127 (2%)
Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVN-LGLWDTAG 65
           R +K   +GD  VGK+ ++  +  + F  +  PT+  +F    V     ++   +WDTAG
Sbjct: 4   RELKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAG 63
Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDL 124
           QE +  L P+ YRG+   ++ + +    ++ + LK W+ EL QH  P + V + G K DL
Sbjct: 64  QERFRALAPMYYRGSAAAIIVYDITKEETF-STLKNWVRELRQHGPPSIVVAIAGNKCDL 122
Query: 125 REDKHYL 131
            + +  +
Sbjct: 123 TDVREVM 129

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 81/161 (50%), Gaps = 13/161 (8%)
Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
           R  K V +G   VGK+ + + +    F   Y PT+ D++   V  +     L + DTAG 
Sbjct: 4   REYKLVVLGSVGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDAQQCMLEILDTAGT 63
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDL 124
           E +  +R L  +    F L +S+ +++++ ++  L++ I  ++  +  VP++LVG K DL
Sbjct: 64  EQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKD-TDDVPMILVGNKCDL 122
Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ 165
            +++           V   QG+ L +Q     ++E S+K++
Sbjct: 123 EDER----------VVGKEQGQNLARQWNNCAFLESSAKSK 153

>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 = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 38/130 (29%), Positives = 67/130 (51%), Gaps = 3/130 (2%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVN-LGLWD 62
           SA R +K   +GD  VGK+ ++  +  + F  +  PT+  +F    V     ++   +WD
Sbjct: 2   SALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWD 61
Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTK 121
           TAG E +  L P+ YRG+   ++ + +    ++ + LK W+ EL QH  P + V + G K
Sbjct: 62  TAGLERFRALAPMYYRGSAAAIIVYDITKEETF-STLKNWVRELRQHGPPSIVVAIAGNK 120
Query: 122 LDLREDKHYL 131
            DL + +  +
Sbjct: 121 CDLTDVREVM 130

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 41/117 (35%), Positives = 61/117 (52%), Gaps = 3/117 (2%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQED 68
           K V +G+ AVGKT ++  +  + F  +Y  T+  D  S  +  +   V L LWDTAGQE 
Sbjct: 3   KLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQER 62
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPE-LQHYSPGVPVVLVGTKLDL 124
           +  L P   R +   ++ + + +R S+EN   KWI + L      V + LVG K DL
Sbjct: 63  FRSLIPSYIRDSAAAIVVYDITNRQSFENTT-KWIQDILNERGKDVIIALVGNKTDL 118

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 40/121 (33%), Positives = 60/121 (49%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+ T+       V       +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            Y  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 71  KYGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 129
Query: 128 K 128
           K
Sbjct: 130 K 130

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 48/159 (30%), Positives = 78/159 (49%), Gaps = 14/159 (8%)
Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAG 65
           R  K V +G+ +VGKT ++  +  + F   Y  T+  D  S  +  E  TV L LWDTAG
Sbjct: 5   RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 64
Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL 124
            E +  L P   R + V V+ + + +  S++    KWI +++      V ++LVG K DL
Sbjct: 65  LERFRSLIPSYIRDSTVAVVVYDITNVNSFQQT-TKWIDDVRTERGSDVIIMLVGNKTDL 123
Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            + +           V+  +GE   K++    +IE S+K
Sbjct: 124 ADKRQ----------VSIEEGERKAKELNV-MFIETSAK 151

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 38/124 (30%), Positives = 62/124 (50%), Gaps = 3/124 (2%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQ 66
             K + +G+   GK+C+L  +   KF  D   T+   F + ++   G  V L +WDTAG 
Sbjct: 8   LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGL 67
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YRGA   +L + + SR +Y N L  W+ + +   S  + ++L G K DL 
Sbjct: 68  ERFRSVTRSYYRGAAGALLVYDITSRETY-NALTNWLTDARMLASQNIVIILCGNKKDLD 126
Query: 126 EDKH 129
            D+ 
Sbjct: 127 ADRE 130

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 67.4 bits (163), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 48/159 (30%), Positives = 78/159 (49%), Gaps = 14/159 (8%)
Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAG 65
           R  K V +G+ +VGKT ++  +  + F   Y  T+  D  S  +  E  TV L LWDTAG
Sbjct: 15  RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG 74
Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL 124
            E +  L P   R + V V+ + + +  S++    KWI +++      V ++LVG K DL
Sbjct: 75  LERFRSLIPSYIRDSTVAVVVYDITNVNSFQQT-TKWIDDVRTERGSDVIIMLVGNKTDL 133
Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            + +           V+  +GE   K++    +IE S+K
Sbjct: 134 ADKRQ----------VSIEEGERKAKELNV-MFIETSAK 161

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 67.4 bits (163), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 60/121 (49%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+ T+       V       +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 129
Query: 128 K 128
           K
Sbjct: 130 K 130

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 60/121 (49%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+ T+       V       +   +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 134
Query: 128 K 128
           K
Sbjct: 135 K 135

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 60/121 (49%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+ T+       V       +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 129
Query: 128 K 128
           K
Sbjct: 130 K 130

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 60/121 (49%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+ T+       V       +   +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 122
Query: 128 K 128
           K
Sbjct: 123 K 123

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 60/121 (49%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+ T+       V       +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 129
Query: 128 K 128
           K
Sbjct: 130 K 130

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 60/121 (49%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+ T+       V       +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 71  KFGGLRDGYYIQAQCAIIXFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 129
Query: 128 K 128
           K
Sbjct: 130 K 130

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 60/121 (49%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   YI T+  +    +       +   +WDTAG E
Sbjct: 6   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 65
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D++E 
Sbjct: 66  KFGGLRDGYYINAQCAIIMFDVTSRITYKNV-PNWHRDLVRVCENIPIVLCGNKVDVKER 124
Query: 128 K 128
           K
Sbjct: 125 K 125

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 66.6 bits (161), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 60/121 (49%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   YI T+  +    +       +   +WDTAG E
Sbjct: 5   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 64
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D++E 
Sbjct: 65  KFGGLRDGYYINAQCAIIMFDVTSRITYKNV-PNWHRDLVRVCENIPIVLCGNKVDVKER 123
Query: 128 K 128
           K
Sbjct: 124 K 124

>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 = 66.2 bits (160), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 60/121 (49%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   YI T+  +    +       +   +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 72
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D++E 
Sbjct: 73  KFGGLRDGYYINAQCAIIMFDVTSRITYKNV-PNWHRDLVRVCENIPIVLCGNKVDVKER 131
Query: 128 K 128
           K
Sbjct: 132 K 132

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 66.2 bits (160), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 53/164 (32%), Positives = 85/164 (51%), Gaps = 16/164 (9%)
Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
           R+ K V +G   VGKT +   +   +F   Y PTV + +S  V       +L L DTAGQ
Sbjct: 23  RYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQ 82
Query: 67  EDYNRLRPLSY-RGADVFVLAFSLVSRASYENVLKKWIPELQ--HYSPGVPVVLVGTKLD 123
           ++Y+ L P S+  G   +VL +S+ S  S++ V++    +L   H    VPVVLVG K D
Sbjct: 83  DEYSIL-PYSFIIGVHGYVLVYSVTSLHSFQ-VIESLYQKLHEGHGKTRVPVVLVGNKAD 140
Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV 167
           L  ++           V   +G++L +  GA+ ++E S++  Q+
Sbjct: 141 LSPER----------EVQAVEGKKLAESWGAT-FMESSARENQL 173

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/147 (29%), Positives = 69/147 (46%), Gaps = 11/147 (7%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-AEGTTVNLGLWDTAGQ 66
             K V +GD  VGK+ +L  +T+++F  +   T+   F+   +  E   +   +WDTAG 
Sbjct: 10  LFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDTAGL 69
Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDLR 125
           E Y  +    YRGA   ++ + +   +SYEN    W+ EL ++    V V L+G K DL 
Sbjct: 70  ERYRAITSAYYRGAVGALIVYDISKSSSYENC-NHWLTELRENADDNVAVGLIGNKSDLA 128
Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQI 152
                   H   VP   A+   +  Q+
Sbjct: 129 --------HLRAVPTDEAKNFAMENQM 147

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 65.5 bits (158), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 46/159 (28%), Positives = 77/159 (48%), Gaps = 14/159 (8%)
Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAG 65
           R  K V +G+ +VGKT ++  +  + F   Y  T+  D  S  +  E  T+ L LWDTAG
Sbjct: 12  RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAG 71
Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDL 124
            E +  L P   R +   V+ + + +  S++    KWI +++      V ++LVG K DL
Sbjct: 72  LERFRSLIPSYIRDSAAAVVVYDITNVNSFQQT-TKWIDDVRTERGSDVIIMLVGNKTDL 130
Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            + +           V+  +GE   K++    +IE S+K
Sbjct: 131 ADKRQ----------VSIEEGERKAKELNV-MFIETSAK 158

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 59/121 (48%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+ T+       V       +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  L    Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 71  KFGGLEDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 129
Query: 128 K 128
           K
Sbjct: 130 K 130

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 59/121 (48%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+ T+       V       +   +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 72
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 73  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 131
Query: 128 K 128
           K
Sbjct: 132 K 132

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 59/121 (48%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+ T+       V       +   +WDTAG E
Sbjct: 7   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 66
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 67  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 125
Query: 128 K 128
           K
Sbjct: 126 K 126

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 59/121 (48%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +F   Y+ T+       V       +   +WDTAG E
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 70
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 129
Query: 128 K 128
           K
Sbjct: 130 K 130

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 63.5 bits (153), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 33/111 (29%), Positives = 57/111 (51%), Gaps = 2/111 (1%)
Query: 15  GDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRP 74
           G G VGK+ +++ +    F   YIPTV D +   +  + +   L + DT G   +  ++ 
Sbjct: 10  GAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQR 69
Query: 75  LSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLD 123
           LS      F+L +S+ SR S E +  + + I E++     +P++LVG K D
Sbjct: 70  LSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCD 120

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 63.5 bits (153), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 45/147 (30%), Positives = 69/147 (46%), Gaps = 18/147 (12%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I +  + F +DY PT+ D+++     +G    L + DTAGQE++  +R    R  
Sbjct: 22  KSALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAG 81
Query: 81  DVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLREDKHYLADHPGLVP 139
             F+L F++  R S+  V K +   L+       PVVLVG K DL   +         VP
Sbjct: 82  HGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQ--------VP 133
Query: 140 VTTAQGEELRKQIGASY---YIECSSK 163
            + A         GAS+   Y E S+K
Sbjct: 134 RSEASA------FGASHHVAYFEASAK 154

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 63.5 bits (153), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 59/121 (48%), Gaps = 2/121 (1%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQE 67
            K V VGDG  GKT  +  + + +    Y+ T+       V       +   +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ 
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDR 134
Query: 128 K 128
           K
Sbjct: 135 K 135

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 72/145 (49%), Gaps = 14/145 (9%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I +    F  DY PT+ D++  +   +     L + DTAGQE+++ +R    R  
Sbjct: 31  KSALTIQFFQKIFVDDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTG 90
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           D F++ +S+  +AS+E+V    + I  ++      P++LV  K+DL            L 
Sbjct: 91  DGFLIVYSVTDKASFEHVDRFHQLILRVKDRE-SFPMILVANKVDLMH----------LR 139
Query: 139 PVTTAQGEELRKQIGASYYIECSSK 163
            VT  QG+E+  +     YIE S+K
Sbjct: 140 KVTRDQGKEMATKYNIP-YIETSAK 163

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 60.5 bits (145), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 31/106 (29%), Positives = 59/106 (55%), Gaps = 3/106 (2%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + + + +  F   Y PT+ D +   +  + +   L + DTAG E +  +R L  +  
Sbjct: 16  KSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNG 75
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDL 124
             F+L +SLV++ S++++  ++  I  ++ Y   VPV+LVG K+DL
Sbjct: 76  QGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEK-VPVILVGNKVDL 120

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 60.1 bits (144), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 37/119 (31%), Positives = 60/119 (50%), Gaps = 4/119 (3%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV--FDNFSANVVAEGTTVNLGLWDTAGQE 67
           K   +GDG VGKT  +      +F  +Y  TV   ++    +  +G  +   +WDTAGQE
Sbjct: 13  KICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQE 72
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQH-YSPGVPVVLVGTKLDLR 125
               L+ + Y GA   +L F + SR + +N L +W+ E Q       P+V+   K+D++
Sbjct: 73  KKAVLKDVYYIGASGAILFFDVTSRITCQN-LARWVKEFQAVVGNEAPIVVCANKIDIK 130

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 60.1 bits (144), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 72/145 (49%), Gaps = 14/145 (9%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I +    F  DY PT+ D++  +   +     L + DTAGQE+++ +R    R  
Sbjct: 26  KSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTG 85
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           D F++ +S+  +AS+E+V    + I  ++      P++LV  K+DL            L 
Sbjct: 86  DGFLIVYSVTDKASFEHVDRFHQLILRVKDRE-SFPMILVANKVDLMH----------LR 134
Query: 139 PVTTAQGEELRKQIGASYYIECSSK 163
            VT  QG+E+  +     YIE S+K
Sbjct: 135 KVTRDQGKEMATKYNIP-YIETSAK 158

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 59.3 bits (142), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 72/145 (49%), Gaps = 14/145 (9%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I +    F  +Y PT+ D++  +   +     L + DTAGQE+++ +R    R  
Sbjct: 31  KSALTIQFFQKIFVDEYDPTIEDSYRKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTG 90
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           D F++ +S+  +AS+E+V    + I  ++      P++LV  K+DL            L 
Sbjct: 91  DGFLIVYSVTDKASFEHVDRFHQLILRVKDRE-SFPMILVANKVDLMH----------LR 139
Query: 139 PVTTAQGEELRKQIGASYYIECSSK 163
            VT  QG+E+  +     YIE S+K
Sbjct: 140 KVTRDQGKEMATKYNIP-YIETSAK 163

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 48/176 (27%), Positives = 88/176 (50%), Gaps = 28/176 (15%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           M  S SR  K   +G  +VGK+ + I +   +F   Y PT+ + F+  +   G   +L L
Sbjct: 1   MPQSKSR--KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQL 58
Query: 61  WDTAGQEDYNRLRPLSYRGADV--FVLAFSLVSRASYENV------LKKWIPELQHYSPG 112
            DTAGQ++Y+ + P +Y   D+  ++L +S+ S  S+E +      L   + ++Q     
Sbjct: 59  VDTAGQDEYS-IFPQTY-SIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ----- 111
Query: 113 VPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC 168
           +P++LVG K DL  ++           ++  +G+ L +   A+ ++E S+K  Q  
Sbjct: 112 IPIMLVGNKKDLHMER----------VISYEEGKALAESWNAA-FLESSAKENQTA 156

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 41/129 (31%), Positives = 61/129 (47%), Gaps = 7/129 (5%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGT-TVNLGLW 61
           S  R +K V +GDGA GKT +  C+    F   Y  T+  D F   +   G   V L +W
Sbjct: 2   SHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIW 61
Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKW---IPELQHYSPGVPVV-L 117
           D  GQ    ++      GA   +L + + +  S+EN L+ W   + ++   S   P+V L
Sbjct: 62  DIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFEN-LEDWYTVVKKVSEESETQPLVAL 120
Query: 118 VGTKLDLRE 126
           VG K+DL  
Sbjct: 121 VGNKIDLEH 129

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 58.5 bits (140), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 48/176 (27%), Positives = 88/176 (50%), Gaps = 28/176 (15%)
Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           M  S SR  K   +G  +VGK+ + I +   +F   Y PT+ + F+  +   G   +L L
Sbjct: 1   MPQSKSR--KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQL 58
Query: 61  WDTAGQEDYNRLRPLSYRGADV--FVLAFSLVSRASYENV------LKKWIPELQHYSPG 112
            DTAGQ++Y+ + P +Y   D+  ++L +S+ S  S+E +      L   + ++Q     
Sbjct: 59  VDTAGQDEYS-IFPQTY-SIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ----- 111
Query: 113 VPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC 168
           +P++LVG K DL  ++           ++  +G+ L +   A+ ++E S+K  Q  
Sbjct: 112 IPIMLVGNKKDLHMER----------VISYEEGKALAESWNAA-FLESSAKENQTA 156

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 72/145 (49%), Gaps = 14/145 (9%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ + I +    F  +Y PT+ D++  +   +     L + DTAGQE+++ +R    R  
Sbjct: 31  KSALTIQFFQKIFVPEYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTG 90
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV 138
           D F++ +S+  +AS+E+V    + I  ++      P++LV  K+DL            L 
Sbjct: 91  DGFLIVYSVTDKASFEHVDRFHQLILRVKDRE-SFPMILVANKVDLMH----------LR 139
Query: 139 PVTTAQGEELRKQIGASYYIECSSK 163
            VT  QG+E+  +     YIE S+K
Sbjct: 140 KVTRDQGKEMATKYNIP-YIETSAK 163

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 57.0 bits (136), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 44/167 (26%), Positives = 84/167 (50%), Gaps = 26/167 (15%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K   +G  +VGK+ + I +   +F   Y PT+ + F+  +   G   +L L DTAGQ++Y
Sbjct: 3   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEY 62
Query: 70  NRLRPLSYRGADV--FVLAFSLVSRASYENV------LKKWIPELQHYSPGVPVVLVGTK 121
           + + P +Y   D+  ++L +S+ S  S+E +      L   + ++Q     +P++LVG K
Sbjct: 63  S-IFPQTY-SIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ-----IPIMLVGNK 115
Query: 122 LDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC 168
            DL  ++           ++  +G+ L +   A+ ++E S+K  Q  
Sbjct: 116 KDLHMER----------VISYEEGKALAESWNAA-FLESSAKENQTA 151

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 29/105 (27%), Positives = 53/105 (50%), Gaps = 2/105 (1%)
Query: 21  KTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA 80
           K+ +++ +    F   YIPT+ D +   +  + +   L + DT G   +  ++ LS    
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKG 80
Query: 81  DVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLD 123
             F+L FS+ S+ S E +  + K I +++     +PV+LVG K D
Sbjct: 81  HAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCD 125

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 46/173 (26%), Positives = 86/173 (49%), Gaps = 28/173 (16%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           S SR  K   +G  +VGK+ + I +   +F     PT+ + F+  +   G   +L L DT
Sbjct: 2   SKSR--KIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTFTKLITVNGQEYHLQLVDT 59
Query: 64  AGQEDYNRLRPLSYRGADV--FVLAFSLVSRASYENV------LKKWIPELQHYSPGVPV 115
           AGQ++Y+ + P +Y   D+  ++L +S+ S  S+E +      L   + ++Q     +P+
Sbjct: 60  AGQDEYS-IFPQTY-SIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ-----IPI 112
Query: 116 VLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC 168
           +LVG K DL  ++           ++  +G+ L +   A+ ++E S+K  Q  
Sbjct: 113 MLVGNKKDLHMER----------VISYEEGKALAESWNAA-FLESSAKENQTA 154

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 30/96 (31%), Positives = 50/96 (52%), Gaps = 9/96 (9%)
Query: 56  VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPV 115
           +   +WDTAGQE Y  + PL YRGA   ++ F  +S ++  +  K W+ +L+  S    +
Sbjct: 93  IKFDIWDTAGQERYASIVPLYYRGATCAIVVFD-ISNSNTLDRAKTWVNQLK-ISSNYII 150
Query: 116 VLVGTKL-------DLREDKHYLADHPGLVPVTTAQ 144
           +LV  K+       D+ E + Y  D+  L   T+A+
Sbjct: 151 ILVANKIDKNKFQVDILEVQKYAQDNNLLFIQTSAK 186

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 38/118 (32%), Positives = 53/118 (44%), Gaps = 16/118 (13%)
Query: 14  VGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLR 73
           VG    GKT  +    S +F  D IPTV   F+   V +G  V + +WD  GQ  +  + 
Sbjct: 28  VGLQYSGKTTFVNVIASGQFSEDMIPTV--GFNMRKVTKG-NVTIKIWDIGGQPRFRSMW 84
Query: 74  PLSYRGADVFVLAFSLVSRASYE-------NVLKKWIPELQHYSPGVPVVLVGTKLDL 124
               RG +  V       R   E       N+L K  P+LQ    G+PV+++G K DL
Sbjct: 85  ERYCRGVNAIVYMIDAADREKIEASRNELHNLLDK--PQLQ----GIPVLVLGNKRDL 136

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 46.2 bits (108), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 35/112 (31%), Positives = 50/112 (44%), Gaps = 16/112 (14%)
Query: 20  GKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG 79
           GKT  +    S +F  D IPTV   F+   + +G  V + LWD  GQ  +  +     RG
Sbjct: 34  GKTTFVNVIASGQFNEDMIPTV--GFNMRKITKG-NVTIKLWDIGGQPRFRSMWERYCRG 90
Query: 80  ADVFVLAFSLVSRASYE-------NVLKKWIPELQHYSPGVPVVLVGTKLDL 124
               V       +   E       N+L K  P+LQ    G+PV+++G K DL
Sbjct: 91  VSAIVYMVDAADQEKIEASKNELHNLLDK--PQLQ----GIPVLVLGNKRDL 136

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 54/123 (43%), Gaps = 16/123 (13%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           ++   VG    GKT  +    S +F  D IPTV   F+   + +G  V + LWD  GQ  
Sbjct: 32  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTV--GFNMRKITKG-NVTIKLWDIGGQPR 88
Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYE-------NVLKKWIPELQHYSPGVPVVLVGTK 121
           +  +     RG    V       +   E       N+L K  P+LQ    G+PV+++G K
Sbjct: 89  FRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDK--PQLQ----GIPVLVLGNK 142
Query: 122 LDL 124
            DL
Sbjct: 143 RDL 145

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 42/129 (32%), Positives = 59/129 (45%), Gaps = 10/129 (7%)
Query: 10  KCVTVGDGAVGKTCMLICYTS--NKFPTDYIPTV-FDNFSANVVAEGTTVN--LGLWDTA 64
           K   VG+  VGK+ ++  +TS  +KF  DY  T   +   A V    TTV+  L L DTA
Sbjct: 22  KVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTA 81
Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPG----VPVVLVGT 120
           G + Y       + G    +L F + S  S+E+  K W   L+   P     +  VLV  
Sbjct: 82  GSDLYKEQISQYWNGVYYAILVFDVSSMESFESC-KAWFELLKSARPDRERPLRAVLVAN 140
Query: 121 KLDLREDKH 129
           K DL   +H
Sbjct: 141 KTDLPPQRH 149

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 28/123 (22%), Positives = 57/123 (46%), Gaps = 8/123 (6%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVF--DNFSANVVAEG---TTVNLGLWD 62
           + + V +G+  VGK+ +   +       D    V   D +   ++ +G   T + L +W+
Sbjct: 6   YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWE 65
Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIP-ELQHYSPGVPVVLVGTK 121
             G+ ++  L     +  D +++ +S+  RAS+E   +  I       +  +P++LVG K
Sbjct: 66  NKGENEW--LHDHXMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 123
Query: 122 LDL 124
            DL
Sbjct: 124 SDL 126

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/129 (22%), Positives = 60/129 (46%), Gaps = 8/129 (6%)
Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVF--DNFSANVVAEG---TTV 56
           + S + + + V +G+  VGK+ +   +       D    V   D +   ++ +G   T +
Sbjct: 31  SESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATII 90
Query: 57  NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIP-ELQHYSPGVPV 115
            L +W+  G+ ++  L     +  D +++ +S+  RAS+E   +  I       +  +P+
Sbjct: 91  LLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPI 148
Query: 116 VLVGTKLDL 124
           +LVG K DL
Sbjct: 149 ILVGNKSDL 157

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 28/123 (22%), Positives = 57/123 (46%), Gaps = 8/123 (6%)
Query: 8   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVF--DNFSANVVAEG---TTVNLGLWD 62
           + + V +G+  VGK+ +   +       D    V   D +   ++ +G   T + L +W+
Sbjct: 6   YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWE 65
Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIP-ELQHYSPGVPVVLVGTK 121
             G+ ++  L     +  D +++ +S+  RAS+E   +  I       +  +P++LVG K
Sbjct: 66  NKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 123
Query: 122 LDL 124
            DL
Sbjct: 124 SDL 126

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 43.1 bits (100), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 29/127 (22%), Positives = 59/127 (46%), Gaps = 8/127 (6%)
Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVF--DNFSANVVAEG---TTVNL 58
           S + + + V +G+  VGK+ +   +       D    V   D +   ++ +G   T + L
Sbjct: 2   SGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILL 61
Query: 59  GLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIP-ELQHYSPGVPVVL 117
            +W+  G+ ++  L     +  D +++ +S+  RAS+E   +  I       +  +P++L
Sbjct: 62  DMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIIL 119
Query: 118 VGTKLDL 124
           VG K DL
Sbjct: 120 VGNKSDL 126

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/118 (25%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT--AGQE 67
           + V +GD  VGKT +   +   +    +     D +   +  +G    L + DT  A + 
Sbjct: 6   RVVLLGDPGVGKTSLASLFAGKQERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKL 65
Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIP-ELQHYSPGVPVVLVGTKLDL 124
           D +  +    +G   +V+ +S+  R S+E+  +  I     H +  VP++LVG K DL
Sbjct: 66  DKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADL 123

>pdb|3D6T|B Chain B, Structure Of The Roc Domain From The Parkinson's Disease-Associated Leucine-Rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 171

Iteration: 1
 Score = 40.0 bits (92), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 38/75 (50%)
Query: 58  LGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVL 117
           L +WD AG+E++    P       +++  + L    +  +  K W+  ++  +   PV+L
Sbjct: 56  LNVWDFAGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPVIL 115
Query: 118 VGTKLDLREDKHYLA 132
           VGT LD+ ++K   A
Sbjct: 116 VGTHLDVSDEKQRKA 130

>pdb|2ZEJ|A Chain A, Structure Of The Roc Domain From The Parkinson's Disease-associated Leucine-rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 184

Iteration: 1
 Score = 39.7 bits (91), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 38/75 (50%)
Query: 58  LGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVL 117
           L +WD AG+E++    P       +++  + L    +  +  K W+  ++  +   PV+L
Sbjct: 58  LNVWDFAGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPVIL 117
Query: 118 VGTKLDLREDKHYLA 132
           VGT LD+ ++K   A
Sbjct: 118 VGTHLDVSDEKQRKA 132

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 39.7 bits (91), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 37/156 (23%), Positives = 72/156 (46%), Gaps = 22/156 (14%)
Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           +    +G    GK+ + + + + +F ++Y P + D +S+    +   V+L + DTA  + 
Sbjct: 22  VNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEETVDHQPVHLRVMDTADLDT 81
Query: 69  -YNRLRPLSYRGADVFVLAFSL------VSRASYENVLKKWIPELQHYSPGVPVVLVGTK 121
             N  R L++  A  F++ +S+       S +SY  +L     E Q     +P +L+G K
Sbjct: 82  PRNCERYLNW--AHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQR---SIPALLLGNK 136
Query: 122 LDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYY 157
           LD+ + +           VT A+G  L  + G  ++
Sbjct: 137 LDMAQYRQ----------VTKAEGVALAGRFGCLFF 162

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	168
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	1e-100
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	9e-98
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-97
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	1e-94
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	1e-93
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	2e-93
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	3e-93
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	4e-93
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	6e-92
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	1e-90
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	1e-90
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	1e-88
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	2e-86
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	3e-77
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	2e-44
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	3e-44
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	4e-44
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	4e-44
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	7e-44
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	1e-43
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	2e-43
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	3e-43
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	7e-43
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	8e-43
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	3e-42
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	3e-42
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	4e-42
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	7e-42
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	2e-41
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	6e-40
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	2e-39
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	3e-39
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	6e-39
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	1e-38
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	2e-38
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	3e-38
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	4e-38
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	4e-38
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	1e-37
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	2e-37
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	2e-37
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	3e-37
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	3e-37
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	3e-37
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	4e-37
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	5e-37
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	7e-37
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	8e-37
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	1e-36
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	2e-36
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	2e-36
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-35
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	1e-35
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	1e-35
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	1e-35
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-35
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	2e-35
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	2e-35
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	2e-35
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	2e-35
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	3e-35
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	5e-35
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	5e-35
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	6e-35
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	9e-35
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-34
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-34
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-34
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-34
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	1e-34
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	2e-34
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	3e-34
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	3e-34
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	3e-34
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	5e-34
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	7e-34
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	8e-34
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	1e-33
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	3e-33
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	4e-33
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	5e-33
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	3e-31
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	1e-29
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	4e-27
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	1e-12
3llu_A	196	RAS-related GTP-binding protein C; structural geno	2e-10
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	4e-10
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	5e-10
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	9e-06
2fh5_B	214	SR-beta, signal recognition particle receptor beta	6e-04

>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 =  286 bits (734), Expect = e-100
 Identities = 133/163 (81%), Positives = 148/163 (90%), Gaps = 2/163 (1%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           S S+FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV  +G  VNLGLWDT
Sbjct: 5   SVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVAVDGQIVNLGLWDT 64

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AGQEDY+RLRPLSYRGAD+FVLAFSL+S+ASYENVLKKW+PEL+ ++P VP+VLVGTKLD
Sbjct: 65  AGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLD 124

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR+DK YLADH     +T+ QGEELRKQIGA+ YIECSSKTQQ
Sbjct: 125 LRDDKGYLADHTN--VITSTQGEELRKQIGAAAYIECSSKTQQ 165

>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 =  278 bits (714), Expect = 9e-98
 Identities = 135/165 (81%), Positives = 150/165 (90%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
           + SASRFIKCVTVGDGAVGKTC+LI YTSN FPTDY+PTVFDNFSANVV  G TVNLGLW
Sbjct: 2   SMSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVNGATVNLGLW 61

Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK 121
           DTAGQEDYNRLRPLSYRGADVF+LAFSL+S+ASYENV KKWIPEL+HY+PGVP+VLVGTK
Sbjct: 62  DTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTK 121

Query: 122 LDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LDLR+DK +  DHPG VP+TT QGEEL+K IGA  YIECSSK+Q+
Sbjct: 122 LDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQE 166

>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 =  278 bits (713), Expect = 2e-97
 Identities = 72/164 (43%), Positives = 105/164 (64%), Gaps = 8/164 (4%)

Query: 3   SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWD 62
            +  + +K V VGDGAVGKTC+L+ ++  + PT Y+PTVF+NFS  +  +     L LWD
Sbjct: 18  ENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMKYKNEEFILHLWD 77

Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKL 122
           TAGQE+Y+RLRPLSY  +DV +L F++ +R S++N+  KW PE++HY      VLVG K+
Sbjct: 78  TAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKV 137

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           DLR+D            VT  +G++L +++G   YIE SS  + 
Sbjct: 138 DLRKDGS--------DDVTKQEGDDLCQKLGCVAYIEASSVAKI 173

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  271 bits (695), Expect = 1e-94
 Identities = 82/167 (49%), Positives = 116/167 (69%), Gaps = 2/167 (1%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
             +  R +KCV VGDGAVGKT +++ YT+N +PT+YIPT FDNFSA V  +G  V L L 
Sbjct: 14  GGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSAVVSVDGRPVRLQLC 73

Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK 121
           DTAGQ+++++LRPL Y   D+F+L FS+VS +S++NV +KW+PE++ + P  P++LVGT+
Sbjct: 74  DTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQ 133

Query: 122 LDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            DLRED   L   D     PV     + L ++I A+ YIECS+ TQ+
Sbjct: 134 SDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQK 180

>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 =  270 bits (691), Expect = 1e-93
 Identities = 71/167 (42%), Positives = 104/167 (62%), Gaps = 2/167 (1%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
           A    R +K V VGDG  GKT +L+ +    FP  Y PTVF+ +  N+  +G  V+L +W
Sbjct: 28  APPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVNLQVKGKPVHLHIW 87

Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK 121
           DTAGQ+DY+RLRPL Y  A V +L F + S  S++N+  +W PE+ H+   VP+++VG K
Sbjct: 88  DTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCK 147

Query: 122 LDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            DLR+DK  +      GL PVT  +G+E+ + +GA  Y+ECS++   
Sbjct: 148 TDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHD 194

>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 =  269 bits (689), Expect = 2e-93
 Identities = 78/168 (46%), Positives = 111/168 (66%), Gaps = 2/168 (1%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           +   +    K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L L
Sbjct: 18  LYFQSMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVADIEVDGKQVELAL 77

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAGQEDY+RLRPLSY   DV ++ FS+ S  S EN+ +KW+PE++H+ P VP++LV  
Sbjct: 78  WDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVAN 137

Query: 121 KLDLREDKHYLADHP--GLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           K DLR D+H   +       PV T  G  +  +I A  Y+ECS+KT++
Sbjct: 138 KKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKE 185

>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 =  268 bits (686), Expect = 3e-93
 Identities = 64/168 (38%), Positives = 98/168 (58%), Gaps = 2/168 (1%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           M  + +   K V VGD   GKT +L  +  + FP +Y+PTVF+N++A+   +   + L L
Sbjct: 21  MDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSL 80

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDT+G   Y+ +RPLSY  +D  ++ F +    + ++VLKKW  E+Q + P   ++LVG 
Sbjct: 81  WDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGC 140

Query: 121 KLDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           K DLR D   L +  +    PV+  QG  + KQIGA+ YIECS+   +
Sbjct: 141 KSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSE 188

>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 =  268 bits (686), Expect = 4e-93
 Identities = 101/166 (60%), Positives = 125/166 (75%), Gaps = 2/166 (1%)

Query: 3   SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWD 62
               + IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWD
Sbjct: 25  YFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 84

Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKL 122
           TAGQEDY+RLRPLSY   DVF++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKL
Sbjct: 85  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKL 144

Query: 123 DLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           DLR+DK  +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 145 DLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 190

>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 =  265 bits (678), Expect = 6e-92
 Identities = 78/160 (48%), Positives = 112/160 (70%), Gaps = 2/160 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
            K V VGDGA GKTC+LI ++ ++FP  Y+PTVF+N+ A++  +G  V L LWDTAGQED
Sbjct: 26  KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQED 85

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR+D+
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDE 145

Query: 129 HYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           H   +       PV + +G ++  +I A  Y+ECS+KT++
Sbjct: 146 HTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKE 185

>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 =  261 bits (669), Expect = 1e-90
 Identities = 84/168 (50%), Positives = 122/168 (72%), Gaps = 2/168 (1%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
                +  +KCV VGDGAVGKTC+L+ Y ++ FP +Y+PTVFD+++ +V   G    LGL
Sbjct: 11  AHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGL 70

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           +DTAGQEDY+RLRPLSY   DVF++ FS+V+ AS++NV ++W+PEL+ Y+P VP +L+GT
Sbjct: 71  YDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGT 130

Query: 121 KLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           ++DLR+D   LA  +     P+   QG++L K+IGA  Y+ECS+ TQ+
Sbjct: 131 QIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQK 178

>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 =  261 bits (668), Expect = 1e-90
 Identities = 64/167 (38%), Positives = 98/167 (58%), Gaps = 2/167 (1%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
            S+ +   K V VGD   GKT +L  +  + FP +Y+PTVF+N++A+   +   + L LW
Sbjct: 1   GSNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLW 60

Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTK 121
           DT+G   Y+ +RPLSY  +D  ++ F +    + ++VLKKW  E+Q + P   ++LVG K
Sbjct: 61  DTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCK 120

Query: 122 LDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            DLR D   L +  +    PV+  QG  + KQIGA+ YIECS+   +
Sbjct: 121 SDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSE 167

>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 =  255 bits (654), Expect = 1e-88
 Identities = 100/164 (60%), Positives = 125/164 (76%), Gaps = 2/164 (1%)

Query: 5   ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTA 64
           + + IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTA
Sbjct: 2   SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTA 61

Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDL 124
           GQEDY+RLRPLSY   DV ++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDL
Sbjct: 62  GQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDL 121

Query: 125 REDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           R+DK  +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 122 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 165

>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 =  251 bits (643), Expect = 2e-86
 Identities = 62/165 (37%), Positives = 89/165 (53%), Gaps = 2/165 (1%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
                 K V VGD   GKT ML     + +P  Y+PTVF+N++A +  E   V L LWDT
Sbjct: 23  PVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDT 82

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           +G   Y+ +RPL Y  +D  +L F +    + ++ LKKW  E+  Y P   V+L+G K D
Sbjct: 83  SGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTD 142

Query: 124 LREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR D   L +  H    P++  QG  + KQ+GA  Y+E S+ T +
Sbjct: 143 LRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSE 187

>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 =  232 bits (593), Expect = 3e-77
 Identities = 99/168 (58%), Positives = 125/168 (74%), Gaps = 2/168 (1%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           +  +A   IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGL
Sbjct: 148 IDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGL 207

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGT 120
           WDTAG EDY+RLRPLSY   DVF++ FSLVS AS+ +V  KW PE++H+ P  P++LVGT
Sbjct: 208 WDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGT 267

Query: 121 KLDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           KLDLR+DK  +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 268 KLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 315

>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 =  143 bits (363), Expect = 2e-44
 Identities = 41/163 (25%), Positives = 78/163 (47%), Gaps = 14/163 (8%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
             S+  K   +G  +VGK+ + I +   +F   Y PT+ + F+  +   G   +L L DT
Sbjct: 2   PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDT 61

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL--QHYSPGVPVVLVGTK 121
           AGQ++Y+          + ++L +S+ S  S+E + K    +L        +P++LVG K
Sbjct: 62  AGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVI-KVIHGKLLDMVGKVQIPIMLVGNK 120

Query: 122 LDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            DL  ++           ++  +G+ L +   A+ ++E S+K 
Sbjct: 121 KDLHMERV----------ISYEEGKALAESWNAA-FLESSAKE 152

>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 =  143 bits (362), Expect = 3e-44
 Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 15/162 (9%)

Query: 6   SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG 65
           S   +    G G VGK+ +++ +    F   YIPTV D +   +  + +   L + DT G
Sbjct: 1   SNDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTG 60

Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY---SPGVPVVLVGTKL 122
              +  ++ LS      F+L +S+ SR S E + K    ++         +P++LVG K 
Sbjct: 61  SHQFPAMQRLSISKGHAFILVYSITSRQSLEEL-KPIYEQICEIKGDVESIPIMLVGNKC 119

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           D    +           V +++ E L +    + ++E S+K 
Sbjct: 120 DESPSRE----------VQSSEAEALARTWKCA-FMETSAKL 150

>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 =  143 bits (362), Expect = 4e-44
 Identities = 48/166 (28%), Positives = 73/166 (43%), Gaps = 14/166 (8%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           M    S   K V VG G VGK+ + I +  + F +DY PT+ D+++     +G    L +
Sbjct: 2   MDPPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDI 61

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLV 118
            DTAGQE++  +R    R    F+L F++  R S+  V  K   ++         PVVLV
Sbjct: 62  LDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEV-GKLFTQILRVKDRDDFPVVLV 120

Query: 119 GTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           G K DL   +           V  ++          + Y E S+K 
Sbjct: 121 GNKADLESQRQ----------VPRSEASAFGASHHVA-YFEASAKL 155

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  143 bits (363), Expect = 4e-44
 Identities = 49/165 (29%), Positives = 79/165 (47%), Gaps = 14/165 (8%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
                R+ K V +G   VGKT +   +   +F   Y PTV + +S  V       +L L 
Sbjct: 18  GMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYSKIVTLGKDEFHLHLV 77

Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL--QHYSPGVPVVLVG 119
           DTAGQ++Y+ L      G   +VL +S+ S  S++ + +    +L   H    VPVVLVG
Sbjct: 78  DTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVI-ESLYQKLHEGHGKTRVPVVLVG 136

Query: 120 TKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            K DL  ++           V   +G++L +  GA+ ++E S++ 
Sbjct: 137 NKADLSPERE----------VQAVEGKKLAESWGAT-FMESSARE 170

>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 =  142 bits (360), Expect = 7e-44
 Identities = 49/169 (28%), Positives = 82/169 (48%), Gaps = 14/169 (8%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           + S      K V VGDG VGK+ + I +    F  DY PT+ D++  +   +     L +
Sbjct: 11  VPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSYLKHTEIDNQWAILDV 70

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLV 118
            DTAGQE+++ +R    R  D F++ +S+  +AS+E+V  ++   +         P++LV
Sbjct: 71  LDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHV-DRFHQLILRVKDRESFPMILV 129

Query: 119 GTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV 167
             K+DL   +           VT  QG+E+  +     YIE S+K   +
Sbjct: 130 ANKVDLMHLRK----------VTRDQGKEMATKYNIP-YIETSAKDPPL 167

>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 =  141 bits (357), Expect = 1e-43
 Identities = 43/157 (27%), Positives = 82/157 (52%), Gaps = 14/157 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V +G G VGK+ + + + +  F   Y PT+ D +   +  + +   L + DTAG E +
Sbjct: 5   KVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQF 64

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTKLDLRED 127
             +R L  +    F+L +SLV++ S++++ K    ++        VPV+LVG K+DL  +
Sbjct: 65  ASMRDLYIKNGQGFILVYSLVNQQSFQDI-KPMRDQIIRVKRYEKVPVILVGNKVDLESE 123

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +           V++++G  L ++ G   ++E S+K+
Sbjct: 124 RE----------VSSSEGRALAEEWGCP-FMETSAKS 149

>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 =  141 bits (359), Expect = 2e-43
 Identities = 42/168 (25%), Positives = 79/168 (47%), Gaps = 19/168 (11%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           M   ++ + + V  G G VGK+ +++ +    F   YIPT+ D +   +  + +   L +
Sbjct: 2   MPEQSNDY-RVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYRQVISCDKSVCTLQI 60

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLV 118
            DT G   +  ++ LS      F+L FS+ S+ S E +  + K I +++     +PV+LV
Sbjct: 61  TDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLV 120

Query: 119 GTKLDL--REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           G K D   RE             V T + + + ++   + ++E S+K 
Sbjct: 121 GNKCDETQRE-------------VDTREAQAVAQEWKCA-FMETSAKM 154

>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 =  140 bits (355), Expect = 3e-43
 Identities = 46/160 (28%), Positives = 76/160 (47%), Gaps = 14/160 (8%)

Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
              K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G  V + + DTAGQ
Sbjct: 3   ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQ 62

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTKLDL 124
           EDY  +R   +R  + F+  FS+    S+      +  ++        VP +LVG K DL
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAAT-ADFREQILRVKEDENVPFLLVGNKSDL 121

Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            + +           V+  + +    Q   + Y+E S+KT
Sbjct: 122 EDKRQ----------VSVEEAKNRADQWNVN-YVETSAKT 150

>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 =  139 bits (352), Expect = 7e-43
 Identities = 52/157 (33%), Positives = 82/157 (52%), Gaps = 15/157 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VG G VGK+ + I    N F  +  PT+ D++   VV +G T  L + DTAGQE+Y
Sbjct: 5   KLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY 64

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTKLDLRED 127
           + +R    R  + F+  F++ +  S+E++  ++  +++    S  VP+VLVG K DL   
Sbjct: 65  SAMRDQYMRTGEGFLCVFAINNTKSFEDI-HQYREQIKRVKDSDDVPMVLVGNKSDLAAR 123

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
                       V + Q ++L +  G   YIE S+KT
Sbjct: 124 T-----------VESRQAQDLARSYGIP-YIETSAKT 148

>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 =  139 bits (353), Expect = 8e-43
 Identities = 46/165 (27%), Positives = 80/165 (48%), Gaps = 14/165 (8%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
           + ++    K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G  V + + 
Sbjct: 12  SQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDIL 71

Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVG 119
           DTAGQEDY  +R   +R  + F+  FS+    S+      +  ++        VP +LVG
Sbjct: 72  DTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAAT-ADFREQILRVKEDENVPFLLVG 130

Query: 120 TKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            K DL + +           V+  + +   +Q   + Y+E S+KT
Sbjct: 131 NKSDLEDKRQ----------VSVEEAKNRAEQWNVN-YVETSAKT 164

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score =  138 bits (350), Expect = 3e-42
 Identities = 55/168 (32%), Positives = 83/168 (49%), Gaps = 15/168 (8%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           +        K V VG G VGK+ + I    N F  +Y PT+ D++   VV +G T  L +
Sbjct: 14  LYFQGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDI 73

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLV 118
            DTAGQE+Y+ +R    R  + F+  F++ +  S+ ++   +  +++    S  VP+VLV
Sbjct: 74  LDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADI-NLYREQIKRVKDSDDVPMVLV 132

Query: 119 GTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           G K DL               V T Q  EL K  G   +IE S+KT+Q
Sbjct: 133 GNKCDLPTRT-----------VDTKQAHELAKSYGIP-FIETSAKTRQ 168

>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 =  138 bits (350), Expect = 3e-42
 Identities = 54/164 (32%), Positives = 84/164 (51%), Gaps = 15/164 (9%)

Query: 5   ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTA 64
            S   K V VG   VGK+ + I    N F  +Y PT+ D++   VV +G T  L + DTA
Sbjct: 1   GSTEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTA 60

Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTKL 122
           GQE+Y+ +R    R  + F+  F++ +  S+E++   +  +++    S  VP+VLVG K 
Sbjct: 61  GQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDI-HHYREQIKRVKDSEDVPMVLVGNKC 119

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           DL               V T Q ++L +  G   +IE S+KT+Q
Sbjct: 120 DLPSRT-----------VDTKQAQDLARSYGIP-FIETSAKTRQ 151

>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 =  138 bits (351), Expect = 4e-42
 Identities = 48/172 (27%), Positives = 81/172 (47%), Gaps = 20/172 (11%)

Query: 1   MASSAS------RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT 54
           MA++           K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G 
Sbjct: 1   MAANKPKGQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGE 60

Query: 55  TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPG 112
            V + + DTAGQEDY  +R   +R  + F+  FS+    S+      +  ++        
Sbjct: 61  EVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAAT-ADFREQILRVKEDEN 119

Query: 113 VPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           VP +LVG K DL + +           V+  + +   +Q   + Y+E S+KT
Sbjct: 120 VPFLLVGNKSDLEDKRQ----------VSVEEAKNRAEQWNVN-YVETSAKT 160

>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 =  136 bits (346), Expect = 7e-42
 Identities = 40/157 (25%), Positives = 77/157 (49%), Gaps = 13/157 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V +G G VGK+ + + +    F   Y PT+ D++   V  +     L + DTAG E +
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQF 64

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTKLDLRED 127
             +R L  +    F L +S+ +++++ ++ +    ++     +  VP++LVG K DL ++
Sbjct: 65  TAMRDLYMKNGQGFALVYSITAQSTFNDL-QDLREQILRVKDTEDVPMILVGNKCDLEDE 123

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +           V   QG+ L +Q     ++E S+K+
Sbjct: 124 RV----------VGKEQGQNLARQWCNCAFLESSAKS 150

>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 =  136 bits (346), Expect = 2e-41
 Identities = 44/166 (26%), Positives = 76/166 (45%), Gaps = 15/166 (9%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           + S  +K    G   VGK+ +++ + + +F  +Y PT+   +      +   V++ + DT
Sbjct: 24  AKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDT 83

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTK 121
           AGQED    R    R  + FVL + +  R S+E V       L        V ++LVG K
Sbjct: 84  AGQEDT-IQREGHMRWGEGFVLVYDITDRGSFEEV-LPLKNILDEIKKPKNVTLILVGNK 141

Query: 122 LDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV 167
            DL   +           V+T +GE+L  ++  + + ECS+ T + 
Sbjct: 142 ADLDHSRQ----------VSTEEGEKLATELACA-FYECSACTGEG 176

>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 =  132 bits (335), Expect = 6e-40
 Identities = 35/166 (21%), Positives = 73/166 (43%), Gaps = 17/166 (10%)

Query: 3   SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWD 62
                 +    +G    GK+ + + + + +F ++Y P + D +S+    +   V+L + D
Sbjct: 16  FQGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEETVDHQPVHLRVMD 75

Query: 63  TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY----SPGVPVVLV 118
           TA  +   R        A  F++ +S+ SR S+++    ++  L  +       +P +L+
Sbjct: 76  TADLDTP-RNCERYLNWAHAFLVVYSVDSRQSFDSS-SSYLELLALHAKETQRSIPALLL 133

Query: 119 GTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           G KLD+ + +           VT A+G  L  + G  ++ E S+  
Sbjct: 134 GNKLDMAQYRQ----------VTKAEGVALAGRFGCLFF-EVSACL 168

>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 =  130 bits (330), Expect = 2e-39
 Identities = 30/159 (18%), Positives = 60/159 (37%), Gaps = 15/159 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + +G   VGK+ +   +                +  ++V +G   +L ++D   Q+  
Sbjct: 4   KVLLLGAPGVGKSALARIFG-GVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGG 62

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTKLDLRED 127
             L        D +V+ +S+  + S+E    +   +L+    +  VP++LVG K DL   
Sbjct: 63  RWLPGHCMAMGDAYVIVYSVTDKGSFEKA-SELRVQLRRARQTDDVPIILVGNKSDLVRS 121

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +           V+  +G           +IE S+    
Sbjct: 122 RE----------VSVDEGRACAVVFDCK-FIETSAALHH 149

>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 =  130 bits (329), Expect = 3e-39
 Identities = 51/157 (32%), Positives = 72/157 (45%), Gaps = 13/157 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
           IK V VG+GAVGK+ M+  Y    F  DY  T+  D     +      V L LWDTAGQE
Sbjct: 6   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE 65

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           +++ +    YRGA   VL FS   R S+E +   W  ++      +P  LV  K+DL +D
Sbjct: 66  EFDAITKAYYRGAQACVLVFSTTDRESFEAI-SSWREKVVAEVGDIPTALVQNKIDLLDD 124

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
                       +   + E L K++    +   S K 
Sbjct: 125 SC----------IKNEEAEGLAKRLKLR-FYRTSVKE 150

>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 =  130 bits (330), Expect = 6e-39
 Identities = 47/169 (27%), Positives = 76/169 (44%), Gaps = 19/169 (11%)

Query: 1   MASSASR----FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTT 55
           MAS+A        K V VGDG  GKT  +  + + +F   Y+ T+  +            
Sbjct: 4   MASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP 63

Query: 56  VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPV 115
           +   +WDTAGQE +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+
Sbjct: 64  IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPI 122

Query: 116 VLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           VL G K+D+++ K              A+     ++    YY + S+K+
Sbjct: 123 VLCGNKVDIKDRK------------VKAKSIVFHRKKNLQYY-DISAKS 158

>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 =  130 bits (328), Expect = 1e-38
 Identities = 42/158 (26%), Positives = 72/158 (45%), Gaps = 15/158 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPT--VFDNFSANVVAEGTTVNLGLWDTAGQE 67
           K   +GDG VGKT  +      +F  +Y  T    ++    +  +G  +   +WDTAGQE
Sbjct: 13  KICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQE 72

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLRE 126
               L+ + Y GA   +L F + SR + +N+  +W+ E Q       P+V+   K+D++ 
Sbjct: 73  KKAVLKDVYYIGASGAILFFDVTSRITCQNL-ARWVKEFQAVVGNEAPIVVCANKIDIKN 131

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            +           ++     E+ K     Y+ E S+KT
Sbjct: 132 RQK----------ISKKLVMEVLKGKNYEYF-EISAKT 158

>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 =  128 bits (323), Expect = 2e-38
 Identities = 36/164 (21%), Positives = 65/164 (39%), Gaps = 16/164 (9%)

Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
              + V +GD  VGKT +   +   +    +     D +   +  +G    L + DT   
Sbjct: 3   ALYRVVLLGDPGVGKTSLASLFAGKQERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEA 62

Query: 67  E--DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL--QHYSPGVPVVLVGTKL 122
           E  D +  +    +G   +V+ +S+  R S+E+   +   +L   H +  VP++LVG K 
Sbjct: 63  EKLDKSWSQESCLQGGSAYVIVYSIADRGSFESA-SELRIQLRRTHQADHVPIILVGNKA 121

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           DL   +           V+  +G           +IE S+  Q 
Sbjct: 122 DLARCRE----------VSVEEGRACAVVFDCK-FIETSATLQH 154

>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 =  128 bits (324), Expect = 3e-38
 Identities = 37/161 (22%), Positives = 67/161 (41%), Gaps = 16/161 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVF-DNFSANVVAEGTTVNLGLWDTAGQED 68
           K + VG+  VGK+ +   +   +  + + P    D +   ++ +   V L ++D   Q D
Sbjct: 25  KVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGD 84

Query: 69  Y-NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ--HYSPGVPVVLVGTKLDLR 125
               LR    +  D F++ FS+  R S+  V  + +  L+       +PV+LVG K DL 
Sbjct: 85  AGGWLRDHCLQTGDAFLIVFSVTDRRSFSKV-PETLLRLRAGRPHHDLPVILVGNKSDLA 143

Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +           V+  +G  L   +    +IE S+    
Sbjct: 144 RSRE----------VSLEEGRHLAGTLSCK-HIETSAALHH 173

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  127 bits (321), Expect = 4e-38
 Identities = 34/161 (21%), Positives = 65/161 (40%), Gaps = 16/161 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQED 68
           K + VG+  VGK+ +   +   +    +     ++     ++ +   V L ++D   Q D
Sbjct: 4   KVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGD 63

Query: 69  YN-RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ--HYSPGVPVVLVGTKLDLR 125
               L+    +  D F++ FS+  R S+  V  + +  L+       +PV+LVG K DL 
Sbjct: 64  AGGWLQDHCLQTGDAFLIVFSVTDRRSFSKV-PETLLRLRAGRPHHDLPVILVGNKSDLA 122

Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +           V+  +G  L   +    +IE S+    
Sbjct: 123 RSRE----------VSLEEGRHLAGTLSCK-HIETSAALHH 152

>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 =  127 bits (322), Expect = 4e-38
 Identities = 51/168 (30%), Positives = 87/168 (51%), Gaps = 16/168 (9%)

Query: 1   MASSASRF--IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVN 57
           MA++ ++    K V +GD   GK+ +++ +  ++F      T+    FS  +     TV 
Sbjct: 3   MAAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVK 62

Query: 58  LGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVV 116
             +WDTAGQE Y+ L P+ YRGA   ++ F + ++AS+E   KKW+ ELQ   +P + + 
Sbjct: 63  FEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERA-KKWVQELQAQGNPNMVMA 121

Query: 117 LVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           L G K DL + +           VT    +   ++ G  +++E S+KT
Sbjct: 122 LAGNKSDLLDARK----------VTAEDAQTYAQENGL-FFMETSAKT 158

>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 =  126 bits (319), Expect = 1e-37
 Identities = 31/158 (19%), Positives = 59/158 (37%), Gaps = 17/158 (10%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           +K   VG+ + GK+ ++  Y +  +  +  P     F   +V +G +  L + D  G  +
Sbjct: 21  LKVGIVGNLSSGKSALVHRYLTGTYVQEESPEG-GRFKKEIVVDGQSYLLLIRDEGGPPE 79

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTKLDLRE 126
                       D  V  FSL    S++ V   +   L  +  +  VP+VLVGT+  +  
Sbjct: 80  LQ-----FAAWVDAVVFVFSLEDEISFQTV-YNYFLRLCSFRNASEVPMVLVGTQDAISA 133

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
                        +  ++  +L   +    Y E  +  
Sbjct: 134 ANP--------RVIDDSRARKLSTDLKRCTYYETCATY 163

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  126 bits (318), Expect = 2e-37
 Identities = 51/165 (30%), Positives = 73/165 (44%), Gaps = 13/165 (7%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLG 59
           MA       K + +GD  VGK+ +L+ +  N F   YI T+  D     V   G  V L 
Sbjct: 2   MARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQ 61

Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVG 119
           +WDTAGQE +  +    YRG    ++ + + S  S+ NV K+W+ E+      V  +LVG
Sbjct: 62  IWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNV-KRWLHEINQNCDDVCRILVG 120

Query: 120 TKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            K D  E K           V T    +   Q+G     E S+K 
Sbjct: 121 NKNDDPERKV----------VETEDAYKFAGQMGIQ-LFETSAKE 154

>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 =  126 bits (318), Expect = 2e-37
 Identities = 47/158 (29%), Positives = 77/158 (48%), Gaps = 13/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
            K V VGD +VGKTC++  + +  F      T+  D     +  +G  V L +WDTAGQE
Sbjct: 30  FKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQE 89

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            +  +    YR A+  +LA+ +  R+S+ +V   WI +++ Y    +  +L+G K DL E
Sbjct: 90  RFRTITQSYYRSANGAILAYDITKRSSFLSV-PHWIEDVRKYAGSNIVQLLIGNKSDLSE 148

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            +           V+ A+ + L +       IE S+K 
Sbjct: 149 LRE----------VSLAEAQSLAEHYDILCAIETSAKD 176

>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 =  125 bits (316), Expect = 3e-37
 Identities = 48/158 (30%), Positives = 83/158 (52%), Gaps = 14/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
            K V +G+G VGKT +++ Y  NKF   +I T+     +  +   G  VNL +WDTAGQE
Sbjct: 7   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQE 66

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            ++ L P+ YR ++  +L + +    S++ V K W+ EL+      + + +VG K+DL +
Sbjct: 67  RFHALGPIYYRDSNGAILVYDITDEDSFQKV-KNWVKELRKMLGNEICLCIVGNKIDLEK 125

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           ++H          V+  + E   + +GA  +   S+K 
Sbjct: 126 ERH----------VSIQEAESYAESVGA-KHYHTSAKQ 152

>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 =  124 bits (315), Expect = 3e-37
 Identities = 46/165 (27%), Positives = 77/165 (46%), Gaps = 15/165 (9%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGL 60
            +   +F K V +G+ AVGK+ +++ +   +F      T+     +  V  + TTV   +
Sbjct: 1   GNKICQF-KLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEI 59

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVG 119
           WDTAGQE Y+ L P+ YRGA   ++ + + +  S+    K W+ ELQ   SP + + L G
Sbjct: 60  WDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARA-KNWVKELQRQASPNIVIALSG 118

Query: 120 TKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            K DL   +           V   + +          ++E S+KT
Sbjct: 119 NKADLANKRA----------VDFQEAQSYADDNSL-LFMETSAKT 152

>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 =  125 bits (316), Expect = 3e-37
 Identities = 51/171 (29%), Positives = 81/171 (47%), Gaps = 17/171 (9%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEG-TTVNL 58
           M+S     +K + +GD  VGKT ++  Y ++K+   Y  T+  D  +  V  +G     +
Sbjct: 1   MSSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATM 60

Query: 59  GLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-----PGV 113
            +WDTAGQE +  L    YRGAD  VL + + + +S+EN+ K W  E   ++        
Sbjct: 61  QVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENI-KSWRDEFLVHANVNSPETF 119

Query: 114 PVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           P V++G K+D  E K           V+    +EL K +G       S+K 
Sbjct: 120 PFVILGNKIDAEESKK---------IVSEKSAQELAKSLGDIPLFLTSAKN 161

>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 =  126 bits (318), Expect = 4e-37
 Identities = 49/171 (28%), Positives = 81/171 (47%), Gaps = 19/171 (11%)

Query: 1   MASSAS-----RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGT 54
           M++        R  K V +G+ +VGKT ++  +  + F   Y  T+  D  S  +  E  
Sbjct: 4   MSTGGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDR 63

Query: 55  TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGV 113
           TV L LWDTAG E +  L P   R + V V+ + + +  S++    KWI +++      V
Sbjct: 64  TVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQT-TKWIDDVRTERGSDV 122

Query: 114 PVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            ++LVG K DL + +           V+  +GE   K++    +IE S+K 
Sbjct: 123 IIMLVGNKTDLADKRQ----------VSIEEGERKAKELNVM-FIETSAKA 162

>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 =  124 bits (314), Expect = 5e-37
 Identities = 27/169 (15%), Positives = 60/169 (35%), Gaps = 23/169 (13%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLW 61
           +  +   ++   +GD   GK+ ++  + +  +      T  + +   ++ +G T  + + 
Sbjct: 1   SMRSIPELRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQYKKEMLVDGQTHLVLIR 59

Query: 62  DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY----SPGVPVVL 117
           + AG  D           AD  +  FSL    S++  + +   +L         G+ + L
Sbjct: 60  EEAGAPDA-----KFSGWADAVIFVFSLEDENSFQA-VSRLHGQLSSLRGEGRGGLALAL 113

Query: 118 VGT--KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           VGT  ++     +           V  A+   L   +    Y E  +  
Sbjct: 114 VGTQDRISASSPR----------VVGDARARALXADMKRCSYYETXATY 152

>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 =  125 bits (315), Expect = 7e-37
 Identities = 47/158 (29%), Positives = 75/158 (47%), Gaps = 8/158 (5%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
            K V  GD AVGK+  L+    N+F  +   T+  D     ++ +G    L LWDTAGQE
Sbjct: 29  YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQE 88

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            +  +    +R AD  +L + +    S+ N+ ++W+  ++      VP++LVG K D+R+
Sbjct: 89  RFRSIAKSYFRKADGVLLLYDVTCEKSFLNI-REWVDMIEDAAHETVPIMLVGNKADIRD 147

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
                        V    GE+L    GA  + E S+K 
Sbjct: 148 TAATEGQK----CVPGHFGEKLAMTYGAL-FCETSAKD 180

>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 =  124 bits (313), Expect = 8e-37
 Identities = 52/170 (30%), Positives = 82/170 (48%), Gaps = 18/170 (10%)

Query: 1   MASSAS----RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTT 55
           M+S       R  K V +G+ +VGKT ++  +  + F   Y  T+  D  S  +  E  T
Sbjct: 3   MSSGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT 62

Query: 56  VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVP 114
           V L LWDTAGQE +  L P   R + V V+ + + +  S+     KWI +++      V 
Sbjct: 63  VRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQT-SKWIDDVRTERGSDVI 121

Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           ++LVG K DL + +           V+T +GE   K++    +IE S+K 
Sbjct: 122 IMLVGNKTDLSDKRQ----------VSTEEGERKAKELNV-MFIETSAKA 160

>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 =  124 bits (314), Expect = 1e-36
 Identities = 33/172 (19%), Positives = 73/172 (42%), Gaps = 21/172 (12%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNK--FPTDYIPTVFDNFSANVVAEGTTVNLG 59
           + S + + + V +G+  VGK+ +   +        +D      D +   ++ +G +  + 
Sbjct: 31  SESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATII 90

Query: 60  L---WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ--HYSPGVP 114
           L   W+  G+ ++  L     +  D +++ +S+  RAS+E    +   +L+    +  +P
Sbjct: 91  LLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKA-SELRIQLRRARQTEDIP 147

Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           ++LVG K DL   +           V+ ++G           +IE S+  Q 
Sbjct: 148 IILVGNKSDLVRCRE----------VSVSEGRACAVVFDCK-FIETSAAVQH 188

>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 =  123 bits (312), Expect = 2e-36
 Identities = 44/165 (26%), Positives = 77/165 (46%), Gaps = 14/165 (8%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGL 60
             SA R +K   +GD  VGK+ ++  +  + F  +  PT+     +  V          +
Sbjct: 17  RGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLI 76

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVG 119
           WDTAGQE ++ L P+ YRG+   V+ + +  + S+  + KKW+ EL+ +    + + + G
Sbjct: 77  WDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTL-KKWVKELKEHGPENIVMAIAG 135

Query: 120 TKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            K DL + +           V     +E  + IGA   +E S+K 
Sbjct: 136 NKCDLSDIRE----------VPLKDAKEYAESIGA-IVVETSAKN 169

>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 =  123 bits (310), Expect = 2e-36
 Identities = 53/170 (31%), Positives = 87/170 (51%), Gaps = 19/170 (11%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLG 59
           MA  +S F K + +GDG VGK+ ++  Y +NKF T    T+  +  + ++  +G  V + 
Sbjct: 1   MAGKSSLF-KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQ 59

Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-----PGVP 114
           +WDTAGQE +  LR   YRG+D  +L FS+    S++N+   W  E  +Y+        P
Sbjct: 60  IWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNL-SNWKKEFIYYADVKEPESFP 118

Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            V++G K+D+ E +           V+T + +   +  G   Y E S+K 
Sbjct: 119 FVILGNKIDISERQ-----------VSTEEAQAWCRDNGDYPYFETSAKD 157

>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 =  121 bits (307), Expect = 1e-35
 Identities = 50/169 (29%), Positives = 82/169 (48%), Gaps = 17/169 (10%)

Query: 1   MASSASRF---IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTV 56
           M+S    +    K + +GD  VGK+C+L+ +  + +   YI T+  D     +  +G T+
Sbjct: 23  MSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTI 82

Query: 57  NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPV 115
            L +WDTAGQE +  +    YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  
Sbjct: 83  KLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQWLQEIDRYASENVNK 141

Query: 116 VLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +LVG K DL   K           V     +E    +G   ++E S+K 
Sbjct: 142 LLVGNKCDLTTKKV----------VDYTTAKEFADSLGIP-FLETSAKN 179

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score =  121 bits (307), Expect = 1e-35
 Identities = 50/158 (31%), Positives = 76/158 (48%), Gaps = 14/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
            K V +G+  VGKTC++  +T   FP     T+  D     V   G  V L +WDTAGQE
Sbjct: 27  FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQE 86

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            +  +    YR A+  +L + +    S+  +  +W+ E++ Y S  V  VLVG K+DL E
Sbjct: 87  RFRSITQSYYRSANALILTYDITCEESFRCL-PEWLREIEQYASNKVITVLVGNKIDLAE 145

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            +           V+  + EE  +     YY+E S+K 
Sbjct: 146 RRE----------VSQQRAEEFSEAQDM-YYLETSAKE 172

>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 =  121 bits (306), Expect = 1e-35
 Identities = 46/158 (29%), Positives = 73/158 (46%), Gaps = 14/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
            K + +G+ +VGKT  L  Y  + F   ++ TV  D     V      + L +WDTAGQE
Sbjct: 23  FKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQE 82

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            Y  +    YRGA  F+L + + ++ S+  V + W  +++ Y      V+LVG K DL +
Sbjct: 83  RYRTITTAYYRGAMGFLLMYDIANQESFAAV-QDWATQIKTYSWDNAQVILVGNKCDLED 141

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           ++           V    G  L   +G   + E S+K 
Sbjct: 142 ERV----------VPAEDGRRLADDLGFE-FFEASAKE 168

>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 =  120 bits (304), Expect = 1e-35
 Identities = 39/167 (23%), Positives = 73/167 (43%), Gaps = 19/167 (11%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV---FDNFSANVVAEGTTVNL 58
            S+     K   +GD  VGK+ ++  +  + F  +  PT+   F   +  V  +      
Sbjct: 1   GSALREL-KVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASF--MTKTVQYQNELHKF 57

Query: 59  GLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVL 117
            +WDTAG E +  L P+ YRG+   ++ + +    ++  + K W+ EL+ +  P + V +
Sbjct: 58  LIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTL-KNWVRELRQHGPPSIVVAI 116

Query: 118 VGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            G K DL + +           V     ++    I A  ++E S+K 
Sbjct: 117 AGNKCDLTDVRE----------VMERDAKDYADSIHA-IFVETSAKN 152

>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 =  121 bits (305), Expect = 1e-35
 Identities = 46/166 (27%), Positives = 86/166 (51%), Gaps = 14/166 (8%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLG 59
           MA +     K + +GD  VGKTC+L  ++ + F + +I T+  +F    +  +G  + L 
Sbjct: 1   MAKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQ 60

Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLV 118
           +WDTAGQE +  +    YRGA   +L + + +  S++N+ + WI  ++ + S  V  +++
Sbjct: 61  IWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI-RNWIRNIEEHASADVEKMIL 119

Query: 119 GTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           G K D+ + +           V+  +GE+L    G   ++E S+K 
Sbjct: 120 GNKCDVNDKRQ----------VSKERGEKLALDYGIK-FMETSAKA 154

>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 =  121 bits (306), Expect = 2e-35
 Identities = 46/158 (29%), Positives = 72/158 (45%), Gaps = 14/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
            K V +G+  VGKT +L  +T N+F  D   T+  +  +  V+     V   +WDTAG E
Sbjct: 26  FKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLE 85

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            Y  +    YRGA   +L F L    +Y  V ++W+ EL  +    + V+LVG K DL +
Sbjct: 86  RYRAITSAYYRGAVGALLVFDLTKHQTYAVV-ERWLKELYDHAEATIVVMLVGNKSDLSQ 144

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            +           V T +     +  G   ++E S+  
Sbjct: 145 ARE----------VPTEEARMFAENNGL-LFLETSALD 171

>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 =  121 bits (305), Expect = 2e-35
 Identities = 49/158 (31%), Positives = 78/158 (49%), Gaps = 14/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQE 67
            K + +G+ +VGKT  L  Y  + F   ++ TV  +F    V      V L +WDTAGQE
Sbjct: 24  FKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQE 83

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            Y  +    YRGA  F+L + + +  S+  V + W  +++ Y      V+LVG K D+ E
Sbjct: 84  RYRTITTAYYRGAMGFILMYDITNEESFNAV-QDWATQIKTYSWDNAQVILVGNKCDMEE 142

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           ++           V T +G+ L +Q+G   + E S+K 
Sbjct: 143 ERV----------VPTEKGQLLAEQLGFD-FFEASAKE 169

>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 =  121 bits (305), Expect = 2e-35
 Identities = 43/158 (27%), Positives = 76/158 (48%), Gaps = 14/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQE 67
            K + +G+ +VGKT  L  Y  + F   ++ TV  +F    +      + L +WDTAG E
Sbjct: 9   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLE 68

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            Y  +    YRGA  F+L + + +  S+  V + W  +++ Y      V+LVG K D+ +
Sbjct: 69  RYRTITTAYYRGAMGFILMYDITNEESFNAV-QDWSTQIKTYSWDNAQVLLVGNKCDMED 127

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           ++           V++ +G +L   +G   + E S+K 
Sbjct: 128 ERV----------VSSERGRQLADHLGFE-FFEASAKD 154

>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 =  120 bits (304), Expect = 2e-35
 Identities = 45/158 (28%), Positives = 77/158 (48%), Gaps = 13/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQE 67
           ++ + +G   VGKT ++  +T + F      TV  +F    V   G  + L +WDTAGQE
Sbjct: 27  LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQE 86

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            +N +    YR A   +L + +  + +++++  KW+  +  Y S    ++LVG KLD   
Sbjct: 87  RFNSITSAYYRSAKGIILVYDITKKETFDDL-PKWMKMIDKYASEDAELLLVGNKLDCET 145

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           D+           +T  QGE+  +QI    + E S+K 
Sbjct: 146 DRE----------ITRQQGEKFAQQITGMRFCEASAKD 173

>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 =  120 bits (304), Expect = 3e-35
 Identities = 44/158 (27%), Positives = 80/158 (50%), Gaps = 14/158 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
            K + +GD  VGK+C+L+ +T  +F   +  T+  +  +  V  +G  + L +WDTAGQE
Sbjct: 22  FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQE 81

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPEL-QHYSPGVPVVLVGTKLDLRE 126
            +  +    YRGA   +L + +  R ++ ++   W+ +  QH S  + ++L+G K DL  
Sbjct: 82  SFRSITRSYYRGAAGALLVYDITRRETFNHL-TSWLEDARQHSSSNMVIMLIGNKSDLES 140

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            +           V   +GE   ++ G   ++E S+KT
Sbjct: 141 RRD----------VKREEGEAFAREHGL-IFMETSAKT 167

>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 =  120 bits (303), Expect = 5e-35
 Identities = 47/170 (27%), Positives = 74/170 (43%), Gaps = 18/170 (10%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLG 59
           M S     +K + +GD  VGKT ++  Y + KF   Y  T+  D  +  V+ +   V + 
Sbjct: 1   MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQ 60

Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-----PGVP 114
           +WDTAGQE +  L    YRGAD  VL F + +  +++ +   W  E    +        P
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTL-DSWRDEFLIQASPRDPENFP 119

Query: 115 VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            V++G K+DL   +           V T + +          Y E S+K 
Sbjct: 120 FVVLGNKIDLENRQ-----------VATKRAQAWCYSKNNIPYFETSAKE 158

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  120 bits (302), Expect = 5e-35
 Identities = 50/169 (29%), Positives = 82/169 (48%), Gaps = 17/169 (10%)

Query: 1   MASSASRF---IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTV 56
           M+S    +    K + +GD  VGK+C+L+ +  + +   YI T+  D     +  +G T+
Sbjct: 6   MSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTI 65

Query: 57  NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPV 115
            L +WDTAGQE +  +    YRGA   ++ + +  + S+ NV K+W+ E+  Y S  V  
Sbjct: 66  KLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQWLQEIDRYASENVNK 124

Query: 116 VLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +LVG K DL   K           V     +E    +G   ++E S+K 
Sbjct: 125 LLVGNKCDLTTKKV----------VDYTTAKEFADSLGIP-FLETSAKN 162

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score =  120 bits (302), Expect = 6e-35
 Identities = 46/157 (29%), Positives = 79/157 (50%), Gaps = 14/157 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQED 68
           K V +GD  VGK+ +L  +T N+F  +   T+  +  + ++  +G T+   +WDTAG E 
Sbjct: 31  KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLER 90

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           Y  +    YRGA   +L + +    +YENV ++W+ EL+ +    + ++LVG K DLR  
Sbjct: 91  YRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELRDHADSNIVIMLVGNKSDLRHL 149

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +           V T +     ++ G   +IE S+  
Sbjct: 150 RA----------VPTDEARAFAEKNGL-SFIETSALD 175

>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 =  119 bits (301), Expect = 9e-35
 Identities = 57/172 (33%), Positives = 79/172 (45%), Gaps = 31/172 (18%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-----------FDNFSANVVAEGTTVN 57
           IK + +GD  VGKT +L  YT  KF + +I TV             N     V  G  ++
Sbjct: 12  IKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIH 71

Query: 58  LGLWDTAGQEDYNRLRPLS---YRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPG 112
           L LWDTAG E   R R L+   +R A  F+L F L +  S+ NV + WI +LQ +  S  
Sbjct: 72  LQLWDTAGLE---RFRSLTTAFFRDAMGFLLLFDLTNEQSFLNV-RNWISQLQMHAYSEN 127

Query: 113 VPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
             +VL G K DL + +           V   +  EL ++ G   Y E S+  
Sbjct: 128 PDIVLCGNKSDLEDQRA----------VKEEEARELAEKYGIP-YFETSAAN 168

>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 =  119 bits (300), Expect = 1e-34
 Identities = 43/166 (25%), Positives = 75/166 (45%), Gaps = 14/166 (8%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLG 59
           M+ +     K + +G+   GK+C+L  +   KF  D   T+  +  S  +   G  V L 
Sbjct: 3   MSETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQ 62

Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLV 118
           +WDTAGQE +  +    YRGA   +L + + SR +Y  +   W+ + +   S  + ++L 
Sbjct: 63  IWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNAL-TNWLTDARMLASQNIVIILC 121

Query: 119 GTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           G K DL  D+           VT  +     ++     ++E S+ T
Sbjct: 122 GNKKDLDADRE----------VTFLEASRFAQENELM-FLETSALT 156

>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 =  119 bits (301), Expect = 1e-34
 Identities = 46/166 (27%), Positives = 80/166 (48%), Gaps = 14/166 (8%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLG 59
           M S      K + +G+  VGK+C+L+ ++ + +  DYI T+  +F    V  +G TV L 
Sbjct: 1   MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQ 60

Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLV 118
           +WDTAGQE +  +    YRG+   ++ + +  + S+  V K W+ E+  Y +  V  +LV
Sbjct: 61  IWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGV-KMWLQEIDRYATSTVLKLLV 119

Query: 119 GTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           G K DL++ +           V     +E         ++E S+  
Sbjct: 120 GNKCDLKDKRV----------VEYDVAKEFADANKMP-FLETSALD 154

>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 =  119 bits (300), Expect = 1e-34
 Identities = 46/157 (29%), Positives = 75/157 (47%), Gaps = 14/157 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQED 68
           K + +G    GK+C+L  +  NKF  D   T+  +  S  V   G TV L +WDTAGQE 
Sbjct: 27  KFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQER 86

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           +  +    YRGA   +L + + SR +Y ++   W+ + +   SP + V+L G K DL  +
Sbjct: 87  FRSVTRSYYRGAAGALLVYDITSRETYNSL-AAWLTDARTLASPNIVVILCGNKKDLDPE 145

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +           VT  +     ++     ++E S+ T
Sbjct: 146 RE----------VTFLEASRFAQENELM-FLETSALT 171

>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 =  118 bits (299), Expect = 1e-34
 Identities = 42/157 (26%), Positives = 80/157 (50%), Gaps = 14/157 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQED 68
           K + +GD  VGK+C+L  +T  KF  D   T+  +  +  +   G  + L +WDTAGQE 
Sbjct: 17  KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQER 76

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           +  +    YRGA   ++ + +  R++Y ++   W+ + ++  +P   ++L+G K DL   
Sbjct: 77  FRAVTRSYYRGAAGALMVYDITRRSTYNHL-SSWLTDARNLTNPNTVIILIGNKADLEAQ 135

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +           VT  + ++  ++ G   ++E S+KT
Sbjct: 136 RD----------VTYEEAKQFAEENGL-LFLEASAKT 161

>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 =  118 bits (298), Expect = 1e-34
 Identities = 33/165 (20%), Positives = 63/165 (38%), Gaps = 14/165 (8%)

Query: 6   SRFIKCVTVGDGAVGKTCMLICYTSNKFPT--DYIPTVFDNFSANVV----AEGTTVNLG 59
           +R  K + VG+   GKT +L      K         TV  +     +         + L 
Sbjct: 1   NRM-KLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLN 59

Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVG 119
           +WD AG+E++    P       +++  + L    +  + +K W+  ++  +   PV+LVG
Sbjct: 60  VWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVILVG 119

Query: 120 TKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           T LD+ ++K             +   +EL  + G     +     
Sbjct: 120 THLDVSDEKQ-------RKACMSKITKELLNKRGFPAIRDYHFVN 157

>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 =  118 bits (299), Expect = 2e-34
 Identities = 48/157 (30%), Positives = 81/157 (51%), Gaps = 14/157 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQED 68
           K V +GD  VGK+ +L  +T N+F  +   T+  +  + ++  +G T+   +WDTAGQE 
Sbjct: 7   KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQER 66

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
           Y R+    YRGA   +L + +    +YENV ++W+ EL+ +    + ++LVG K DLR  
Sbjct: 67  YRRITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELRDHADSNIVIMLVGNKSDLRHL 125

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +           V T +     ++   S +IE S+  
Sbjct: 126 RA----------VPTDEARAFAEKNNLS-FIETSALD 151

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  118 bits (298), Expect = 3e-34
 Identities = 41/172 (23%), Positives = 67/172 (38%), Gaps = 20/172 (11%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLI--CYTSNKFPTDYIPTV-FDNFSANVVAEGTTVN 57
           +  +A+   K   VG+  VGK+ ++       +KF  DY  T   +   A V    TTV+
Sbjct: 13  IDITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVS 72

Query: 58  LGLW--DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ----HYSP 111
           + L+  DTAG + Y       + G    +L F + S  S+E+  K W   L+        
Sbjct: 73  VELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESC-KAWFELLKSARPDRER 131

Query: 112 GVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK 163
            +  VLV  K DL   +H          V     ++         + + S+ 
Sbjct: 132 PLRAVLVANKTDLPPQRH---------QVRLDMAQDWATTNTLD-FFDVSAN 173

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score =  119 bits (299), Expect = 3e-34
 Identities = 47/171 (27%), Positives = 75/171 (43%), Gaps = 19/171 (11%)

Query: 1   MASSASR-----FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGT 54
           M+S           K V +GD  VGK+ +L  +T N+F  D   T+  +  +  +  EG 
Sbjct: 1   MSSEDYGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGK 60

Query: 55  TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGV 113
            +   +WDTAGQE Y  +    YRGA   ++ + +   +SYEN    W+ EL+      V
Sbjct: 61  RIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENC-NHWLSELRENADDNV 119

Query: 114 PVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            V L+G K DL   +           V T + +   ++     + E S+  
Sbjct: 120 AVGLIGNKSDLAHLRA----------VPTEESKTFAQENQLL-FTETSALN 159

>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 =  118 bits (298), Expect = 3e-34
 Identities = 60/184 (32%), Positives = 80/184 (43%), Gaps = 35/184 (19%)

Query: 1   MASSASR----FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV---F--------DNF 45
           +    S      IK + +GD  VGKT  L  YT NKF   +I TV   F           
Sbjct: 14  LVPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQG 73

Query: 46  SANVVAEGTTVNLGLWDTAGQEDYNRLRPLS---YRGADVFVLAFSLVSRASYENVLKKW 102
                 +   V+L LWDTAGQE   R R L+   +R A  F+L F L S+ S+ NV + W
Sbjct: 74  PNGSSGKAFKVHLQLWDTAGQE---RFRSLTTAFFRDAMGFLLMFDLTSQQSFLNV-RNW 129

Query: 103 IPELQHY--SPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC 160
           + +LQ         +VL+G K DL + +           V   Q  EL  + G   Y E 
Sbjct: 130 MSQLQANAYCENPDIVLIGNKADLPDQRE----------VNERQARELADKYGIP-YFET 178

Query: 161 SSKT 164
           S+ T
Sbjct: 179 SAAT 182

>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 =  117 bits (295), Expect = 5e-34
 Identities = 32/170 (18%), Positives = 69/170 (40%), Gaps = 21/170 (12%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDY--IPTVFDNFSANVVAEGTTVNLGL- 60
               + + V +G+  VGK+ +   +       D        D +   ++ +G +  + L 
Sbjct: 2   FGMTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILL 61

Query: 61  --WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ--HYSPGVPVV 116
             W+  G+ ++  L     +  D +++ +S+  RAS+E    +   +L+    +  +P++
Sbjct: 62  DMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKA-SELRIQLRRARQTEDIPII 118

Query: 117 LVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LVG K DL   +           V+ ++G           +IE S+  Q 
Sbjct: 119 LVGNKSDLVRXRE----------VSVSEGRAXAVVFDXK-FIETSAAVQH 157

>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 =  116 bits (293), Expect = 7e-34
 Identities = 50/158 (31%), Positives = 82/158 (51%), Gaps = 15/158 (9%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQE 67
           +K + +GD  VGK+C+L+ +  +KF   +I T+  +F    V   G  V L +WDTAGQE
Sbjct: 4   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE 63

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            +  +    YRGA   +L + +    ++ N+ K+W   +  + +    ++LVG K D+ E
Sbjct: 64  RFRTITTAYYRGAMGIILVYDITDERTFTNI-KQWFKTVNEHANDEAQLLLVGNKSDM-E 121

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            +           VT  QGE L K++G   +IE S+K 
Sbjct: 122 TRV----------VTADQGEALAKELGIP-FIESSAKN 148

>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 =  116 bits (293), Expect = 8e-34
 Identities = 41/162 (25%), Positives = 66/162 (40%), Gaps = 18/162 (11%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEG-TTVNLGLWDTAGQ 66
           +K V +GDGA GKT +  C+    F   Y  T+  D F   +   G   V L +WD  GQ
Sbjct: 7   LKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQ 66

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ----HYSPGVPVVLVGTKL 122
               ++      GA   +L + + +  S+EN+ + W   ++           V LVG K+
Sbjct: 67  TIGGKMLDKYIYGAQGVLLVYDITNYQSFENL-EDWYTVVKKVSEESETQPLVALVGNKI 125

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           DL   +           +   +     ++ G S     S+KT
Sbjct: 126 DLEHMRT----------IKPEKHLRFCQENGFS-SHFVSAKT 156

>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 =  117 bits (294), Expect = 1e-33
 Identities = 51/158 (32%), Positives = 82/158 (51%), Gaps = 15/158 (9%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQE 67
           +K + +GD  VGK+C+L+ +  +KF   +I T+  +F    V   G  V L LWDTAGQE
Sbjct: 21  MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQE 80

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRE 126
            +  +    YRGA   +L + +    ++ N+ K+W   +  + +    ++LVG K D+ E
Sbjct: 81  RFRTITTAYYRGAMGIILVYDVTDERTFTNI-KQWFKTVNEHANDEAQLLLVGNKSDM-E 138

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            +           VT  QGE L K++G   +IE S+K 
Sbjct: 139 TRV----------VTADQGEALAKELGIP-FIESSAKN 165

>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 =  115 bits (291), Expect = 3e-33
 Identities = 44/159 (27%), Positives = 78/159 (49%), Gaps = 16/159 (10%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
           +K + +G+  VGK+ +L+ +T + F  +   T+  D     +  +G    L +WDTAGQE
Sbjct: 16  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 75

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLR 125
            +  L P  YRGA   +L + +  R ++  +   W+ EL+ Y     +  +LVG K+D  
Sbjct: 76  RFRTLTPSYYRGAQGVILVYDVTRRDTFVKL-DNWLNELETYCTRNDIVNMLVGNKIDK- 133

Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           E++           V   +G +  ++     +IE S+KT
Sbjct: 134 ENRE----------VDRNEGLKFARKHSM-LFIEASAKT 161

>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 =  114 bits (288), Expect = 4e-33
 Identities = 50/159 (31%), Positives = 83/159 (52%), Gaps = 15/159 (9%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTD-YIPTV-FDNFSANVVAEGTTVNLGLWDTAGQ 66
            K + VGD  VGKTC+L+ +    F    +I TV  D  +  +  +G  V L +WDTAGQ
Sbjct: 11  FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ 70

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +    YR A   +L + + ++AS++N+ + W+ E+  Y    V ++L+G K+D  
Sbjct: 71  ERFRSVTHAYYRDAHALLLLYDVTNKASFDNI-QAWLTEIHEYAQHDVALMLLGNKVDSA 129

Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            ++           V    GE+L K+ G   ++E S+KT
Sbjct: 130 HERV----------VKREDGEKLAKEYGLP-FMETSAKT 157

>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 =  114 bits (288), Expect = 5e-33
 Identities = 46/166 (27%), Positives = 69/166 (41%), Gaps = 24/166 (14%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
            K + +GD  VGKTC+   + + +FP     T+  D     V  +G  + + LWDTAGQE
Sbjct: 21  FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQE 80

Query: 68  DYNRLRPLS-----YRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGT 120
              R R  S     YR     V  + + + AS+ ++   WI E + +     +P +LVG 
Sbjct: 81  ---RFRK-SMVQHYYRNVHAVVFVYDMTNMASFHSL-PAWIEECKQHLLANDIPRILVGN 135

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           K DLR              V T   ++           E S+K   
Sbjct: 136 KCDLRSAIQ----------VPTDLAQKFADTHSMP-LFETSAKNPN 170

>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 =  109 bits (275), Expect = 3e-31
 Identities = 47/158 (29%), Positives = 77/158 (48%), Gaps = 11/158 (6%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
           IK V +G+ AVGK+ +++ + SN F  +  PT+     +  V     TV   +WDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKLDLRE 126
            +  L P  YR A   ++ + +    S+    + W+ EL    S  + + LVG K+D  +
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKA-RHWVKELHEQASKDIIIALVGNKIDXLQ 122

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
           +            V   +GE+L ++ G   + E S+KT
Sbjct: 123 EGGERK-------VAREEGEKLAEEKGL-LFFETSAKT 152

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  112 bits (280), Expect = 1e-29
 Identities = 33/172 (19%), Positives = 51/172 (29%), Gaps = 24/172 (13%)

Query: 2   ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV---------AE 52
           A    + IK   +GDG  GKT +L       F      T   N                E
Sbjct: 35  ALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDE 94

Query: 53  GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPG 112
                   WD  GQE  +         + V++L        +  N    W+  ++ Y   
Sbjct: 95  LKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDS---RTDSN-KHYWLRHIEKYGGK 150

Query: 113 VPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
            PV++V  K+D     +          +   +  E    I    +   S K 
Sbjct: 151 SPVIVVMNKIDENPSYN----------IEQKKINERFPAIENR-FHRISCKN 191

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  100 bits (250), Expect = 4e-27
 Identities = 38/193 (19%), Positives = 72/193 (37%), Gaps = 52/193 (26%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV---------------------------- 41
           K V +G+ +VGK+ +++  T + F  +   T+                            
Sbjct: 9   KTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNI 68

Query: 42  ----------FDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVS 91
                       N   N       +   +WDTAGQE Y  + PL YRGA   ++ F + +
Sbjct: 69  NSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISN 128

Query: 92  RASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ 151
             + +   K W+ +L+       ++LV  K+D  + +           V   + ++  + 
Sbjct: 129 SNTLDRA-KTWVNQLKIS-SNYIIILVANKIDKNKFQ-----------VDILEVQKYAQD 175

Query: 152 IGASYYIECSSKT 164
                +I+ S+KT
Sbjct: 176 NNLL-FIQTSAKT 187

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 63.1 bits (153), Expect = 1e-12
 Identities = 26/130 (20%), Positives = 53/130 (40%), Gaps = 12/130 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTD---YIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
           K + +G    GK+ M     SN    D      T+  +   + +     + L LWD  GQ
Sbjct: 5   KLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATI--DVEHSHLRFLGNMTLNLWDCGGQ 62

Query: 67  EDY-----NRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVG 119
           + +      + +   ++   V +  F + S    +++    K + +L+ YSP   + ++ 
Sbjct: 63  DVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLL 122

Query: 120 TKLDLREDKH 129
            K+DL +   
Sbjct: 123 HKMDLVQLDK 132

>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 = 56.1 bits (135), Expect = 2e-10
 Identities = 20/128 (15%), Positives = 41/128 (32%), Gaps = 9/128 (7%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTD---YIPTVFDNFSANVVAEGTTVNLGLWDTAG 65
            + + +G    GK+ +         P +      T       + ++  + VN  +WD  G
Sbjct: 21  PRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTN--KIYKDDISNSSFVNFQIWDFPG 78

Query: 66  QEDYNRL---RPLSYRGADVFVLAFSLVSRASYE-NVLKKWIPELQHYSPGVPVVLVGTK 121
           Q D+        + +RG    +               L   + +    +P +   +   K
Sbjct: 79  QMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHK 138

Query: 122 LDLREDKH 129
           +D   D H
Sbjct: 139 VDGLSDDH 146

>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 = 55.8 bits (134), Expect = 4e-10
 Identities = 26/160 (16%), Positives = 50/160 (31%), Gaps = 28/160 (17%)

Query: 20  GKTCMLICYTSNKFPTD-----YIPTVFDNFSANVVAEGTTVNLGL----WDTAGQEDY- 69
              C +      +F  D     +  T    +     A        L     D  G E   
Sbjct: 92  CVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDF 151

Query: 70  -NRLRPLSYRGADVFVLAF--SLVSRASYENVLKKWIPE-LQHYSP-GVPVVLVGTKLDL 124
             +  P      D F+L    S     ++++   K++       +    P+V+V TK D 
Sbjct: 152 EQKQMPDGKLLVDGFLLGIDVSRGMNRNFDDQ-LKFVSNLYNQLAKTKKPIVVVLTKCDE 210

Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT 164
             +++          +  A    L K+      +E S+++
Sbjct: 211 GVERY----------IRDAHTFALSKK-NLQ-VVETSARS 238

>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 = 5e-10
 Identities = 41/177 (23%), Positives = 59/177 (33%), Gaps = 37/177 (20%)

Query: 9   IKCVTVGDGAVGKTCML----------ICYTSNKFPTDYIPTVFDNFSANVVA--EGTTV 56
            K V  G G  GKT  L                   T+   T+F +F    +   +G   
Sbjct: 15  FKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKT 74

Query: 57  NLGLWDTAGQEDYNRLRPLSYRGAD--VFVL----AFSLVSRASYENVLKKWIPELQHYS 110
              L+   GQ  YN  R L  RG D  VFV          +  S  N +++ + E     
Sbjct: 75  RFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRN-MRENLAEYGLTL 133

Query: 111 PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS---YYIECSSKT 164
             VP+V+   K DL          P  +PV     E +R  +        +E  +  
Sbjct: 134 DDVPIVIQVNKRDL----------PDALPV-----EMVRAVVDPEGKFPVLEAVATE 175

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 43.5 bits (102), Expect = 9e-06
 Identities = 21/117 (17%), Positives = 42/117 (35%), Gaps = 9/117 (7%)

Query: 14  VGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLR 73
           +G    GK+ +      N  P D    +    + ++    T ++L + +  GQ +Y    
Sbjct: 5   MGVRRCGKSSICKVVFHNMQPLD-TLYLESTSNPSLEHFSTLIDLAVMELPGQLNYFEPS 63

Query: 74  PLS---YRGADVFVLAFSLVSRASYENV---LKKWIPELQHYSPGVPVVLVGTKLDL 124
             S   ++     V      S+  Y N    L   I      +P + + ++  K+D 
Sbjct: 64  YDSERLFKSVGALVYVID--SQDEYINAITNLAMIIEYAYKVNPSINIEVLIHKVDG 118

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2 Length = 214

 Score = 37.8 bits (88), Expect = 6e-04
 Identities = 20/117 (17%), Positives = 41/117 (35%), Gaps = 13/117 (11%)

Query: 16  DGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPL 75
             + GKT + +   + ++      ++ D+ +   V      +L L D  G E    LR  
Sbjct: 16  CDS-GKTLLFVRLLTGQYRDT-QTSITDSSAIYKVNNNRGNSLTLIDLPGHE---SLRFQ 70

Query: 76  S----YRGAD--VFVLAFSLVSRASYE--NVLKKWIPELQHYSPGVPVVLVGTKLDL 124
                   A   VFV+  +   R   +    L + + +         +++   K D+
Sbjct: 71  LLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDI 127

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	168
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	100.0
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	100.0
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	100.0
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	100.0
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	100.0
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	100.0
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	100.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	100.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	100.0
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	100.0
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	100.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	100.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	100.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	100.0
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	100.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	100.0
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	100.0
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	100.0
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.98
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.98
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.98
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.97
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.97
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.97
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.95
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.97
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.97
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.97
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.97
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.97
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.97
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.97
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.97
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.96
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.96
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.96
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.96
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.96
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.96
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.96
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.96
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.96
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.95
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.95
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.95
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.95
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.95
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.94
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.94
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.94
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.94
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.94
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.94
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.93
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.93
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.93
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.93
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.93
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.92
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.92
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.92
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.92
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.92
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.91
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.91
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.91
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.9
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.9
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.9
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.89
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.89
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.88
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.88
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.87
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.87
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.87
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.87
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.87
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.86
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.86
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.86
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.86
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.86
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.86
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.86
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.86
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.85
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.85
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.85
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.85
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.85
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.85
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.85
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.85
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.84
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.84
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.84
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.84
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.84
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.83
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.83
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.83
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.83
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.83
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.83
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.82
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.82
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.82
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.81
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.81
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.81
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.81
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.8
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.8
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.78
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.78
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.77
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.77
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.76
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.76
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.76
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.74
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.74
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.73
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.73
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.72
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.72
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.71
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.7
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.7
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.69
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.68
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.67
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.67
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.67
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.62
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.6
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.58
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.55
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.48
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.48
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.45
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.45
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.44
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.43
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.41
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.37
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.36
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.35
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.25
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.21
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.02
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.97
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.96
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.9
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.86
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.84
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.8
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.77
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.7
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.64
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.61
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.5
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.41
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.39
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.38
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.37
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.34
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.27
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.06
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.04
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.0
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.93
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.76
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.72
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.61
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.55
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.53
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.5
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.5
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.47
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.47
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.39
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.36
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.35
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.34
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.33
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.31
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.31
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.3
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.3
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.3
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.29
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.29
1via_A	175	Shikimate kinase; structural genomics, transferase	97.28
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.28
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.28
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.27
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.27
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.26
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.26
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.26
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.25
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.25
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.25
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.23
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.23
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.23
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.21
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.21
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.18
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.17
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.16
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.16
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.16
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.15
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.15
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.14
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.14
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.14
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.13
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.13
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.1
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.1
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.08
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.08
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.08
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.07
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.07
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.05
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.05
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	97.04
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.04
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.04
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.03
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.01
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.01
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.01
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.01
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.0
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.0
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.99
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.99
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.98
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.97
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.97
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.95
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.94
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.94
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.94
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.94
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.94
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.91
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.91
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.91
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.91
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.9
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.9
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.9
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.9
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.88
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.88
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.88
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.88
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.87
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.86
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.86
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.86
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.86
1g6h_A	257	High-affinity branched-chain amino acid transport	96.85
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.85
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.84
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.84
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.83
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.82
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.82
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.82
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.82
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.82
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.82
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.82
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.81
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.81
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.81
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.81
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.81
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.8
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.8
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.8
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.79
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.79
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.79
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.79
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	96.78
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.77
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.76
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.75
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.75
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.75
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.74
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.73
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.73
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.71
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.71
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.7
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.7
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.69
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.68
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.66
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.63
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.63
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.62
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.61
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.6
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.59
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.59
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.57
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.56
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.56
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.56
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.55
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.55
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.55
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.55
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.55
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.55
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.54
3bos_A	242	Putative DNA replication factor; P-loop containing	96.54
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.53
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.53
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.52
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.52
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.49
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.49
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.48
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.47
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.47
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.46
2og2_A	359	Putative signal recognition particle receptor; nuc	96.46
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.45
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.45
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	96.43
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.42
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.41
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.41
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.4
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.38
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.36
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.34
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.34
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.31
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.3
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.29
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.29
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.28
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.28
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.27
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.22
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.21
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.21
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.2
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.18
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.18
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.17
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.16
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.16
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.15
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.15
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.14
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.14
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.1
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.1
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.08
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.06
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.05
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.05
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	96.04
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.04
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.0
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.0
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.99
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.94
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.93
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.91
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.9
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.9
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.88
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	95.88
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.87
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	95.87
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.86
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	95.85
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.85
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.85
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.82
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.79
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.78
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.78
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.77
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.77
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.76
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.76
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.74
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.74
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.74
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.72
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.7
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.69
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.66
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.66
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.66
2qgz_A	308	Helicase loader, putative primosome component; str	95.63
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	95.62
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.62
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.62
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.61
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.59
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	95.59
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	95.59
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.59
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.58
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.57
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.54
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.54
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	95.53
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	95.52
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.51
3co5_A	143	Putative two-component system transcriptional RES	95.51
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	95.46
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.45
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.44
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	95.44
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.43
2fna_A	357	Conserved hypothetical protein; structural genomic	95.42
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.41
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.4
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.39
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.37
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	95.36
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.33
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	95.33

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=1.8e-40  Score=232.99  Aligned_cols=152  Identities=30%  Similarity=0.526  Sum_probs=130.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      +.+.+||+++|++|||||||++||+.+.|...+.+|++.++ .+...+++..+.+++|||+|+++|..+++.++++++++
T Consensus        10 P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~   89 (216)
T 4dkx_A           10 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAA   89 (216)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEE
T ss_pred             CCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEE
Confidence            45679999999999999999999999999999999998776 56778899999999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||+++++||+.+ ..|+..+.... +++|++|||||+|+...+.          +..++++++++++++ +|+||||
T Consensus        90 ilv~di~~~~Sf~~i-~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~----------V~~~e~~~~a~~~~~-~~~e~SA  157 (216)
T 4dkx_A           90 VVVYDITNVNSFQQT-TKWIDDVRTERGSDVIIMLVGNKTDLADKRQ----------VSIEEGERKAKELNV-MFIETSA  157 (216)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHHHHTTSSEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEEEBT
T ss_pred             EEEeecchhHHHHHH-HHHHHHHHHhcCCCCeEEEEeeccchHhcCc----------ccHHHHhhHHHHhCC-eeEEEeC
Confidence            999999999999998 88988887765 7899999999999988766          899999999999998 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       158 ktg~nV  163 (216)
T 4dkx_A          158 KAGYNV  163 (216)
T ss_dssp             TTTBSH
T ss_pred             CCCcCH
Confidence            999986

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=1.2e-34  Score=197.42  Aligned_cols=156  Identities=33%  Similarity=0.551  Sum_probs=136.2

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG   79 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   79 (168)
                      |+...++.+||+++|.+|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.
T Consensus         2 m~~~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   81 (181)
T 3tw8_B            2 MARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRG   81 (181)
T ss_dssp             ----CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTT
T ss_pred             CccccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhcc
Confidence            666678899999999999999999999999988877788887766 4567788989999999999999999999999999


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEE
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIE  159 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      +|++++|||++++.++..+ ..|+..+.+..++.|+++|+||+|+...+.          +..+++..++...++ ++++
T Consensus        82 ~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~  149 (181)
T 3tw8_B           82 THGVIVVYDVTSAESFVNV-KRWLHEINQNCDDVCRILVGNKNDDPERKV----------VETEDAYKFAGQMGI-QLFE  149 (181)
T ss_dssp             CSEEEEEEETTCHHHHHHH-HHHHHHHHHHCTTSEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-CEEE
T ss_pred             CCEEEEEEECCCHHHHHHH-HHHHHHHHHhCCCCCEEEEEECCCCchhcc----------cCHHHHHHHHHHcCC-eEEE
Confidence            9999999999999999998 789999988778899999999999987655          778889999999998 8999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|.||
T Consensus       150 ~Sa~~~~gi  158 (181)
T 3tw8_B          150 TSAKENVNV  158 (181)
T ss_dssp             CBTTTTBSH
T ss_pred             EECCCCCCH
Confidence            999999985

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=100.00  E-value=1.4e-34  Score=199.68  Aligned_cols=156  Identities=46%  Similarity=0.823  Sum_probs=140.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.+||+++|.+|+|||||+++|.+..+...+.++.+..+...+.+++..+.+.+|||||++.+..++..+++++|+++
T Consensus        20 ~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   99 (194)
T 3reg_A           20 GKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVL   99 (194)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             cceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeEEEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEEE
Confidence            35689999999999999999999999999888889998888888889999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      +|||++++.++..+...|+..+.+..++.|+++|+||+|+..+..        +.+..+++..++..+++..|+++||++
T Consensus       100 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~Sa~~  171 (194)
T 3reg_A          100 LCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDLRKDGS--------DDVTKQEGDDLCQKLGCVAYIEASSVA  171 (194)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCTTSEEEEEEECGGGCCTTT--------TCCCHHHHHHHHHHHTCSCEEECBTTT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccCCC--------CcccHHHHHHHHHhcCCCEEEEeecCC
Confidence            999999999999976789999988778899999999999975421        237889999999999995599999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+||
T Consensus       172 ~~gi  175 (194)
T 3reg_A          172 KIGL  175 (194)
T ss_dssp             TBSH
T ss_pred             CCCH
Confidence            9985

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=100.00  E-value=1.2e-34  Score=197.73  Aligned_cols=153  Identities=27%  Similarity=0.446  Sum_probs=137.5

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ++.+.+||+++|.+|+|||||+++|.++.+...+.++.+..+...+.+++..+.+.+|||||++.+..++..+++.+|++
T Consensus         2 ~~~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   81 (181)
T 3t5g_A            2 PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGY   81 (181)
T ss_dssp             CCEEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEE
T ss_pred             CCCceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccEEEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEE
Confidence            45678999999999999999999999888888888998888877888899999999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ++|||++++++++.+ ..|+..+.+..  .+.|+++|+||+|+...+.          +..++++.+++.+++ +|+++|
T Consensus        82 i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~S  149 (181)
T 3t5g_A           82 ILVYSVTSIKSFEVI-KVIHGKLLDMVGKVQIPIMLVGNKKDLHMERV----------ISYEEGKALAESWNA-AFLESS  149 (181)
T ss_dssp             EEEEETTCHHHHHHH-HHHHHHHHHHC----CCEEEEEECTTCTTTCC----------SCHHHHHHHHHHTTC-EEEECC
T ss_pred             EEEEECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECccchhcce----------ecHHHHHHHHHHhCC-cEEEEe
Confidence            999999999999998 78888876654  4799999999999976655          888999999999998 899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|+||
T Consensus       150 a~~~~~v  156 (181)
T 3t5g_A          150 AKENQTA  156 (181)
T ss_dssp             TTSHHHH
T ss_pred             cCCCCCH
Confidence            9999874

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=100.00  E-value=2.4e-35  Score=201.60  Aligned_cols=156  Identities=29%  Similarity=0.616  Sum_probs=109.1

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG   79 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   79 (168)
                      |+...++.+||+++|++|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..++++
T Consensus         1 M~~~~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   80 (183)
T 2fu5_C            1 MAKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG   80 (183)
T ss_dssp             --CCCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTT
T ss_pred             CCcccCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhc
Confidence            666667899999999999999999999999888777777777666 4567788889999999999999999999999999


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      +|++++|||++++.++..+ ..|+..+.... ++.|+++|+||+|+...+.          +..++++.++..+++ +++
T Consensus        81 ~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~  148 (183)
T 2fu5_C           81 AMGIMLVYDITNEKSFDNI-RNWIRNIEEHASADVEKMILGNKCDVNDKRQ----------VSKERGEKLALDYGI-KFM  148 (183)
T ss_dssp             CSEEEEEEETTCHHHHHHH-HHHHHHHHHHSCTTCEEEEEEEC--CCSCCC----------SCHHHHHHHHHHHTC-EEE
T ss_pred             CCEEEEEEECcCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECccCCccCc----------CCHHHHHHHHHHcCC-eEE
Confidence            9999999999999999998 78998888765 6799999999999976654          778899999999998 999


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|.||
T Consensus       149 ~~Sa~~~~~i  158 (183)
T 2fu5_C          149 ETSAKANINV  158 (183)
T ss_dssp             ECCC---CCH
T ss_pred             EEeCCCCCCH
Confidence            9999999985

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=100.00  E-value=5.3e-35  Score=205.09  Aligned_cols=163  Identities=38%  Similarity=0.661  Sum_probs=138.6

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ....+||+++|.+|||||||+++|.++.+...+.+|.+..+.+.+.+++..+.+.+|||+|++.+..++..+++++|+++
T Consensus        24 ~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  103 (214)
T 3q3j_B           24 VVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVL  103 (214)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             ccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeEEEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeEEE
Confidence            34689999999999999999999999999888889998888777888889999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||+++++++..+...|+..+.+..++.|+++|+||+|+..+.....  .....+.+..+++..++..+++.+|+++||
T Consensus       104 ~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SA  183 (214)
T 3q3j_B          104 LCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSA  183 (214)
T ss_dssp             EEEETTCTHHHHHHHTHHHHHHHHHCTTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEECCT
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEEecc
Confidence            999999999999844899999998888899999999999976421100  011223478899999999999878999999


Q ss_pred             cCccC
Q 030961          163 KTQQV  167 (168)
Q Consensus       163 ~~~~~  167 (168)
                      ++|.|
T Consensus       184 ~~g~g  188 (214)
T 3q3j_B          184 FTSEK  188 (214)
T ss_dssp             TTCHH
T ss_pred             CCCcc
Confidence            99987

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=100.00  E-value=9.5e-35  Score=203.14  Aligned_cols=165  Identities=80%  Similarity=1.283  Sum_probs=140.9

Q ss_pred             CCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCc
Q 030961            2 ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGAD   81 (168)
Q Consensus         2 ~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~   81 (168)
                      .|...+.+||+++|++|+|||||+++|.++.+...+.+|.+..+...+.+++..+.+.+|||||++.+..++..+++++|
T Consensus         3 ~m~~~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   82 (212)
T 2j0v_A            3 HMSVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGAD   82 (212)
T ss_dssp             CCSCCCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCEEEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCS
T ss_pred             CCCcCceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCC
Confidence            35556789999999999999999999999998888888888888777788899999999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           82 VFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ++++|||++++.++..+...|+..+....++.|+++|+||+|+...+....+  ....+..+++..++..++..+|+++|
T Consensus        83 ~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~--~~~~v~~~~~~~~~~~~~~~~~~~~S  160 (212)
T 2j0v_A           83 IFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLDLRDDKGYLAD--HTNVITSTQGEELRKQIGAAAYIECS  160 (212)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCHHHHHT--CSSCCCHHHHHHHHHHHTCSEEEECC
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeCHHhhhCcccccc--ccCCCCHHHHHHHHHHcCCceEEEcc
Confidence            9999999999999999855899999887778999999999999776431111  11235788899999999976899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|+||
T Consensus       161 a~~g~gi  167 (212)
T 2j0v_A          161 SKTQQNV  167 (212)
T ss_dssp             TTTCTTH
T ss_pred             CCCCCCH
Confidence            9999985

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.8e-34  Score=199.13  Aligned_cols=165  Identities=51%  Similarity=0.965  Sum_probs=141.7

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ...+.+||+++|.+|+|||||+++|.+..+...+.+|.+..+...+.+++..+.+.+||+||++.+..++..+++++|++
T Consensus        14 ~~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   93 (194)
T 2atx_A           14 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVF   93 (194)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCEE
Confidence            34578999999999999999999999998888888888888777788888899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ++|||++++.++..+...|+..+.+..++.|+++|+||+|+........  .....+.+..+++..++..++..+|+++|
T Consensus        94 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  173 (194)
T 2atx_A           94 LICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECS  173 (194)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEEee
Confidence            9999999999999984489999988777899999999999976532111  11122347788999999999976899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|+||
T Consensus       174 a~~g~gi  180 (194)
T 2atx_A          174 ALTQKGL  180 (194)
T ss_dssp             TTTCTTH
T ss_pred             CCCCCCH
Confidence            9999985

>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=100.00  E-value=2e-35  Score=201.60  Aligned_cols=167  Identities=81%  Similarity=1.328  Sum_probs=124.3

Q ss_pred             CCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCc
Q 030961            2 ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGAD   81 (168)
Q Consensus         2 ~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~   81 (168)
                      +|...+.+||+++|++|+|||||+++|.+..+...+.++.+..+...+.+++..+.+.+|||||++.+..++..+++++|
T Consensus         2 s~~~~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   81 (182)
T 3bwd_D            2 SMSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGAD   81 (182)
T ss_dssp             -----CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CBCCCC-------CEEECCCC-CTTTTTGGGGGTTCS
T ss_pred             CCCCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEEEEEEECCEEEEEEEEECCCChhhhhhHHhhccCCC
Confidence            45667789999999999999999999999988888888887776656667778889999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           82 VFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ++++|||++++.+++.+...|+..+....++.|+++|+||+|+...+...........+..+++..++..++..+|+++|
T Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  161 (182)
T 3bwd_D           82 VFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECS  161 (182)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECC
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEE
Confidence            99999999999999998448999998877789999999999998765422222333446788999999999976899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|+||
T Consensus       162 a~~~~gi  168 (182)
T 3bwd_D          162 SKSQENV  168 (182)
T ss_dssp             TTTCTTH
T ss_pred             CCCCCCH
Confidence            9999985

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=100.00  E-value=9.1e-35  Score=202.70  Aligned_cols=168  Identities=38%  Similarity=0.712  Sum_probs=138.5

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA   80 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   80 (168)
                      |+....+.+||+++|.+|+|||||+++|.+..+...+.++.+..+...+.+++..+.+.+|||+|++.+..++..+++++
T Consensus        21 m~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  100 (205)
T 1gwn_A           21 MDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDS  100 (205)
T ss_dssp             ------CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTC
T ss_pred             CCcccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCC
Confidence            55556678999999999999999999999999988888888887777777888899999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           81 DVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        81 ~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      +++++|||++++.++..+...|+..+.+..++.|+++|+||+|+........  .....+.+..++++.+++.++..+|+
T Consensus       101 d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  180 (205)
T 1gwn_A          101 DAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYI  180 (205)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEE
Confidence            9999999999999999876789999888777899999999999975422111  01223447888999999998855999


Q ss_pred             Eeccc-CccCC
Q 030961          159 ECSSK-TQQVC  168 (168)
Q Consensus       159 ~~Sa~-~~~~i  168 (168)
                      ++||+ +|+||
T Consensus       181 e~SAk~~~~gv  191 (205)
T 1gwn_A          181 ECSALQSENSV  191 (205)
T ss_dssp             ECCTTTCHHHH
T ss_pred             EeeeccCCcCH
Confidence            99999 57764

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=100.00  E-value=1.9e-34  Score=197.60  Aligned_cols=165  Identities=38%  Similarity=0.716  Sum_probs=138.6

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .+.+.+||+++|++|+|||||+++|.+..+...+.++.+..+...+.+++..+.+.+||+||++.+..++..+++++|++
T Consensus         3 ~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   82 (184)
T 1m7b_A            3 NQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   82 (184)
T ss_dssp             ---CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             CCceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEE
Confidence            35678999999999999999999999999888888888888777778888899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ++|||++++.++..+...|+..+.+..++.|+++|+||+|+........  .....+.+..+++..++..++..+|+++|
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  162 (184)
T 1m7b_A           83 LICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS  162 (184)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECB
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEee
Confidence            9999999999999876789998888777899999999999975421111  01223447888999999999855999999


Q ss_pred             cc-CccCC
Q 030961          162 SK-TQQVC  168 (168)
Q Consensus       162 a~-~~~~i  168 (168)
                      |+ +|+||
T Consensus       163 a~~~~~gi  170 (184)
T 1m7b_A          163 ALQSENSV  170 (184)
T ss_dssp             TTTBHHHH
T ss_pred             ecCCCcCH
Confidence            98 57764

>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=5e-34  Score=198.66  Aligned_cols=156  Identities=29%  Similarity=0.595  Sum_probs=138.4

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG   79 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   79 (168)
                      |+...+..+||+++|++|+|||||+++|.+..+...+.++.+.++. ..+.+++..+.+.+|||||++.+..++..+++.
T Consensus         1 M~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   80 (206)
T 2bcg_Y            1 MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRG   80 (206)
T ss_dssp             --CCCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTT
T ss_pred             CCcccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccC
Confidence            6656678899999999999999999999999988888888887774 567788889999999999999999999999999


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      +|++++|||++++.++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..+++..++..+++ +++
T Consensus        81 ~d~vilv~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~  148 (206)
T 2bcg_Y           81 SHGIIIVYDVTDQESFNGV-KMWLQEIDRYATSTVLKLLVGNKCDLKDKRV----------VEYDVAKEFADANKM-PFL  148 (206)
T ss_dssp             CSEEEEEEETTCHHHHHHH-HHHHHHHHHHSCTTCEEEEEEECTTCTTTCC----------SCHHHHHHHHHHTTC-CEE
T ss_pred             CCEEEEEEECcCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECCCCccccc----------cCHHHHHHHHHHcCC-eEE
Confidence            9999999999999999998 78998888765 6799999999999987654          778889999999998 899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|.||
T Consensus       149 ~~Sa~~g~gi  158 (206)
T 2bcg_Y          149 ETSALDSTNV  158 (206)
T ss_dssp             ECCTTTCTTH
T ss_pred             EEeCCCCCCH
Confidence            9999999985

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=100.00  E-value=2.8e-34  Score=197.41  Aligned_cols=151  Identities=23%  Similarity=0.407  Sum_probs=131.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.+||+++|.+|||||||+++|+++.+...+.+|.+..+.....+++..+.+.+|||+|++.+..+ ..+++++++++
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~i   96 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAFL   96 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEEE
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceeeEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEEE
Confidence            35689999999999999999999999998888889988888777888999999999999999988775 66889999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      +|||++++++++.+ ..|+..+.+..    .+.|+++|+||+|+...+.          +..+++.+++..+++ +|+++
T Consensus        97 lv~d~~~~~s~~~~-~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~  164 (187)
T 3c5c_A           97 VVYSVDSRQSFDSS-SSYLELLALHAKETQRSIPALLLGNKLDMAQYRQ----------VTKAEGVALAGRFGC-LFFEV  164 (187)
T ss_dssp             EEEETTCHHHHHHH-HHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-EEEEC
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHHHhhccCCCCCEEEEEECcchhhcCc----------cCHHHHHHHHHHcCC-cEEEE
Confidence            99999999999998 78988887763    5899999999999976655          788999999999998 99999


Q ss_pred             cc-cCccCC
Q 030961          161 SS-KTQQVC  168 (168)
Q Consensus       161 Sa-~~~~~i  168 (168)
                      || ++|+||
T Consensus       165 Sa~~~g~gv  173 (187)
T 3c5c_A          165 SACLDFEHV  173 (187)
T ss_dssp             CSSSCSHHH
T ss_pred             eecCccccH
Confidence            99 899875

>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=2.5e-34  Score=196.51  Aligned_cols=152  Identities=32%  Similarity=0.495  Sum_probs=137.6

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.+||+++|.+|+|||||+++|.+..+...+.++.+..+.....+++..+.+.+||+||++.+..++..+++.+|+++
T Consensus        15 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   94 (183)
T 3kkq_A           15 NLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFL   94 (183)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceeEEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            45789999999999999999999999988888888888888778888999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++.+++.+ ..|+..+.+..  .+.|+++|+||+|+...+.          +..++++.++..+++ +|+++||
T Consensus        95 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa  162 (183)
T 3kkq_A           95 IVYSVTDKASFEHV-DRFHQLILRVKDRESFPMILVANKVDLMHLRK----------VTRDQGKEMATKYNI-PYIETSA  162 (183)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHHTSSCCCEEEEEECTTCSTTCC----------SCHHHHHHHHHHHTC-CEEEEBC
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHHhcCCCCCcEEEEEECCCchhccC----------cCHHHHHHHHHHhCC-eEEEecc
Confidence            99999999999998 78888876643  6799999999999987655          888999999999997 8999999


Q ss_pred             c-CccCC
Q 030961          163 K-TQQVC  168 (168)
Q Consensus       163 ~-~~~~i  168 (168)
                      + +|+||
T Consensus       163 ~~~~~~v  169 (183)
T 3kkq_A          163 KDPPLNV  169 (183)
T ss_dssp             SSSCBSH
T ss_pred             CCCCCCH
Confidence            9 99885

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=100.00  E-value=7.7e-34  Score=196.94  Aligned_cols=164  Identities=50%  Similarity=0.862  Sum_probs=132.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.+||+++|.+|+|||||+++|.+..+...+.+|.+..+...+.+++..+.+.+|||||++.+..++..+++++|+++
T Consensus        17 ~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i   96 (201)
T 2q3h_A           17 EGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFL   96 (201)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEEEEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSEEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcEEE
Confidence            45689999999999999999999999888888888888777777888999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++.++..+...|+..+....++.|+++|+||+|+........  .......+..+++..++..++..+|+++||
T Consensus        97 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  176 (201)
T 2q3h_A           97 LCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSA  176 (201)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCSSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEEEec
Confidence            999999999999984489999988777899999999999976421100  011123477888999999998778999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       177 ~~g~gi  182 (201)
T 2q3h_A          177 LTQKNL  182 (201)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=100.00  E-value=4.5e-34  Score=195.61  Aligned_cols=156  Identities=28%  Similarity=0.519  Sum_probs=137.6

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG   79 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   79 (168)
                      |+...++.+||+++|++|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.
T Consensus         3 m~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   82 (186)
T 2bme_A            3 MSETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRG   82 (186)
T ss_dssp             -CCCCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTT
T ss_pred             cccccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhc
Confidence            555567889999999999999999999999988887788887666 4567788888999999999999999999999999


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      +|++++|||++++.++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..+++..++...++ +++
T Consensus        83 ~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~  150 (186)
T 2bme_A           83 AAGALLVYDITSRETYNAL-TNWLTDARMLASQNIVIILCGNKKDLDADRE----------VTFLEASRFAQENEL-MFL  150 (186)
T ss_dssp             CSEEEEEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEE
T ss_pred             CCEEEEEEECcCHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEE
Confidence            9999999999999999998 78888877765 6899999999999976554          778889999999998 999


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       151 ~~Sa~~~~gi  160 (186)
T 2bme_A          151 ETSALTGENV  160 (186)
T ss_dssp             ECCTTTCTTH
T ss_pred             EecCCCCCCH
Confidence            9999999985

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=100.00  E-value=3.9e-34  Score=194.80  Aligned_cols=156  Identities=31%  Similarity=0.510  Sum_probs=137.2

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA   80 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   80 (168)
                      |...+...+||+++|.+|+|||||+++|.+..+...+.++.+..+.....+++..+.+.+|||||++.+..++..+++.+
T Consensus         2 m~~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~   81 (181)
T 2fn4_A            2 MDPPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAG   81 (181)
T ss_dssp             --CCSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHC
T ss_pred             CCCCCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhhC
Confidence            55556778999999999999999999999998888888888888777788899999999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHhHHHHHchh-C-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           81 DVFVLAFSLVSRASYENVLKKWIPELQHY-S-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        81 ~~~i~v~d~~~~~s~~~~~~~~~~~l~~~-~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      |++++|||++++.++..+ ..|+..+.+. . .+.|+++|+||+|+...+.          +..+++..++...++ +++
T Consensus        82 d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~  149 (181)
T 2fn4_A           82 HGFLLVFAINDRQSFNEV-GKLFTQILRVKDRDDFPVVLVGNKADLESQRQ----------VPRSEASAFGASHHV-AYF  149 (181)
T ss_dssp             SEEEEEEETTCHHHHHHH-HHHHHHHHHHHTSSCCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEE
T ss_pred             CEEEEEEeCCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECcccccccc----------cCHHHHHHHHHHcCC-eEE
Confidence            999999999999999998 6787777443 2 5799999999999987654          778889999999998 999


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|.||
T Consensus       150 ~~Sa~~~~gv  159 (181)
T 2fn4_A          150 EASAKLRLNV  159 (181)
T ss_dssp             ECBTTTTBSH
T ss_pred             EecCCCCCCH
Confidence            9999999985

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=100.00  E-value=8e-34  Score=195.87  Aligned_cols=153  Identities=31%  Similarity=0.635  Sum_probs=137.6

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      ..+..+||+++|.+|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+||+||++.+..++..+++.+|+
T Consensus        12 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   91 (196)
T 3tkl_A           12 EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHG   91 (196)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSE
T ss_pred             ccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCE
Confidence            345789999999999999999999999998888888887666 4567788889999999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      +++|||++++.++..+ ..|+..+.+.. .+.|+++|+||+|+...+.          +..+++..++..+++ +++++|
T Consensus        92 ~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~S  159 (196)
T 3tkl_A           92 IIVVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTKKV----------VDYTTAKEFADSLGI-PFLETS  159 (196)
T ss_dssp             EEEEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCTTTCC----------SCHHHHHHHHHHTTC-CEEEEC
T ss_pred             EEEEEECcCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECcccccccc----------cCHHHHHHHHHHcCC-cEEEEe
Confidence            9999999999999998 78998888776 5799999999999987765          788899999999998 899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|.||
T Consensus       160 a~~g~gv  166 (196)
T 3tkl_A          160 AKNATNV  166 (196)
T ss_dssp             TTTCTTH
T ss_pred             CCCCCCH
Confidence            9999985

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=100.00  E-value=1.6e-33  Score=191.98  Aligned_cols=152  Identities=33%  Similarity=0.583  Sum_probs=135.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      +.+.+||+++|.+|+|||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+..++..+++.+|++
T Consensus         9 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   88 (181)
T 2efe_B            9 KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAA   88 (181)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEE
T ss_pred             CccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEE
Confidence            56789999999999999999999999988877778877766 45677888899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.+++.+ ..|+..+.... ++.|+++|+||+|+...+.          +..++++.++..+++ +++++||
T Consensus        89 i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa  156 (181)
T 2efe_B           89 IIVFDVTNQASFERA-KKWVQELQAQGNPNMVMALAGNKSDLLDARK----------VTAEDAQTYAQENGL-FFMETSA  156 (181)
T ss_dssp             EEEEETTCHHHHHHH-HHHHHHHHHHSCTTCEEEEEEECTTCTTTCC----------SCHHHHHHHHHHTTC-EEEECCS
T ss_pred             EEEEECCCHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECCccccccc----------CCHHHHHHHHHHcCC-EEEEEEC
Confidence            999999999999998 78888888775 6899999999999976654          778899999999998 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       157 ~~g~gi  162 (181)
T 2efe_B          157 KTATNV  162 (181)
T ss_dssp             SSCTTH
T ss_pred             CCCCCH
Confidence            999985

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=100.00  E-value=1e-33  Score=191.12  Aligned_cols=152  Identities=32%  Similarity=0.599  Sum_probs=128.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .++.+||+++|++|+|||||+++|.+..+...+.++.+..+. ..+.+++..+.+.+||+||++.+..++..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGA   82 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEE
Confidence            457899999999999999999999999888777888877664 5677788899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..++++.++..+++ +++++||
T Consensus        83 i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa  150 (170)
T 1z08_A           83 ILVYDITDEDSFQKV-KNWVKELRKMLGNEICLCIVGNKIDLEKERH----------VSIQEAESYAESVGA-KHYHTSA  150 (170)
T ss_dssp             EEEEETTCHHHHHHH-HHHHHHHHHHHGGGSEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEEEBT
T ss_pred             EEEEECcCHHHHHHH-HHHHHHHHHhcCCCCeEEEEEECcccccccc----------cCHHHHHHHHHHcCC-eEEEecC
Confidence            999999999999998 78888877655 5799999999999987654          778899999999997 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       151 ~~~~gi  156 (170)
T 1z08_A          151 KQNKGI  156 (170)
T ss_dssp             TTTBSH
T ss_pred             CCCCCH
Confidence            999985

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=100.00  E-value=1.4e-33  Score=190.14  Aligned_cols=152  Identities=30%  Similarity=0.546  Sum_probs=135.0

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      +.+.+||+++|.+|+|||||+++|.++.+...+.++.+..+ .....+++..+.+.+||+||++.+..++..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1r2q_A            3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAA   82 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEE
Confidence            45789999999999999999999999988877778877666 45677888899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.++..+ ..|+..+.+.. ++.|+++|+||+|+...+.          +..+++..++...++ +++++||
T Consensus        83 i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa  150 (170)
T 1r2q_A           83 IVVYDITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLANKRA----------VDFQEAQSYADDNSL-LFMETSA  150 (170)
T ss_dssp             EEEEETTCHHHHHHH-HHHHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCT
T ss_pred             EEEEECCCHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECccCccccc----------cCHHHHHHHHHHcCC-eEEEEeC
Confidence            999999999999998 78888887765 6899999999999976554          677889999999998 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       151 ~~g~gi  156 (170)
T 1r2q_A          151 KTSMNV  156 (170)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=5.6e-34  Score=197.87  Aligned_cols=154  Identities=32%  Similarity=0.481  Sum_probs=131.8

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      |+..+.+||+++|.+|+|||||+++|.+..+...+.++.+..+.....+++..+.+.+|||||++.+..++..+++.+|+
T Consensus        19 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   98 (201)
T 3oes_A           19 MPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHG   98 (201)
T ss_dssp             ----CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEEEEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCE
T ss_pred             CCCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEEEEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCE
Confidence            34457899999999999999999999999998888888888877677778888999999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      +++|||++++.+++.+ ..|+..+....  .++|+++|+||+|+...+.          +..+++..++..+++ +|+++
T Consensus        99 ~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~  166 (201)
T 3oes_A           99 YVLVYSVTSLHSFQVI-ESLYQKLHEGHGKTRVPVVLVGNKADLSPERE----------VQAVEGKKLAESWGA-TFMES  166 (201)
T ss_dssp             EEEEEETTCHHHHHHH-HHHHHHHHC-----CCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEEC
T ss_pred             EEEEEeCCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECccCccccc----------cCHHHHHHHHHHhCC-eEEEE
Confidence            9999999999999998 78888887764  5789999999999987665          788999999999998 99999


Q ss_pred             cccCccCC
Q 030961          161 SSKTQQVC  168 (168)
Q Consensus       161 Sa~~~~~i  168 (168)
                      ||++|.||
T Consensus       167 Sa~~~~~v  174 (201)
T 3oes_A          167 SARENQLT  174 (201)
T ss_dssp             CTTCHHHH
T ss_pred             eCCCCCCH
Confidence            99999875

>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=7.5e-34  Score=197.51  Aligned_cols=152  Identities=32%  Similarity=0.609  Sum_probs=135.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .++.+||+++|.+|+|||||+++|+++.+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.+|++
T Consensus        23 ~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  102 (201)
T 2ew1_A           23 YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANAL  102 (201)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEE
T ss_pred             cccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEE
Confidence            35689999999999999999999999988877788887666 45777889899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.+++.+ ..|+..+.... .+.|+++|+||+|+...+.          +..++++.++...++ +|+++||
T Consensus       103 i~v~D~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa  170 (201)
T 2ew1_A          103 ILTYDITCEESFRCL-PEWLREIEQYASNKVITVLVGNKIDLAERRE----------VSQQRAEEFSEAQDM-YYLETSA  170 (201)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-CEEECCT
T ss_pred             EEEEECCCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECCCCccccc----------cCHHHHHHHHHHcCC-EEEEEeC
Confidence            999999999999998 88999888765 5789999999999976654          778889999999998 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       171 ~~g~gv  176 (201)
T 2ew1_A          171 KESDNV  176 (201)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=100.00  E-value=1.7e-33  Score=189.52  Aligned_cols=151  Identities=34%  Similarity=0.554  Sum_probs=134.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ++.+||+++|++|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.+|+++
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   82 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACV   82 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEE
Confidence            4689999999999999999999999988888888887666 456778888999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      +|||++++.+++.+ ..|+..+.....+.|+++|+||+|+...+.          +..++++.++..+++ +++++||++
T Consensus        83 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~  150 (168)
T 1z2a_A           83 LVFSTTDRESFEAI-SSWREKVVAEVGDIPTALVQNKIDLLDDSC----------IKNEEAEGLAKRLKL-RFYRTSVKE  150 (168)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHHCSCCEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-EEEECBTTT
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHHhCCCCCEEEEEECcccCcccc----------cCHHHHHHHHHHcCC-eEEEEecCC
Confidence            99999999999988 778888877667899999999999987654          678889999999998 999999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       151 ~~~i  154 (168)
T 1z2a_A          151 DLNV  154 (168)
T ss_dssp             TBSS
T ss_pred             CCCH
Confidence            9986

>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=3.7e-33  Score=191.83  Aligned_cols=152  Identities=31%  Similarity=0.612  Sum_probs=135.6

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .+..+||+++|.+|+|||||+++|.+..+...+.++.+.++. ..+..++..+.+.+||+||++.+..++..+++.+|++
T Consensus        19 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   98 (189)
T 2gf9_A           19 SDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGF   98 (189)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEE
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEE
Confidence            456899999999999999999999999887777788776663 5667788899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..++++++++.+++ +++++||
T Consensus        99 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa  166 (189)
T 2gf9_A           99 LLMYDIANQESFAAV-QDWATQIKTYSWDNAQVILVGNKCDLEDERV----------VPAEDGRRLADDLGF-EFFEASA  166 (189)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEECBT
T ss_pred             EEEEECCCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECcccccccC----------CCHHHHHHHHHHcCC-eEEEEEC
Confidence            999999999999998 78998888775 6899999999999976654          678889999999998 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       167 ~~g~gi  172 (189)
T 2gf9_A          167 KENINV  172 (189)
T ss_dssp             TTTBSH
T ss_pred             CCCCCH
Confidence            999985

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=100.00  E-value=2.3e-33  Score=194.83  Aligned_cols=164  Identities=48%  Similarity=0.881  Sum_probs=141.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +...+||+++|.+|+|||||+++|.+..+...+.++.+..+...+.+++..+.+.+|||||++.+..++..+++++|+++
T Consensus        22 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (201)
T 2gco_A           22 AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (201)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEEEEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEE
Confidence            35689999999999999999999999998888888888888777888999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++.++..+...|...+....++.|+++|+||+|+........  .....+.+..+++..+++..+..+++++||
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA  181 (201)
T 2gco_A          102 MCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSA  181 (201)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEeeC
Confidence            999999999999986789998888777899999999999986532111  111223477889999999999878999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       182 ~~g~gi  187 (201)
T 2gco_A          182 KTKEGV  187 (201)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=100.00  E-value=2e-33  Score=192.21  Aligned_cols=163  Identities=61%  Similarity=1.042  Sum_probs=139.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      ...+||+++|.+|+|||||+++|.++.+...+.++.+..+.....+++..+.+.+|||||++.+..++..+++.+|++++
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   82 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLI   82 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCcccceeEEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEE
Confidence            35799999999999999999999999888888888887777778889999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||++++.++..+...|+..+....++.|+++|+||+|+........  .....+.+..+++..++..++..+++++||+
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~  162 (186)
T 1mh1_A           83 CFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL  162 (186)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTT
T ss_pred             EEECCChhhHHHHHHHHHHHHHHhCCCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecCC
Confidence            99999999999984489999988777899999999999976532110  0112234778889999999987689999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       163 ~g~gi  167 (186)
T 1mh1_A          163 TQRGL  167 (186)
T ss_dssp             TCTTH
T ss_pred             CccCH
Confidence            99985

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=100.00  E-value=1.4e-33  Score=191.82  Aligned_cols=152  Identities=29%  Similarity=0.592  Sum_probs=135.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .++.+||+++|.+|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.+|++
T Consensus        12 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   91 (179)
T 1z0f_A           12 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA   91 (179)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCEE
Confidence            45789999999999999999999999988877778877666 45677888899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..+++++++..+++ +++++||
T Consensus        92 i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa  159 (179)
T 1z0f_A           92 LMVYDITRRSTYNHL-SSWLTDARNLTNPNTVIILIGNKADLEAQRD----------VTYEEAKQFAEENGL-LFLEASA  159 (179)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECCT
T ss_pred             EEEEeCcCHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEEEEeC
Confidence            999999999999988 78988888766 6899999999999976654          778899999999998 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       160 ~~~~gi  165 (179)
T 1z0f_A          160 KTGENV  165 (179)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=100.00  E-value=9.5e-34  Score=192.84  Aligned_cols=152  Identities=18%  Similarity=0.274  Sum_probs=126.2

Q ss_pred             CCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCc
Q 030961            2 ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGAD   81 (168)
Q Consensus         2 ~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~   81 (168)
                      ||...+.+||+++|++|||||||+++|.++.+.. +.+|.+..+.+.+.+++..+.+.+|||+|++.     ..+++++|
T Consensus         1 Sm~~~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d   74 (178)
T 2iwr_A            1 SMRSIPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQYKKEMLVDGQTHLVLIREEAGAPD-----AKFSGWAD   74 (178)
T ss_dssp             CCCCCCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEEEEEEEETTEEEEEEEEECSSSCC-----HHHHHHCS
T ss_pred             CCCCCCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeEEEEEEECCEEEEEEEEECCCCch-----hHHHHhCC
Confidence            3555678999999999999999999999998876 77888877777888899999999999999976     45778899


Q ss_pred             EEEEEEeCCChhHHHHHHHhHHHHHchh---C-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEE
Q 030961           82 VFVLAFSLVSRASYENVLKKWIPELQHY---S-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYY  157 (168)
Q Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~l~~~---~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (168)
                      ++++|||+++++++..+ ..|+..+...   . ++.|+++|+||+|+.....        +.+..++++.++...+..+|
T Consensus        75 ~~ilv~D~~~~~s~~~~-~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~--------~~v~~~~~~~~~~~~~~~~~  145 (178)
T 2iwr_A           75 AVIFVFSLEDENSFQAV-SRLHGQLSSLRGEGRGGLALALVGTQDRISASSP--------RVVGDARARALXADMKRCSY  145 (178)
T ss_dssp             EEEEEEETTCHHHHHHH-HHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBC--------CCSCHHHHHHHHHHHSSEEE
T ss_pred             EEEEEEECcCHHHHHHH-HHHHHHHHHHHhcCCCCCCEEEEEECcccccccc--------CcCCHHHHHHHHHhhcCCeE
Confidence            99999999999999998 7765555443   2 5789999999999953211        22778889999988754499


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|+||
T Consensus       146 ~~~Sa~~~~~i  156 (178)
T 2iwr_A          146 YETXATYGLNV  156 (178)
T ss_dssp             EEEBTTTTBTH
T ss_pred             EEEeccccCCH
Confidence            99999999985

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=100.00  E-value=1.9e-33  Score=193.73  Aligned_cols=152  Identities=29%  Similarity=0.579  Sum_probs=132.0

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ..+.+||+++|.+|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++++|++
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   97 (191)
T 2a5j_A           18 GSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGA   97 (191)
T ss_dssp             TCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCEE
Confidence            45789999999999999999999999988877778877766 45677888899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.+++.+ ..|+..+.... .+.|+++|+||+|+...+.          +..++++.++..+++ +++++||
T Consensus        98 i~v~d~~~~~s~~~~-~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa  165 (191)
T 2a5j_A           98 LLVYDITRRETFNHL-TSWLEDARQHSSSNMVIMLIGNKSDLESRRD----------VKREEGEAFAREHGL-IFMETSA  165 (191)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEEECT
T ss_pred             EEEEECCCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECcccCCccc----------cCHHHHHHHHHHcCC-EEEEEeC
Confidence            999999999999998 78988887765 6899999999999976554          778889999999998 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       166 ~~~~gi  171 (191)
T 2a5j_A          166 KTACNV  171 (191)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=100.00  E-value=1.2e-33  Score=198.19  Aligned_cols=163  Identities=43%  Similarity=0.869  Sum_probs=120.2

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|.+|+|||||+++|.++.+...+.++....+...+.+++..+.+.+|||||++.+..++..+++++|++++
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~  111 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLL  111 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEEEEEEEETTEEEEEEEEEC---------------CEEEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEEE
Confidence            45799999999999999999999999888778888877777788889999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||++++.++..+...|+..+....++.|+++|+||+|+........  .....+.+..+++..+++.+++.+|+++||+
T Consensus       112 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~  191 (214)
T 2j1l_A          112 CFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSAR  191 (214)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECBTT
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEecCC
Confidence            99999999999985589999988777899999999999987642111  0112234778899999999997789999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.||
T Consensus       192 ~g~gi  196 (214)
T 2j1l_A          192 LHDNV  196 (214)
T ss_dssp             TTBSH
T ss_pred             CCCCH
Confidence            99985

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=100.00  E-value=6.8e-34  Score=197.60  Aligned_cols=152  Identities=31%  Similarity=0.539  Sum_probs=128.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ++.+||+++|.+|+|||||+++|.+..+...+.+|.+.++ ...+.+++..+.+.+|||||++.+..++..+++++|+++
T Consensus        27 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii  106 (201)
T 2hup_A           27 DFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAI  106 (201)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEEE
T ss_pred             ccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEEE
Confidence            4679999999999999999999999988777788887766 556778888899999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||++++.+++.+ ..|+..+.... .+.|+++|+||+|+...+.          +..+++++++..+++.+++++||+
T Consensus       107 lv~D~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~----------v~~~~~~~~~~~~~~~~~~~~SA~  175 (201)
T 2hup_A          107 LAYDITKRSSFLSV-PHWIEDVRKYAGSNIVQLLIGNKSDLSELRE----------VSLAEAQSLAEHYDILCAIETSAK  175 (201)
T ss_dssp             EEEETTBHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTCSEEEECBTT
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECCccccccc----------cCHHHHHHHHHHcCCCEEEEEeCC
Confidence            99999999999998 78998888776 6899999999999987654          778899999999997689999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       176 ~g~gi  180 (201)
T 2hup_A          176 DSSNV  180 (201)
T ss_dssp             TTBSH
T ss_pred             CCCCH
Confidence            99985

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=100.00  E-value=9e-34  Score=190.69  Aligned_cols=151  Identities=27%  Similarity=0.511  Sum_probs=133.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|.+|+|||||+++|.++.+...+.++.+..+.+...+++..+.+.+||+||++.+..++..+++.+|++++|
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v   81 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALV   81 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEE
Confidence            46899999999999999999999998888888888887777778888899999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||++++.++..+ ..|+..+.+..  .+.|+++|+||+|+...+.          +..+++..+++.++..+++++||++
T Consensus        82 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~~Sa~~  150 (167)
T 1c1y_A           82 YSITAQSTFNDL-QDLREQILRVKDTEDVPMILVGNKCDLEDERV----------VGKEQGQNLARQWCNCAFLESSAKS  150 (167)
T ss_dssp             EETTCHHHHHTH-HHHHHHHHHHHCCSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTSCEEEECBTTT
T ss_pred             EECCCHHHHHHH-HHHHHHHHHhhCcCCCcEEEEEECcccccccc----------CCHHHHHHHHHHccCCcEEEecCCC
Confidence            999999999998 77887776653  5899999999999987654          7788899999988434999999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       151 ~~gi  154 (167)
T 1c1y_A          151 KINV  154 (167)
T ss_dssp             TBSH
T ss_pred             CCCH
Confidence            9985

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.5e-33  Score=194.47  Aligned_cols=152  Identities=29%  Similarity=0.535  Sum_probs=135.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .++.+||+++|.+|+|||||+++|++..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.+|++
T Consensus        20 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   99 (192)
T 2fg5_A           20 AIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAA   99 (192)
T ss_dssp             -CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             cCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEE
Confidence            46789999999999999999999999988777788887766 44567788889999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.++..+ ..|+..+.+.. .+.|+++|+||+|+...+.          +..+++++++..+++ +++++||
T Consensus       100 ilV~d~~~~~s~~~~-~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa  167 (192)
T 2fg5_A          100 VIVYDITKQDSFYTL-KKWVKELKEHGPENIVMAIAGNKCDLSDIRE----------VPLKDAKEYAESIGA-IVVETSA  167 (192)
T ss_dssp             EEEEETTCTHHHHHH-HHHHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHTTTC-EEEECBT
T ss_pred             EEEEeCCCHHHHHHH-HHHHHHHHHhCCCCCcEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEEEEeC
Confidence            999999999999998 88999888776 5799999999999976544          778899999999997 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       168 ~~~~gi  173 (192)
T 2fg5_A          168 KNAINI  173 (192)
T ss_dssp             TTTBSH
T ss_pred             CCCcCH
Confidence            999985

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=100.00  E-value=4.6e-33  Score=187.73  Aligned_cols=152  Identities=26%  Similarity=0.536  Sum_probs=135.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ..+.+||+++|.+|+|||||+++|.+..+...+.++.+..+ .....+++....+.+|||||.+.+..++..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~   82 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAA   82 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEE
Confidence            35689999999999999999999999998877788887766 45677888899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.++..+ ..|+..+.... +..|+++|+||+|+...+.          +..+++..++...+. +++++||
T Consensus        83 i~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa  150 (170)
T 1z0j_A           83 IIVYDITKEETFSTL-KNWVRELRQHGPPSIVVAIAGNKCDLTDVRE----------VMERDAKDYADSIHA-IFVETSA  150 (170)
T ss_dssp             EEEEETTCHHHHHHH-HHHHHHHHHHSCTTSEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECBT
T ss_pred             EEEEECcCHHHHHHH-HHHHHHHHHhCCCCCcEEEEEECCccccccc----------cCHHHHHHHHHHcCC-EEEEEeC
Confidence            999999999999998 88998888775 6899999999999987654          778889999999997 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       151 ~~~~~i  156 (170)
T 1z0j_A          151 KNAINI  156 (170)
T ss_dssp             TTTBSH
T ss_pred             CCCcCH
Confidence            999985

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=100.00  E-value=2.5e-33  Score=197.57  Aligned_cols=152  Identities=30%  Similarity=0.510  Sum_probs=127.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .+..+||+++|++|+|||||+++|.+..+...+.++.+.++. ..+.+++..+.+.+|||||++.+..++..+++.+|++
T Consensus        10 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~v   89 (223)
T 3cpj_B           10 YDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGA   89 (223)
T ss_dssp             CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEE
T ss_pred             CCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEE
Confidence            356899999999999999999999999988888888887774 5677888889999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.++..+ ..|+..+.... .+.|++||+||+|+...+.          +..+++..++..+++ +|+++||
T Consensus        90 ilV~D~~~~~s~~~~-~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa  157 (223)
T 3cpj_B           90 LIVYDISKSSSYENC-NHWLSELRENADDNVAVGLIGNKSDLAHLRA----------VPTEESKTFAQENQL-LFTETSA  157 (223)
T ss_dssp             EEEEC-CCHHHHHHH-HHHHHHHHHHCC--CEEEEEECCGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCC
T ss_pred             EEEEeCCCHHHHHHH-HHHHHHHHHhCCCCCeEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEEEEeC
Confidence            999999999999998 78998887765 5799999999999987654          778889999999997 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       158 ~~~~gi  163 (223)
T 3cpj_B          158 LNSENV  163 (223)
T ss_dssp             C-CCCH
T ss_pred             CCCCCH
Confidence            999985

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=100.00  E-value=4.6e-33  Score=193.29  Aligned_cols=152  Identities=29%  Similarity=0.600  Sum_probs=136.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .+..+||+++|.+|+|||||+++|.+..+...+.++.+..+ ...+..++..+.+.+|||||++.+..++..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   84 (203)
T 1zbd_A            5 FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGF   84 (203)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEE
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEE
Confidence            45789999999999999999999999998777778877666 45677788899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..++++.++..+++ +++++||
T Consensus        85 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa  152 (203)
T 1zbd_A           85 ILMYDITNEESFNAV-QDWSTQIKTYSWDNAQVLLVGNKCDMEDERV----------VSSERGRQLADHLGF-EFFEASA  152 (203)
T ss_dssp             EEEEETTCHHHHHHH-HHHHHHHHHHSCSSCEEEEEEECTTCTTSCC----------SCHHHHHHHHHHHTC-EEEECBT
T ss_pred             EEEEECcCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECcccCcccc----------cCHHHHHHHHHHCCC-eEEEEEC
Confidence            999999999999998 78998888766 6799999999999977654          778899999999998 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       153 ~~~~gi  158 (203)
T 1zbd_A          153 KDNINV  158 (203)
T ss_dssp             TTTBSS
T ss_pred             CCCCCH
Confidence            999986

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=3.8e-33  Score=188.03  Aligned_cols=153  Identities=31%  Similarity=0.561  Sum_probs=133.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      +.+||+++|++|+|||||+++|.+..+...+.++.+..+ .....+++..+.+.+||+||++.+..++..+++++|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEE
Confidence            468999999999999999999999988877788887766 4567788899999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |||++++.++..+ ..|+..+.... .+.|+++++||+|+.....       ...+..++++.++...++ +++++||++
T Consensus        82 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-------~~~v~~~~~~~~~~~~~~-~~~~~Sa~~  152 (170)
T 1ek0_A           82 VYDVTKPQSFIKA-RHWVKELHEQASKDIIIALVGNKIDXLQEGG-------ERKVAREEGEKLAEEKGL-LFFETSAKT  152 (170)
T ss_dssp             EEETTCHHHHHHH-HHHHHHHHHHSCTTCEEEEEEECGGGGGSSC-------CCCSCHHHHHHHHHHHTC-EEEECCTTT
T ss_pred             EEecCChHHHHHH-HHHHHHHHHhcCCCCcEEEEEECCCcccccc-------ccCCCHHHHHHHHHHcCC-EEEEEeCCC
Confidence            9999999999998 78888887765 6899999999999976521       123778889999999998 999999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       153 ~~gi  156 (170)
T 1ek0_A          153 GENV  156 (170)
T ss_dssp             CTTH
T ss_pred             CCCH
Confidence            9985

>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=3.6e-33  Score=191.50  Aligned_cols=149  Identities=21%  Similarity=0.327  Sum_probs=128.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.+||+++|++|||||||+++|+++.+...+.++. ..+.+.+.+++..+.+.+|||+|++.+.     +++++|+++
T Consensus        17 ~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~~i   90 (184)
T 3ihw_A           17 QGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEG-GRFKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAVV   90 (184)
T ss_dssp             CCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTC-EEEEEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSEEE
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCc-ceEEEEEEECCEEEEEEEEECCCChhhh-----eecCCCEEE
Confidence            4578999999999999999999999999888777774 4556788899999999999999998876     778899999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++.+++.+ ..|+..+....  .+.|+++++||+|+.....        +.+..+++..++..++..+|+++||
T Consensus        91 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~--------~~v~~~~~~~~~~~~~~~~~~e~Sa  161 (184)
T 3ihw_A           91 FVFSLEDEISFQTV-YNYFLRLCSFRNASEVPMVLVGTQDAISAANP--------RVIDDSRARKLSTDLKRCTYYETCA  161 (184)
T ss_dssp             EEEETTCHHHHHHH-HHHHHHHHTTSCGGGSCEEEEEECTTCBTTBC--------CCSCHHHHHHHHHHTTTCEEEEEBT
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECcccccccc--------cccCHHHHHHHHHHcCCCeEEEecC
Confidence            99999999999998 78999988765  5799999999999953211        2278899999999998449999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       162 ~~~~gv  167 (184)
T 3ihw_A          162 TYGLNV  167 (184)
T ss_dssp             TTTBTH
T ss_pred             CCCCCH
Confidence            999985

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=100.00  E-value=2.2e-33  Score=188.74  Aligned_cols=150  Identities=31%  Similarity=0.554  Sum_probs=132.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|.+|+|||||+++|.+..+...+.++.+..+...+.+++..+.+.+||+||++.+..++..+++.+|++++|
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v   82 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCV   82 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEEEEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEE
Confidence            47899999999999999999999998888888888877777778899999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||+++++++..+ ..|+..+.+..  .+.|+++|+||+|+...+.          +..+++..++..+++ +++++||++
T Consensus        83 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~  150 (168)
T 1u8z_A           83 FSITEMESFAAT-ADFREQILRVKEDENVPFLLVGNKSDLEDKRQ----------VSVEEAKNRADQWNV-NYVETSAKT  150 (168)
T ss_dssp             EETTCHHHHHHH-HHHHHHHHHHHCCTTSCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTC-EEEECCTTT
T ss_pred             EECCCHHHHHHH-HHHHHHHHHhcCCCCCcEEEEEECccccccCc----------cCHHHHHHHHHHcCC-eEEEeCCCC
Confidence            999999999998 78888887765  3799999999999987654          778899999999998 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       151 ~~gi  154 (168)
T 1u8z_A          151 RANV  154 (168)
T ss_dssp             CTTH
T ss_pred             CCCH
Confidence            9985

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=6.7e-33  Score=193.29  Aligned_cols=163  Identities=48%  Similarity=0.863  Sum_probs=133.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      ...+||+++|.+|+|||||+++|.+..+...+.++.+..+...+.+++..+.+.+|||||++.+..++..+++.+|++++
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~  102 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILM  102 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEEEEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEEE
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEEE
Confidence            46789999999999999999999999888877888887776677888999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||++++.++..+...|+..+....++.|+++|+||+|+........  .....+.+..+++..++...+..+++++||+
T Consensus       103 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~  182 (207)
T 2fv8_A          103 CFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAK  182 (207)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTT
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEeeCC
Confidence            99999999999886789998888777899999999999976532111  0111234678889999999988789999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       183 ~g~gi  187 (207)
T 2fv8_A          183 TKEGV  187 (207)
T ss_dssp             TCTTH
T ss_pred             CCCCH
Confidence            99985

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=100.00  E-value=3.2e-33  Score=188.08  Aligned_cols=148  Identities=20%  Similarity=0.326  Sum_probs=110.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .+||+++|++|+|||||+++|.+.... ...++.+..+.....+++..+.+.+||++|++.+..++..+++.++++++||
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVY   80 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEEEEEEEETTEEEEEEEEECC---------------CCEEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccceEEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEEE
Confidence            589999999999999999999876653 3345555666677788999999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |++++.+++.+ ..|+..+.+..  ++.|+++|+||+|+...+.          +..+++..++...++ +++++||++|
T Consensus        81 d~~~~~s~~~~-~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~  148 (166)
T 3q72_A           81 SVTDKGSFEKA-SELRVQLRRARQTDDVPIILVGNKSDLVRSRE----------VSVDEGRACAVVFDC-KFIETSAALH  148 (166)
T ss_dssp             ETTCHHHHHHH-HHHHHHHHHCC---CCCEEEEEECTTCCSSCC----------SCHHHHHHHHHHTTC-EEEECBGGGT
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEeccccccccc----------cCHHHHHHHHHHhCC-cEEEeccCCC
Confidence            99999999998 77888777653  6899999999999987665          888999999999998 9999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +||
T Consensus       149 ~gi  151 (166)
T 3q72_A          149 HNV  151 (166)
T ss_dssp             BSH
T ss_pred             CCH
Confidence            985

>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=100.00  E-value=2.8e-33  Score=194.89  Aligned_cols=164  Identities=61%  Similarity=1.046  Sum_probs=139.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.+||+++|.+|+|||||+++|.++.+...+.++....+...+.+++..+.+.+|||||++.+..++..+++++|+++
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  106 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFL  106 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEEEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeecceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEE
Confidence            35689999999999999999999999998888888888777778888999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++.++..+...|+..+....++.|+++|+||+|+........  .......+..+++..++..++..+++++||
T Consensus       107 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA  186 (204)
T 4gzl_A          107 ICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  186 (204)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEeeC
Confidence            999999999999985589999998877899999999999986543111  112233467889999999999878999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       187 ~~g~gi  192 (204)
T 4gzl_A          187 LTQRGL  192 (204)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=9e-33  Score=188.11  Aligned_cols=152  Identities=33%  Similarity=0.628  Sum_probs=126.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      .++.+||+++|.+|+|||||+++|.+..+. ..+.++.+..+. ..+.+++..+.+.+|||||++.+..++..+++.+|+
T Consensus         7 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   86 (180)
T 2g6b_A            7 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHA   86 (180)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCE
Confidence            467899999999999999999999998874 456677776664 455788889999999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      +++|+|++++.++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..++++.++..+++ +++++|
T Consensus        87 ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~S  154 (180)
T 2g6b_A           87 LLLLYDVTNKASFDNI-QAWLTEIHEYAQHDVALMLLGNKVDSAHERV----------VKREDGEKLAKEYGL-PFMETS  154 (180)
T ss_dssp             EEEEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECCSTTSCCC----------SCHHHHHHHHHHHTC-CEEECC
T ss_pred             EEEEEECCCHHHHHHH-HHHHHHHHHhCCCCCcEEEEEECcccCcccc----------cCHHHHHHHHHHcCC-eEEEEe
Confidence            9999999999999988 78988888766 6899999999999987654          778889999999998 899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|.||
T Consensus       155 a~~~~gi  161 (180)
T 2g6b_A          155 AKTGLNV  161 (180)
T ss_dssp             TTTCTTH
T ss_pred             CCCCCCH
Confidence            9999985

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=2.2e-33  Score=194.06  Aligned_cols=153  Identities=29%  Similarity=0.476  Sum_probs=133.8

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      +...+.+||+++|.+|+|||||+++|.+..+...+.++.+..+...+.+++..+.+.+||+||++. ..++..+++.+|+
T Consensus        23 ~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~  101 (196)
T 2atv_A           23 MAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEG  101 (196)
T ss_dssp             ----CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSE
T ss_pred             cCCCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceEEEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCE
Confidence            445678999999999999999999999999888888888888877788899999999999999988 7778888999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      +++|||++++.+++.+ ..|+..+....  .+.|+++|+||+|+...+.          +..+++..++..+++ +++++
T Consensus       102 iilv~D~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~  169 (196)
T 2atv_A          102 FVLVYDITDRGSFEEV-LPLKNILDEIKKPKNVTLILVGNKADLDHSRQ----------VSTEEGEKLATELAC-AFYEC  169 (196)
T ss_dssp             EEEEEETTCHHHHHTH-HHHHHHHHHHHTTSCCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTS-EEEEC
T ss_pred             EEEEEECcCHHHHHHH-HHHHHHHHHhhCCCCCcEEEEEECcccccccc----------cCHHHHHHHHHHhCC-eEEEE
Confidence            9999999999999998 78888877653  5899999999999987654          778899999999998 99999


Q ss_pred             cccCcc-CC
Q 030961          161 SSKTQQ-VC  168 (168)
Q Consensus       161 Sa~~~~-~i  168 (168)
                      ||++|. ||
T Consensus       170 Sa~~g~~gi  178 (196)
T 2atv_A          170 SACTGEGNI  178 (196)
T ss_dssp             CTTTCTTCH
T ss_pred             CCCcCCcCH
Confidence            999998 75

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=100.00  E-value=2.8e-33  Score=190.76  Aligned_cols=158  Identities=32%  Similarity=0.567  Sum_probs=116.7

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEEC-CeEEEEEEEeCCCCcccccccccccc
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAE-GTTVNLGLWDTAGQEDYNRLRPLSYR   78 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~   78 (168)
                      |+....+.+||+++|++|+|||||+++|++..+...+.++.+.++ ...+.++ +..+.+.+||+||++.+..++..+++
T Consensus         1 Ms~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   80 (182)
T 1ky3_A            1 MSSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYR   80 (182)
T ss_dssp             ------CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCST
T ss_pred             CCcccCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhh
Confidence            776778899999999999999999999999988877788876665 4456666 56788999999999999999999999


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYS-----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      .+|++++|||++++.++..+ ..|+..+....     .+.|+++|+||+|+.....         .+..+++..++...+
T Consensus        81 ~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~---------~v~~~~~~~~~~~~~  150 (182)
T 1ky3_A           81 GADCCVLVYDVTNASSFENI-KSWRDEFLVHANVNSPETFPFVILGNKIDAEESKK---------IVSEKSAQELAKSLG  150 (182)
T ss_dssp             TCCEEEEEEETTCHHHHHTH-HHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGC---------CSCHHHHHHHHHHTT
T ss_pred             cCCEEEEEEECCChHHHHHH-HHHHHHHHHHhcccCcCCCcEEEEEECCccccccc---------cCCHHHHHHHHHhcC
Confidence            99999999999999999998 78888776643     5789999999999954321         266788888888544


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      ..+++++||++|+||
T Consensus       151 ~~~~~~~Sa~~~~gi  165 (182)
T 1ky3_A          151 DIPLFLTSAKNAINV  165 (182)
T ss_dssp             SCCEEEEBTTTTBSH
T ss_pred             CCeEEEEecCCCCCH
Confidence            448999999999985

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=100.00  E-value=2.3e-33  Score=188.50  Aligned_cols=150  Identities=29%  Similarity=0.574  Sum_probs=133.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|++|+|||||+++|.++.+...+.++.+..+.....+++..+.+.+||+||++.+..++..+++.++++++|
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILV   81 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeEEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEE
Confidence            36899999999999999999999998888888888777777788899999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||++++.++..+ ..|...+.+..  .+.|+++|+||+|+...+.          +..+++..++..+++ +++++||++
T Consensus        82 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~  149 (167)
T 1kao_A           82 YSLVNQQSFQDI-KPMRDQIIRVKRYEKVPVILVGNKVDLESERE----------VSSSEGRALAEEWGC-PFMETSAKS  149 (167)
T ss_dssp             EETTCHHHHHHH-HHHHHHHHHHTTTSCCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTS-CEEEECTTC
T ss_pred             EeCCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECCccccccc----------CCHHHHHHHHHHhCC-CEEEecCCC
Confidence            999999999988 77777776654  5799999999999976654          778889999999998 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+||
T Consensus       150 ~~gi  153 (167)
T 1kao_A          150 KTMV  153 (167)
T ss_dssp             HHHH
T ss_pred             CcCH
Confidence            9875

>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=4.6e-33  Score=193.41  Aligned_cols=152  Identities=30%  Similarity=0.547  Sum_probs=137.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.++|+++|.+|+|||||+++|.+..+...+.++.+..+...+.+++..+.+.+|||||++.+..++..+++.+|+++
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i   90 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFL   90 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEEE
Confidence            34678999999999999999999999988888888888877777888999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++.++..+ ..|+..+....  .+.|+++|+||+|+...+.          +..+++..++..+++ +++++||
T Consensus        91 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa  158 (206)
T 2bov_A           91 CVFSITEMESFAAT-ADFREQILRVKEDENVPFLLVGNKSDLEDKRQ----------VSVEEAKNRAEQWNV-NYVETSA  158 (206)
T ss_dssp             EEEETTCHHHHHHH-HHHHHHHHHHTTCSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEEECT
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEeccCcccccc----------ccHHHHHHHHHHhCC-eEEEEeC
Confidence            99999999999998 78888888765  3899999999999987654          778899999999998 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       159 ~~g~gi  164 (206)
T 2bov_A          159 KTRANV  164 (206)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=100.00  E-value=6.2e-33  Score=188.02  Aligned_cols=151  Identities=23%  Similarity=0.332  Sum_probs=118.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcc--ccccccccccCCcEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED--YNRLRPLSYRGADVF   83 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--~~~~~~~~~~~~~~~   83 (168)
                      .+.+||+++|++|+|||||+++|.+..+...+.+...+.+...+.+++..+.+.+|||||++.  +..+...+++.++++
T Consensus         2 ~~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~   81 (175)
T 2nzj_A            2 MALYRVVLLGDPGVGKTSLASLFAGKQERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAY   81 (175)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCC-----CCCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEE
T ss_pred             ceEEEEEEECCCCccHHHHHHHHhcCCCccccCccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEE
Confidence            357999999999999999999999988755433332333456778889999999999999987  566677788899999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ++|||++++.++..+ ..|+..+.+..  .+.|+++|+||+|+...+.          +..++++.++..+++ +++++|
T Consensus        82 i~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~S  149 (175)
T 2nzj_A           82 VIVYSIADRGSFESA-SELRIQLRRTHQADHVPIILVGNKADLARCRE----------VSVEEGRACAVVFDC-KFIETS  149 (175)
T ss_dssp             EEEEETTCHHHHHHH-HHHHHHHHHCC----CCEEEEEECTTCTTTCC----------SCHHHHHHHHHHHTS-EEEECB
T ss_pred             EEEEECCCHHHHHHH-HHHHHHHHHhhccCCCCEEEEEEChhhccccc----------cCHHHHHHHHHHcCC-eEEEEe
Confidence            999999999999998 78888887753  5799999999999987654          777888899999998 999999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|+||
T Consensus       150 a~~g~gi  156 (175)
T 2nzj_A          150 ATLQHNV  156 (175)
T ss_dssp             TTTTBSH
T ss_pred             cCCCCCH
Confidence            9999985

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=100.00  E-value=4.2e-33  Score=190.63  Aligned_cols=152  Identities=30%  Similarity=0.547  Sum_probs=135.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.+||+++|.+|+|||||+++|.+..+...+.++.+..+...+.+++..+.+.+||+||++.+..++..+++.+|+++
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   94 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFL   94 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEEEEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEEE
Confidence            34679999999999999999999999988888888888777777888999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++.++..+ ..|+..+.+..  .+.|+++|+||+|+...+.          +..++++.++..+++ +++++||
T Consensus        95 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa  162 (187)
T 2a9k_A           95 CVFSITEMESFAAT-ADFREQILRVKEDENVPFLLVGNKSDLEDKRQ----------VSVEEAKNRAEQWNV-NYVETSA  162 (187)
T ss_dssp             EEEETTCHHHHHHH-HHHHHHHHHHHCCTTCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCT
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECccccccCc----------cCHHHHHHHHHHcCC-eEEEeCC
Confidence            99999999999998 78888887765  3799999999999977654          778889999999998 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       163 ~~~~gi  168 (187)
T 2a9k_A          163 KTRANV  168 (187)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=100.00  E-value=9.2e-33  Score=190.37  Aligned_cols=152  Identities=31%  Similarity=0.505  Sum_probs=134.6

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .++.+||+++|.+|+|||||+++|.+..+...+.++.+..+ .....+++..+.+.+|||||++.+..++..+++.+|++
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~v  101 (193)
T 2oil_A           22 YNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGA  101 (193)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEE
Confidence            45689999999999999999999999988877778877666 45677788899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..++++.++...++ +++++||
T Consensus       102 i~v~D~~~~~s~~~~-~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa  169 (193)
T 2oil_A          102 LLVFDLTKHQTYAVV-ERWLKELYDHAEATIVVMLVGNKSDLSQARE----------VPTEEARMFAENNGL-LFLETSA  169 (193)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHTTSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEEECT
T ss_pred             EEEEECCCHHHHHHH-HHHHHHHHHhcCCCCeEEEEEECCCcccccc----------cCHHHHHHHHHHcCC-EEEEEeC
Confidence            999999999999988 78888887765 5799999999999986654          678889999999998 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       170 ~~~~gi  175 (193)
T 2oil_A          170 LDSTNV  175 (193)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=100.00  E-value=5.6e-33  Score=188.74  Aligned_cols=151  Identities=33%  Similarity=0.556  Sum_probs=134.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      .+.+||+++|.+|+|||||+++|++..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++++|+++
T Consensus        12 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i   91 (179)
T 2y8e_A           12 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAV   91 (179)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEE
Confidence            4679999999999999999999999988877788877665 556778898999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||++++.++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..+++..++...++ +++++||+
T Consensus        92 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~  159 (179)
T 2y8e_A           92 VVYDITNTNSFHQT-SKWIDDVRTERGSDVIIMLVGNKTDLSDKRQ----------VSTEEGERKAKELNV-MFIETSAK  159 (179)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHHTTSSEEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTC-EEEEEBTT
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECCcccccCc----------CCHHHHHHHHHHcCC-eEEEEeCC
Confidence            99999999999988 78888877654 5799999999999986654          778889999999998 99999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       160 ~~~~i  164 (179)
T 2y8e_A          160 AGYNV  164 (179)
T ss_dssp             TTBSH
T ss_pred             CCCCH
Confidence            99985

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.1e-32  Score=189.95  Aligned_cols=154  Identities=28%  Similarity=0.576  Sum_probs=135.1

Q ss_pred             CCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCC
Q 030961            2 ASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGA   80 (168)
Q Consensus         2 ~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   80 (168)
                      .....+.+||+++|.+|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.+
T Consensus         9 ~~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   88 (195)
T 1x3s_A            9 DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGA   88 (195)
T ss_dssp             CTTEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTC
T ss_pred             ccCCCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccC
Confidence            33445789999999999999999999999998888888887666 45677888999999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           81 DVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        81 ~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      |++++|||++++.++..+ ..|+..+....  .+.|+++|+||+|+... .          +..+++..++...++ +++
T Consensus        89 d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~-~----------~~~~~~~~~~~~~~~-~~~  155 (195)
T 1x3s_A           89 QGVILVYDVTRRDTFVKL-DNWLNELETYCTRNDIVNMLVGNKIDKENR-E----------VDRNEGLKFARKHSM-LFI  155 (195)
T ss_dssp             CEEEEEEETTCHHHHHTH-HHHHHHHTTCCSCSCCEEEEEEECTTSSSC-C----------SCHHHHHHHHHHTTC-EEE
T ss_pred             CEEEEEEECcCHHHHHHH-HHHHHHHHHhcCcCCCcEEEEEECCcCccc-c----------cCHHHHHHHHHHcCC-EEE
Confidence            999999999999999998 78988888765  57899999999999533 2          677889999999998 899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       156 ~~Sa~~~~gi  165 (195)
T 1x3s_A          156 EASAKTCDGV  165 (195)
T ss_dssp             ECCTTTCTTH
T ss_pred             EecCCCCCCH
Confidence            9999999985

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=100.00  E-value=3.6e-33  Score=188.26  Aligned_cols=149  Identities=33%  Similarity=0.648  Sum_probs=126.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      ..+||+++|++|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+||+||++.+..++..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEE
Confidence            478999999999999999999999988777788887766 4567778888999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |||++++.++..+ ..|+..+.+.. ++.|+++|+||+|+.. +.          +..+++..+++.+++ +++++||++
T Consensus        82 v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~nK~Dl~~-~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~  148 (170)
T 1g16_A           82 VYDITDERTFTNI-KQWFKTVNEHANDEAQLLLVGNKSDMET-RV----------VTADQGEALAKELGI-PFIESSAKN  148 (170)
T ss_dssp             EEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCTT-CC----------SCHHHHHHHHHHHTC-CEEECBTTT
T ss_pred             EEECCCHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECccCCc-Cc----------cCHHHHHHHHHHcCC-eEEEEECCC
Confidence            9999999999988 78988888766 5899999999999943 22          677889999999998 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       149 ~~gv  152 (170)
T 1g16_A          149 DDNV  152 (170)
T ss_dssp             TBSH
T ss_pred             CCCH
Confidence            9985

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=2e-34  Score=198.53  Aligned_cols=153  Identities=33%  Similarity=0.611  Sum_probs=137.0

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      ..+..+||+++|.+|+|||||+++|.+..+...+.++.+.++ ...+..++..+.+.+||+||++.+..++..+++.+|+
T Consensus        19 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   98 (191)
T 3dz8_A           19 NFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMG   98 (191)
T ss_dssp             EEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCE
T ss_pred             ccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCE
Confidence            346789999999999999999999999988877778877666 4567778888999999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      +++|||++++.+++.+ ..|+..+.... .+.|+++|+||+|+...+.          +..++++.++..+++ +++++|
T Consensus        99 ~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~S  166 (191)
T 3dz8_A           99 FILMYDITNEESFNAV-QDWATQIKTYSWDNAQVILVGNKCDMEEERV----------VPTEKGQLLAEQLGF-DFFEAS  166 (191)
T ss_dssp             EEEEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEECB
T ss_pred             EEEEEECcCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECCCCccccc----------cCHHHHHHHHHHcCC-eEEEEE
Confidence            9999999999999998 78999998876 6899999999999977655          788899999999998 999999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|.||
T Consensus       167 a~~~~gi  173 (191)
T 3dz8_A          167 AKENISV  173 (191)
T ss_dssp             TTTTBSH
T ss_pred             CCCCCCH
Confidence            9999985

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=100.00  E-value=3.6e-33  Score=193.72  Aligned_cols=151  Identities=30%  Similarity=0.553  Sum_probs=124.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ++.+||+++|.+|+|||||+++|++..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.+|+++
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i  102 (200)
T 2o52_A           23 DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGAL  102 (200)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEEE
Confidence            5689999999999999999999999988877788887666 456778888899999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||++++.++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..+++..++...++ +++++||+
T Consensus       103 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~SA~  170 (200)
T 2o52_A          103 LVYDITSRETYNSL-AAWLTDARTLASPNIVVILCGNKKDLDPERE----------VTFLEASRFAQENEL-MFLETSAL  170 (200)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHTCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEEECTT
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECCCcccccc----------cCHHHHHHHHHHcCC-EEEEEeCC
Confidence            99999999999998 78888887765 6899999999999976554          777889999999998 99999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       171 ~g~gi  175 (200)
T 2o52_A          171 TGENV  175 (200)
T ss_dssp             TCTTH
T ss_pred             CCCCH
Confidence            99985

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=100.00  E-value=1.7e-33  Score=191.46  Aligned_cols=152  Identities=28%  Similarity=0.451  Sum_probs=130.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECC-eEEEEEEEeCCCCccccccccccccCCcE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEG-TTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      ..+.+||+++|++|+|||||+++|.+..+...+.++.+.++ ...+.+++ ..+.+.+|||||++.+..++..+++++|+
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            45689999999999999999999999887766667776554 55667776 67899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC---CCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS---PGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~---~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      +++|||++++.+++.+ ..|+..+....   .+.| +++|+||+|+...+.          +..+++..++..+++ +++
T Consensus        83 ~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~  150 (178)
T 2hxs_A           83 VLLVYDITNYQSFENL-EDWYTVVKKVSEESETQPLVALVGNKIDLEHMRT----------IKPEKHLRFCQENGF-SSH  150 (178)
T ss_dssp             EEEEEETTCHHHHHTH-HHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-EEE
T ss_pred             EEEEEECCCHHHHHHH-HHHHHHHHHHhcccCCCCeEEEEEEccccccccc----------cCHHHHHHHHHHcCC-cEE
Confidence            9999999999999987 78888887753   2455 899999999987654          778889999999998 999


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       151 ~~Sa~~~~gi  160 (178)
T 2hxs_A          151 FVSAKTGDSV  160 (178)
T ss_dssp             EECTTTCTTH
T ss_pred             EEeCCCCCCH
Confidence            9999999985

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=100.00  E-value=1.2e-32  Score=188.80  Aligned_cols=150  Identities=35%  Similarity=0.560  Sum_probs=132.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|++|+|||||+++|.+..+...+.++....+.....+++..+.+.+|||||++.+..++..+++.+|++++
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   81 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   81 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCCEEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCchheEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEE
Confidence            46899999999999999999999999888888888877777788889999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||++++.++..+ ..|+..+....  .+.|+++|+||+|+....           +..+++..++..+++ +++++||+
T Consensus        82 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~-----------~~~~~~~~~~~~~~~-~~~~~Sa~  148 (189)
T 4dsu_A           82 VFAINNTKSFEDI-HHYREQIKRVKDSEDVPMVLVGNKCDLPSRT-----------VDTKQAQDLARSYGI-PFIETSAK  148 (189)
T ss_dssp             EEETTCHHHHHHH-HHHHHHHHHHTTCSCCCEEEEEECTTSSSCS-----------SCHHHHHHHHHHHTC-CEEECCTT
T ss_pred             EEECCCHHHHHHH-HHHHHHHHHhcCCCCCcEEEEEECccCcccc-----------cCHHHHHHHHHHcCC-eEEEEeCC
Confidence            9999999999998 78888887754  579999999999997432           678889999999998 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.||
T Consensus       149 ~g~gi  153 (189)
T 4dsu_A          149 TRQGV  153 (189)
T ss_dssp             TCTTH
T ss_pred             CCCCH
Confidence            99985

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=100.00  E-value=9.3e-33  Score=192.11  Aligned_cols=155  Identities=30%  Similarity=0.551  Sum_probs=129.1

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG   79 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   79 (168)
                      |+....+.+||+++|.+|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.
T Consensus         1 M~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   80 (207)
T 1vg8_A            1 MTSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRG   80 (207)
T ss_dssp             ------CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTT
T ss_pred             CCcccCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhC
Confidence            666778899999999999999999999999988877788876665 4567778888999999999999999999999999


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhC-----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH-HhC
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYS-----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK-QIG  153 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  153 (168)
                      +|++++|||++++.++..+ ..|+..+....     .+.|+++|+||+|+... .          +..+++..++. ..+
T Consensus        81 ~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~----------~~~~~~~~~~~~~~~  148 (207)
T 1vg8_A           81 ADCCVLVFDVTAPNTFKTL-DSWRDEFLIQASPRDPENFPFVVLGNKIDLENR-Q----------VATKRAQAWCYSKNN  148 (207)
T ss_dssp             CSEEEEEEETTCHHHHHTH-HHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCC-C----------SCHHHHHHHHHHTTS
T ss_pred             CcEEEEEEECCCHHHHHHH-HHHHHHHHHhcccccCCCCcEEEEEECCCCccc-c----------cCHHHHHHHHHhcCC
Confidence            9999999999999999988 78888776543     47899999999999732 2          56788888887 455


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      . +++++||++|.||
T Consensus       149 ~-~~~~~Sa~~g~gi  162 (207)
T 1vg8_A          149 I-PYFETSAKEAINV  162 (207)
T ss_dssp             C-CEEECBTTTTBSH
T ss_pred             c-eEEEEeCCCCCCH
Confidence            5 8999999999985

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=100.00  E-value=8.8e-33  Score=186.41  Aligned_cols=149  Identities=23%  Similarity=0.364  Sum_probs=116.8

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeec-eeEEEEECCeEEEEEEEeCCCCccccc-cccccccCCcEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDN-FSANVVAEGTTVNLGLWDTAGQEDYNR-LRPLSYRGADVFVL   85 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~~~~~~i~   85 (168)
                      .+||+++|++|+|||||+++|.+..+...+.++.+.. +...+.+++..+.+.+||++|++.+.. ++..+++.+|++++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~   81 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLI   81 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEE
Confidence            5899999999999999999999876655444444434 356777899999999999999998876 77777899999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCC--CCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSP--GVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~--~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||+++++++..+ ..|+..+....+  +.|+++|+||+|+...+.          +..+++..++..+++ +++++||+
T Consensus        82 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~  149 (169)
T 3q85_A           82 VFSVTDRRSFSKV-PETLLRLRAGRPHHDLPVILVGNKSDLARSRE----------VSLEEGRHLAGTLSC-KHIETSAA  149 (169)
T ss_dssp             EEETTCHHHHHTH-HHHHHHHHHHSTTSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECBTT
T ss_pred             EEECCChHHHHHH-HHHHHHHHhcccCCCCCEEEEeeCcchhhccc----------CCHHHHHHHHHHcCC-cEEEecCc
Confidence            9999999999998 788888877653  899999999999986655          888999999999998 99999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       150 ~~~~v  154 (169)
T 3q85_A          150 LHHNT  154 (169)
T ss_dssp             TTBSH
T ss_pred             cCCCH
Confidence            99985

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1e-32  Score=193.00  Aligned_cols=152  Identities=20%  Similarity=0.372  Sum_probs=123.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC--CCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcc-ccccccccccCCc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK--FPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED-YNRLRPLSYRGAD   81 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~~~~~~~~   81 (168)
                      ....+||+++|.+|||||||+++|.+..  +...+.++..+.+.+.+.+++..+.+.+|||+|++. +..+.+.+++.++
T Consensus        34 ~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a~  113 (211)
T 2g3y_A           34 GNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGD  113 (211)
T ss_dssp             -CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCCS
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcCCccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhhCC
Confidence            3567999999999999999999999643  344433332333466778899999999999999876 4556677888999


Q ss_pred             EEEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEE
Q 030961           82 VFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIE  159 (168)
Q Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      ++++|||++++.+|+.+ ..|...+.+..  .++|+++|+||+|+...+.          +..++++.++..+++ +|++
T Consensus       114 ~~ilVydvt~~~sf~~~-~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~----------v~~~e~~~~a~~~~~-~~~e  181 (211)
T 2g3y_A          114 AYLIVYSITDRASFEKA-SELRIQLRRARQTEDIPIILVGNKSDLVRCRE----------VSVSEGRACAVVFDC-KFIE  181 (211)
T ss_dssp             EEEEEEETTCHHHHHHH-HHHHHHHHTSGGGTTSCEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEE
T ss_pred             EEEEEEECCCHHHHHHH-HHHHHHHHHHhCCCCCcEEEEEEChHHhcCce----------EeHHHHHHHHHHcCC-EEEE
Confidence            99999999999999998 77887776542  5799999999999976554          777888899999998 8999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|+||
T Consensus       182 ~SAk~g~~v  190 (211)
T 2g3y_A          182 TSAAVQHNV  190 (211)
T ss_dssp             CBTTTTBSH
T ss_pred             EeCCCCCCH
Confidence            999999985

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=100.00  E-value=3.3e-33  Score=192.77  Aligned_cols=153  Identities=29%  Similarity=0.555  Sum_probs=127.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ....+||+++|.+|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.+|++
T Consensus        23 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~i  102 (192)
T 2il1_A           23 ADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGI  102 (192)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSEE
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCEE
Confidence            45789999999999999999999999888777777776665 45677888899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.+++.+ ..|+..+.... .+.|+++|+||+|+...+.          +..++++.++..++..+++++||
T Consensus       103 ilV~D~~~~~s~~~~-~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~----------v~~~~~~~~~~~~~~~~~~~~SA  171 (192)
T 2il1_A          103 ILVYDITKKETFDDL-PKWMKMIDKYASEDAELLLVGNKLDCETDRE----------ITRQQGEKFAQQITGMRFCEASA  171 (192)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHTSTTCEEEECBT
T ss_pred             EEEEECcCHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECcccccccc----------cCHHHHHHHHHhcCCCeEEEEeC
Confidence            999999999999998 78988888776 5799999999999977654          77888899998863349999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       172 ~~g~gi  177 (192)
T 2il1_A          172 KDNFNV  177 (192)
T ss_dssp             TTTBSH
T ss_pred             CCCCCH
Confidence            999985

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=100.00  E-value=3.8e-33  Score=193.37  Aligned_cols=158  Identities=30%  Similarity=0.518  Sum_probs=124.7

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ..+.+||+++|.+|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.+|++
T Consensus        25 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~i  104 (199)
T 2p5s_A           25 SQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGV  104 (199)
T ss_dssp             ---CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCSEE
T ss_pred             cCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCCEE
Confidence            45689999999999999999999999988777778887666 45778899999999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.++..+ ..|+..+.... .+.|+++|+||+|+.....    ....+.+..++++.++..+++ +++++||
T Consensus       105 ilv~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~----~~~~~~v~~~~~~~~~~~~~~-~~~~~SA  178 (199)
T 2p5s_A          105 LLLYDVTCEKSFLNI-REWVDMIEDAAHETVPIMLVGNKADIRDTAA----TEGQKCVPGHFGEKLAMTYGA-LFCETSA  178 (199)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHHHC---CCEEEEEECGGGHHHHH----HTTCCCCCHHHHHHHHHHHTC-EEEECCT
T ss_pred             EEEEECCChHHHHHH-HHHHHHHHHhcCCCCCEEEEEECcccccccc----cccccccCHHHHHHHHHHcCC-eEEEeeC
Confidence            999999999999998 78988887765 5799999999999974311    011233678889999999998 9999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       179 ~~g~gv  184 (199)
T 2p5s_A          179 KDGSNI  184 (199)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=100.00  E-value=1e-32  Score=189.77  Aligned_cols=156  Identities=35%  Similarity=0.555  Sum_probs=133.8

Q ss_pred             CCC-CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee--EEEEECCe---------EEEEEEEeCCCCcc
Q 030961            1 MAS-SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS--ANVVAEGT---------TVNLGLWDTAGQED   68 (168)
Q Consensus         1 m~~-~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~---------~~~~~i~D~~g~~~   68 (168)
                      |+. ..++.+||+++|.+|+|||||+++|.+..+...+.++.+.++.  +....++.         .+.+.+|||||++.
T Consensus         3 m~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~   82 (195)
T 3bc1_A            3 MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLER   82 (195)
T ss_dssp             ---CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGG
T ss_pred             CcccccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHH
Confidence            442 4567899999999999999999999999887777788776664  34555555         78999999999999


Q ss_pred             ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHH
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGE  146 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~  146 (168)
                      +..++..+++.+|++++|||++++.++..+ ..|+..+....  .+.|+++|+||+|+...+.          +..++++
T Consensus        83 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~  151 (195)
T 3bc1_A           83 FRSLTTAFFRDAMGFLLLFDLTNEQSFLNV-RNWISQLQMHAYSENPDIVLCGNKSDLEDQRA----------VKEEEAR  151 (195)
T ss_dssp             GHHHHHHTTTTCSEEEEEEETTCHHHHHTH-HHHHHHHHHHSSSSSCCEEEEEECTTCGGGCC----------SCHHHHH
T ss_pred             HHHHHHHHHcCCCEEEEEEECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECcccccccc----------cCHHHHH
Confidence            999999999999999999999999999998 78888887765  5899999999999977554          7788899


Q ss_pred             HHHHHhCCcEEEEecccCccCC
Q 030961          147 ELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       147 ~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      .++..+++ +++++||++|.||
T Consensus       152 ~~~~~~~~-~~~~~Sa~~~~~v  172 (195)
T 3bc1_A          152 ELAEKYGI-PYFETSAANGTNI  172 (195)
T ss_dssp             HHHHHHTC-CEEECCTTTCTTH
T ss_pred             HHHHHcCC-CEEEEECCCCCCH
Confidence            99999998 8999999999985

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=100.00  E-value=3.4e-33  Score=193.29  Aligned_cols=152  Identities=24%  Similarity=0.371  Sum_probs=126.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeec-eeEEEEECCeEEEEEEEeCCCCccccc-cccccccCCcE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDN-FSANVVAEGTTVNLGLWDTAGQEDYNR-LRPLSYRGADV   82 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~~~~~   82 (168)
                      ....+||+++|++|||||||+++|.+........++.+.+ +.+.+.+++..+.+.+|||+|++.+.. ++..+++.+++
T Consensus        20 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~   99 (195)
T 3cbq_A           20 KDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDA   99 (195)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCSE
T ss_pred             CCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCCE
Confidence            4568999999999999999999997654433333444433 355677899999999999999988764 77778899999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      +++|||++++.++..+ ..|+..+....  .+.|+++|+||+|+...+.          +..++++.++..+++ +|+++
T Consensus       100 ~ilv~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~a~~~~~-~~~e~  167 (195)
T 3cbq_A          100 FLIVFSVTDRRSFSKV-PETLLRLRAGRPHHDLPVILVGNKSDLARSRE----------VSLEEGRHLAGTLSC-KHIET  167 (195)
T ss_dssp             EEEEEETTCHHHHHTH-HHHHHHHHHHSTTSCCCEEEEEECTTCTTTCC----------SCHHHHHHHHHHTTC-EEEEE
T ss_pred             EEEEEECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEeechhccccCC----------cCHHHHHHHHHHhCC-EEEEE
Confidence            9999999999999998 78888887765  4799999999999986654          778899999999997 89999


Q ss_pred             cccCccCC
Q 030961          161 SSKTQQVC  168 (168)
Q Consensus       161 Sa~~~~~i  168 (168)
                      ||++|.||
T Consensus       168 Sa~~~~~v  175 (195)
T 3cbq_A          168 SAALHHNT  175 (195)
T ss_dssp             BTTTTBSH
T ss_pred             cCCCCCCH
Confidence            99999985

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=100.00  E-value=1e-32  Score=189.60  Aligned_cols=151  Identities=30%  Similarity=0.544  Sum_probs=133.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCcccc-ccccccccCCcEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYN-RLRPLSYRGADVF   83 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~~~~~   83 (168)
                      .+.+||+++|.+|+|||||+++|+++.+...+.++.+.++ ...+.+++..+.+.+|||||++.+. .++..+++.+|++
T Consensus        18 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~i   97 (189)
T 1z06_A           18 SRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAV   97 (189)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCEE
Confidence            4679999999999999999999999988887788887766 4567788889999999999999988 7888899999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ++|||++++.++..+ ..|+..+.+..  .+.|+++|+||+|+...+.          +..++++.++..+++ +++++|
T Consensus        98 ilv~D~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~S  165 (189)
T 1z06_A           98 VFVYDMTNMASFHSL-PAWIEECKQHLLANDIPRILVGNKCDLRSAIQ----------VPTDLAQKFADTHSM-PLFETS  165 (189)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHHHCCCSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-CEEECC
T ss_pred             EEEEECcCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECccccccce----------eCHHHHHHHHHHcCC-EEEEEe
Confidence            999999999999998 78888887764  6799999999999976654          778889999999998 899999


Q ss_pred             ccCc---cCC
Q 030961          162 SKTQ---QVC  168 (168)
Q Consensus       162 a~~~---~~i  168 (168)
                      |++|   +||
T Consensus       166 a~~~~~~~~i  175 (189)
T 1z06_A          166 AKNPNDNDHV  175 (189)
T ss_dssp             SSSGGGGSCH
T ss_pred             CCcCCcccCH
Confidence            9999   664

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=7.8e-33  Score=186.82  Aligned_cols=150  Identities=25%  Similarity=0.478  Sum_probs=131.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      ..+||+++|.+|+|||||+++|.++.+...+.++.+..+......++..+.+.+|||||++.+..++..+++.+|++++|
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v   81 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILV   81 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEEEEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEEE
Confidence            46899999999999999999999988877777887777766777888889999999999999998888999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      ||++++.+++.+ ..|+..+.+..   ++.|+++|+||+|+...+.          +..+++..++..+++ +++++||+
T Consensus        82 ~d~~~~~~~~~~-~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~  149 (172)
T 2erx_A           82 YSITSRQSLEEL-KPIYEQICEIKGDVESIPIMLVGNKCDESPSRE----------VQSSEAEALARTWKC-AFMETSAK  149 (172)
T ss_dssp             EETTCHHHHHTT-HHHHHHHHHHHC---CCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTC-EEEECBTT
T ss_pred             EECcCHHHHHHH-HHHHHHHHHHhCCCCCCCEEEEEEccccccccc----------cCHHHHHHHHHHhCC-eEEEecCC
Confidence            999999999887 67777776643   5799999999999987654          677888899999998 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.||
T Consensus       150 ~~~gi  154 (172)
T 2erx_A          150 LNHNV  154 (172)
T ss_dssp             TTBSH
T ss_pred             CCcCH
Confidence            99985

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=100.00  E-value=2.6e-32  Score=185.36  Aligned_cols=152  Identities=34%  Similarity=0.628  Sum_probs=128.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ..+.+||+++|++|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+||+||++.+..++..+++.+|++
T Consensus         4 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   83 (177)
T 1wms_A            4 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCC   83 (177)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEE
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEE
Confidence            46789999999999999999999999988877788887666 55777889899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      ++|||++++.++..+ ..|+..+....     .+.|+++|+||+|+.. +.          +..+++..++......+++
T Consensus        84 i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~-~~----------~~~~~~~~~~~~~~~~~~~  151 (177)
T 1wms_A           84 LLTFSVDDSQSFQNL-SNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQ----------VSTEEAQAWCRDNGDYPYF  151 (177)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CS----------SCHHHHHHHHHHTTCCCEE
T ss_pred             EEEEECcCHHHHHHH-HHHHHHHHHHccccccCCCcEEEEEECCcccc-cc----------cCHHHHHHHHHhcCCceEE
Confidence            999999999999988 78888876643     5789999999999973 22          6778889998844444899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       152 ~~Sa~~~~gi  161 (177)
T 1wms_A          152 ETSAKDATNV  161 (177)
T ss_dssp             ECCTTTCTTH
T ss_pred             EEeCCCCCCH
Confidence            9999999985

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=100.00  E-value=3.5e-32  Score=188.41  Aligned_cols=152  Identities=26%  Similarity=0.465  Sum_probs=129.3

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeE--------------------------
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTT--------------------------   55 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~--------------------------   55 (168)
                      |.+++.+||+++|.+|+|||||+++|++..+...+.++.+..+ ...+.+++..                          
T Consensus         2 m~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (208)
T 3clv_A            2 MEKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITN   81 (208)
T ss_dssp             CCCCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC----------------------------
T ss_pred             CCCCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCcccccccccccccccccccccccccccc
Confidence            4566789999999999999999999999988877778877665 3345555544                          


Q ss_pred             -----------EEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcc
Q 030961           56 -----------VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDL  124 (168)
Q Consensus        56 -----------~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~  124 (168)
                                 +.+.+|||||++.+..++..+++.+|++++|||++++.++..+ ..|+..+..... .|+++|+||+| 
T Consensus        82 ~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~-~~~~~~i~~~~~-~piilv~NK~D-  158 (208)
T 3clv_A           82 QHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRA-KTWVNQLKISSN-YIIILVANKID-  158 (208)
T ss_dssp             ---CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHH-HHHHHHHHHHSC-CEEEEEEECTT-
T ss_pred             ccccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHH-HHHHHHHHhhCC-CcEEEEEECCC-
Confidence                       8899999999999999999999999999999999999999997 788888877654 99999999999 


Q ss_pred             cccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961          125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      ...+.          +..+++++++..+++ +++++||++|.||
T Consensus       159 ~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i  191 (208)
T 3clv_A          159 KNKFQ----------VDILEVQKYAQDNNL-LFIQTSAKTGTNI  191 (208)
T ss_dssp             CC-CC----------SCHHHHHHHHHHTTC-EEEEECTTTCTTH
T ss_pred             ccccc----------CCHHHHHHHHHHcCC-cEEEEecCCCCCH
Confidence            33333          678899999999998 9999999999985

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=100.00  E-value=7.8e-32  Score=185.22  Aligned_cols=151  Identities=36%  Similarity=0.548  Sum_probs=123.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.+||+++|.+|+|||||+++|.+..+...+.++.+..+...+.+++..+.+.+||+||++.+..++..+++.+++++
T Consensus        18 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   97 (190)
T 3con_A           18 GMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   97 (190)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC-----------CTTCSEEE
T ss_pred             ccceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEEEEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEE
Confidence            34679999999999999999999999888777778877777777888899999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++.++..+ ..|+..+....  .+.|+++|+||+|+... .          +..+++++++..+++ +++++||
T Consensus        98 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~-~----------~~~~~~~~~~~~~~~-~~~~~Sa  164 (190)
T 3con_A           98 CVFAINNSKSFADI-NLYREQIKRVKDSDDVPMVLVGNKCDLPTR-T----------VDTKQAHELAKSYGI-PFIETSA  164 (190)
T ss_dssp             EEEETTCHHHHHHH-HHHHHHHHHHHTCSCCCEEEEEECTTCSCC-C----------SCHHHHHHHHHHHTC-CEEECCT
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHHHhCCCCCeEEEEEECCcCCcc-c----------CCHHHHHHHHHHcCC-eEEEEeC
Confidence            99999999999998 78888887764  47999999999999763 2          667889999999998 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+|+
T Consensus       165 ~~~~gi  170 (190)
T 3con_A          165 KTRQGV  170 (190)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999985

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=6.5e-32  Score=188.60  Aligned_cols=150  Identities=33%  Similarity=0.645  Sum_probs=131.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ...++|+++|.+|+|||||+++|++..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.+|+++
T Consensus        18 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   97 (213)
T 3cph_A           18 DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGII   97 (213)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEE
Confidence            4579999999999999999999999988777788887776 456778888899999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||++++.++..+ ..|+..+.... .+.|+++|+||+|+. .+.          +..+++..++..+++ +++++||+
T Consensus        98 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~  164 (213)
T 3cph_A           98 LVYDVTDERTFTNI-KQWFKTVNEHANDEAQLLLVGNKSDME-TRV----------VTADQGEALAKELGI-PFIESSAK  164 (213)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHTTTCSEEEEEEECTTCS-SCC----------SCHHHHHHHHHHHTC-CEEECBTT
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECCCCc-ccc----------cCHHHHHHHHHHcCC-EEEEEeCC
Confidence            99999999999988 78888887765 479999999999994 333          677888999999998 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       165 ~~~gi  169 (213)
T 3cph_A          165 NDDNV  169 (213)
T ss_dssp             TTBSS
T ss_pred             CCCCH
Confidence            99986

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=1e-32  Score=191.84  Aligned_cols=151  Identities=28%  Similarity=0.376  Sum_probs=97.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC--CCCCCCCCceeece-eEEEEECCe--EEEEEEEeCCCCccccccccccccCC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN--KFPTDYIPTVFDNF-SANVVAEGT--TVNLGLWDTAGQEDYNRLRPLSYRGA   80 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~--~~~~~~~~~~~~~~-~~~~~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~~   80 (168)
                      ...+||+++|.+|+|||||+++|.+.  .+...+.+|.+.++ ...+.+++.  .+.+.+|||||++.+..++..+++.+
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   97 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGV   97 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhC
Confidence            46789999999999999999999998  77777778877444 567777777  89999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHhHHHHHchhCC----CCcEEEEeeCCcccc-cchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           81 DVFVLAFSLVSRASYENVLKKWIPELQHYSP----GVPVVLVGTKLDLRE-DKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        81 ~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~----~~p~ivv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      |++++|||++++.++..+ ..|+..+.....    +.|+++|+||+|+.. .+.          +..+++..++..+++ 
T Consensus        98 d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~----------v~~~~~~~~~~~~~~-  165 (208)
T 2yc2_C           98 YYAILVFDVSSMESFESC-KAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQ----------VRLDMAQDWATTNTL-  165 (208)
T ss_dssp             CEEEEEEETTCHHHHHHH-HHHHHHHHHHCSCTTSCCEEEEEEECC-------C----------CCHHHHHHHHHHTTC-
T ss_pred             cEEEEEEECCCHHHHHHH-HHHHHHHHHhhcccccCCcEEEEEECcccchhhcc----------CCHHHHHHHHHHcCC-
Confidence            999999999999999998 789998887654    789999999999987 544          778899999999997 


Q ss_pred             EEEEecccC-ccCC
Q 030961          156 YYIECSSKT-QQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~-~~~i  168 (168)
                      +++++||++ |.||
T Consensus       166 ~~~~~Sa~~~~~gi  179 (208)
T 2yc2_C          166 DFFDVSANPPGKDA  179 (208)
T ss_dssp             EEEECCC-------
T ss_pred             EEEEeccCCCCcCH
Confidence            999999999 9886

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=100.00  E-value=1.3e-32  Score=192.92  Aligned_cols=152  Identities=39%  Similarity=0.613  Sum_probs=132.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCe----------EEEEEEEeCCCCccccccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGT----------TVNLGLWDTAGQEDYNRLR   73 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~----------~~~~~i~D~~g~~~~~~~~   73 (168)
                      .++.+||+++|.+|+|||||+++|.+..+...+.++.+.++ ...+.+++.          .+.+.+|||||++.+..++
T Consensus        22 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~  101 (217)
T 2f7s_A           22 YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLT  101 (217)
T ss_dssp             CSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHH
T ss_pred             cceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHH
Confidence            35789999999999999999999999988777777777666 345666665          7899999999999999999


Q ss_pred             cccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH
Q 030961           74 PLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ  151 (168)
Q Consensus        74 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (168)
                      ..+++.+|++++|||++++.++..+ ..|+..+....  .+.|+++|+||+|+...+.          +..++++.++..
T Consensus       102 ~~~~~~~d~iilV~D~~~~~s~~~~-~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~----------v~~~~~~~~~~~  170 (217)
T 2f7s_A          102 TAFFRDAMGFLLMFDLTSQQSFLNV-RNWMSQLQANAYCENPDIVLIGNKADLPDQRE----------VNERQARELADK  170 (217)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHHH-HHHHHTCCCCCTTTCCEEEEEEECTTCGGGCC----------SCHHHHHHHHHH
T ss_pred             HHHhcCCCEEEEEEECcCHHHHHHH-HHHHHHHHHhcCcCCCCEEEEEECCccccccc----------cCHHHHHHHHHH
Confidence            9999999999999999999999998 78988887765  5799999999999976654          778899999999


Q ss_pred             hCCcEEEEecccCccCC
Q 030961          152 IGASYYIECSSKTQQVC  168 (168)
Q Consensus       152 ~~~~~~~~~Sa~~~~~i  168 (168)
                      +++ +++++||++|+||
T Consensus       171 ~~~-~~~~~Sa~~g~gi  186 (217)
T 2f7s_A          171 YGI-PYFETSAATGQNV  186 (217)
T ss_dssp             TTC-CEEEEBTTTTBTH
T ss_pred             CCC-cEEEEECCCCCCH
Confidence            998 8999999999985

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=100.00  E-value=9e-32  Score=180.35  Aligned_cols=148  Identities=35%  Similarity=0.561  Sum_probs=132.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .+||+++|.+|+|||||+++|.+..+...+.++.+..+......++..+.+.+||+||++.+..++..+++.+|++++||
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~   82 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVF   82 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEEEEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEEE
Confidence            58999999999999999999999988777778887777777888899999999999999999999888999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |++++.++..+ ..|+..+....  .+.|+++++||+|+... .          ...+++.++++.+++ +++++||++|
T Consensus        83 d~~~~~~~~~~-~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~-~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~  149 (166)
T 2ce2_X           83 AINNTKSFEDI-HQYREQIKRVKDSDDVPMVLVGNKSDLAAR-T----------VESRQAQDLARSYGI-PYIETSAKTR  149 (166)
T ss_dssp             ETTCHHHHHHH-HHHHHHHHHHHTCSCCCEEEEEECTTCSCC-C----------SCHHHHHHHHHHHTC-CEEEECTTTC
T ss_pred             ECCCHHHHHHH-HHHHHHHHHhcCCCCCcEEEEEEchhhhhc-c----------cCHHHHHHHHHHcCC-eEEEecCCCC
Confidence            99999999998 78888887765  37999999999999763 2          567889999999998 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .|+
T Consensus       150 ~gi  152 (166)
T 2ce2_X          150 QGV  152 (166)
T ss_dssp             TTH
T ss_pred             CCH
Confidence            985

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=100.00  E-value=3.8e-34  Score=198.42  Aligned_cols=152  Identities=31%  Similarity=0.638  Sum_probs=124.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      .++.+||+++|.+|+|||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++++|++
T Consensus        30 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~  109 (199)
T 3l0i_B           30 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGI  109 (199)
T ss_dssp             CSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEE
Confidence            46789999999999999999999999888777677777666 45677889899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||++++.+++.+ ..|+..+.... .+.|+++|+||+|+...+.          +..+++..++..+++ +++++||
T Consensus       110 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~vSA  177 (199)
T 3l0i_B          110 IVVYDVTDQESFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTKKV----------VDYTTAKEFADSLGI-PFLETSA  177 (199)
T ss_dssp             EECC-CCCSHHHHHH-HHHHHHHHSCC-CCSEEEEC-CCSSCC--CC----------CCSCC-CHHHHTTTC-CBCCCCC
T ss_pred             EEEEECCCHHHHHHH-HHHHHHHHHhccCCCCEEEEEECccCCcccc----------CCHHHHHHHHHHcCC-eEEEEEC
Confidence            999999999999998 78999887765 5799999999999976654          555677888999998 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       178 ~~g~gv  183 (199)
T 3l0i_B          178 KNATNV  183 (199)
T ss_dssp             ---HHH
T ss_pred             CCCCCH
Confidence            999875

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.98  E-value=3.1e-31  Score=182.98  Aligned_cols=151  Identities=21%  Similarity=0.377  Sum_probs=120.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC--CCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcc-ccccccccccCCcE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN--KFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED-YNRLRPLSYRGADV   82 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~~~~~~~~~   82 (168)
                      .+.+||+++|++|||||||+++|.+.  .+...+.++..+.+.+.+.+++..+.+.+|||+|++. +..+...+++.+++
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~   83 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDA   83 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCccccccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCE
Confidence            45799999999999999999999963  3444333333333466778899999999999999876 55677778889999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      +++|||++++.+|..+ ..|...+.+..  .+.|+++|+||+|+...+.          +..+++..++..+++ +|+++
T Consensus        84 ~i~v~dv~~~~s~~~~-~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~----------v~~~~~~~~a~~~~~-~~~e~  151 (192)
T 2cjw_A           84 YLIVYSITDRASFEKA-SELRIQLRRARQTEDIPIILVGNKSDLVRXRE----------VSVSEGRAXAVVFDX-KFIET  151 (192)
T ss_dssp             EEEEEETTCHHHHHHH-HHHHHHHHHHTTTSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEEC
T ss_pred             EEEEEECCCHHHHHHH-HHHHHHHHHhhCCCCCeEEEEEechhhhcccc----------ccHHHHHHHHHHhCC-ceEEe
Confidence            9999999999999998 78887776643  5799999999999976544          677888888888887 89999


Q ss_pred             cccCccCC
Q 030961          161 SSKTQQVC  168 (168)
Q Consensus       161 Sa~~~~~i  168 (168)
                      ||++|.||
T Consensus       152 SA~~g~~v  159 (192)
T 2cjw_A          152 SAAVQHNV  159 (192)
T ss_dssp             BTTTTBSH
T ss_pred             ccccCCCH
Confidence            99999985

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.98  E-value=2.3e-32  Score=188.48  Aligned_cols=151  Identities=25%  Similarity=0.270  Sum_probs=123.7

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCC-----------CCCceeecee-EEE-EECCeEEEEEEEeCCCCcccc
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTD-----------YIPTVFDNFS-ANV-VAEGTTVNLGLWDTAGQEDYN   70 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~-----------~~~~~~~~~~-~~~-~~~~~~~~~~i~D~~g~~~~~   70 (168)
                      ...+.+||+++|.+|+|||||++.+.+ .+...           +.+|.+.++. ..+ .+++..+.+.+|||||++.+.
T Consensus        10 ~~~~~~ki~vvG~~~~GKssL~~~l~~-~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~   88 (198)
T 3t1o_A           10 NREINFKIVYYGPGLSGKTTNLKWIYS-KVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYN   88 (198)
T ss_dssp             TTEEEEEEEEECSTTSSHHHHHHHHHH-TSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCS
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHh-hccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHH
Confidence            356789999999999999999965554 44443           2345544442 233 567788999999999999999


Q ss_pred             ccccccccCCcEEEEEEeCC------ChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHH
Q 030961           71 RLRPLSYRGADVFVLAFSLV------SRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQ  144 (168)
Q Consensus        71 ~~~~~~~~~~~~~i~v~d~~------~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~  144 (168)
                      .++..+++++|++++|||++      +.+++..+ ..|+..+.....+.|+++|+||+|+...            +..++
T Consensus        89 ~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l-~~~l~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~  155 (198)
T 3t1o_A           89 ASRKLILRGVDGIVFVADSAPNRLRANAESMRNM-RENLAEYGLTLDDVPIVIQVNKRDLPDA------------LPVEM  155 (198)
T ss_dssp             HHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHH-HHHHHHTTCCTTSSCEEEEEECTTSTTC------------CCHHH
T ss_pred             HHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHH-HHHHHhhccccCCCCEEEEEEchhcccc------------cCHHH
Confidence            99999999999999999999      56778777 7788888655578999999999999765            67889


Q ss_pred             HHHHHHHhCCcEEEEecccCccCC
Q 030961          145 GEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       145 ~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      +++++..+++.+++++||++|+||
T Consensus       156 ~~~~~~~~~~~~~~~~Sa~~~~gv  179 (198)
T 3t1o_A          156 VRAVVDPEGKFPVLEAVATEGKGV  179 (198)
T ss_dssp             HHHHHCTTCCSCEEECBGGGTBTH
T ss_pred             HHHHHHhcCCceEEEEecCCCcCH
Confidence            999999998768999999999985

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.98  E-value=7.5e-32  Score=186.36  Aligned_cols=151  Identities=25%  Similarity=0.451  Sum_probs=131.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ....++|+++|.+|+|||||+++|.++.+...+.++.+..+......++..+.+.+|||||++.+..++..+++.+|+++
T Consensus         5 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   84 (199)
T 2gf0_A            5 QSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFI   84 (199)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEEEEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEE
T ss_pred             CCCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccceeEEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEE
Confidence            35679999999999999999999999988877788887777767778888999999999999999988889999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      +|||++++.++..+ ..|+..+....   ++.|+++|+||+|+... .          +..+++..++..+++ +++++|
T Consensus        85 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~-~----------~~~~~~~~~~~~~~~-~~~~~S  151 (199)
T 2gf0_A           85 LVFSVTSKQSLEEL-GPIYKLIVQIKGSVEDIPVMLVGNKCDETQR-E----------VDTREAQAVAQEWKC-AFMETS  151 (199)
T ss_dssp             EEEETTCHHHHHTT-HHHHHHHHHHHSCGGGSCEEEEEECTTCSSC-S----------SCHHHHHHHHHHHTC-EEEECB
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHHHhcCCCCCCEEEEEECccCCcc-c----------cCHHHHHHHHHHhCC-eEEEEe
Confidence            99999999999987 66776665543   47899999999999753 2          567888899999998 899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|.||
T Consensus       152 a~~~~gi  158 (199)
T 2gf0_A          152 AKMNYNV  158 (199)
T ss_dssp             TTTTBSH
T ss_pred             cCCCCCH
Confidence            9999985

>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=99.97  E-value=4e-32  Score=191.04  Aligned_cols=150  Identities=28%  Similarity=0.483  Sum_probs=129.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ..+.+||+++|.+|||||||+++|+.+.+...+.++.+.++ .....+++..+.+.+|||||++.+..++..++++++++
T Consensus        12 ~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   91 (221)
T 3gj0_A           12 PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCA   91 (221)
T ss_dssp             CCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCCEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCCEE
Confidence            45789999999999999999999887777666677776555 45677888999999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      ++|||++++.++..+ ..|+..+.+..++.|+++|+||+|+.....            ..++..++...++ +|+++||+
T Consensus        92 i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~------------~~~~~~~~~~~~~-~~~~~Sa~  157 (221)
T 3gj0_A           92 IIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDRKV------------KAKSIVFHRKKNL-QYYDISAK  157 (221)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHHHSTTCCEEEEEECTTSSSCSS------------CGGGCCHHHHHTC-EEEECBGG
T ss_pred             EEEEECCCHHHHHHH-HHHHHHHHHhCCCCCEEEEEECCccccccc------------cHHHHHHHHHcCC-EEEEEeCC
Confidence            999999999999998 789999988878899999999999976532            2245667778887 99999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|.||
T Consensus       158 ~~~gi  162 (221)
T 3gj0_A          158 SNYNF  162 (221)
T ss_dssp             GTBTT
T ss_pred             CCCCH
Confidence            99986

>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=1.1e-31  Score=188.31  Aligned_cols=152  Identities=28%  Similarity=0.459  Sum_probs=126.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEE-CCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVA-EGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      ....+||+++|.+|+|||||+++|++..+...+.++.+..+.. .... .+..+.+.+|||||++.+..++..++..+|+
T Consensus         8 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (218)
T 4djt_A            8 RELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASG   87 (218)
T ss_dssp             --CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSE
T ss_pred             ccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCE
Confidence            4568999999999999999999999888776666666655533 3333 3455889999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      +++|||++++.++..+ ..|+..+.... .+.|+++|+||+|+...+.          +..+.+..++...++ +++++|
T Consensus        88 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~S  155 (218)
T 4djt_A           88 AILFFDVTSRITCQNL-ARWVKEFQAVVGNEAPIVVCANKIDIKNRQK----------ISKKLVMEVLKGKNY-EYFEIS  155 (218)
T ss_dssp             EEEEEETTCHHHHHTH-HHHHHHHHHHHCSSSCEEEEEECTTCC--------------CCHHHHHHHTTTCCC-EEEEEB
T ss_pred             EEEEEeCCCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECCCCccccc----------cCHHHHHHHHHHcCC-cEEEEe
Confidence            9999999999999998 78988888766 4689999999999987655          778888899998888 899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|.||
T Consensus       156 a~~g~gv  162 (218)
T 4djt_A          156 AKTAHNF  162 (218)
T ss_dssp             TTTTBTT
T ss_pred             cCCCCCH
Confidence            9999986

>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=99.97  E-value=1.7e-30  Score=192.48  Aligned_cols=162  Identities=60%  Similarity=1.053  Sum_probs=139.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      ..++|+++|.+|+|||||+++|.++.+...+.++....+...+.+++..+.+.+|||||++.+..++..+++.+|++++|
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v  233 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLIC  233 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCCCCcccCCcccceeEEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEE
Confidence            46899999999999999999999998888888888888877888899999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||++++.++..+...|+..+....++.|+++|+||+|+........  .....+.+..+++..++..+++.+|+++||++
T Consensus       234 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  313 (332)
T 2wkq_A          234 FSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALT  313 (332)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTT
T ss_pred             EeCCCHHHHHHHHHHHHHHHHhhCCCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEecCCC
Confidence            9999999999985589998888777899999999999976422111  11122347888999999999976899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+||
T Consensus       314 ~~gi  317 (332)
T 2wkq_A          314 QRGL  317 (332)
T ss_dssp             CTTH
T ss_pred             CcCH
Confidence            9985

>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=99.95  E-value=1.9e-33  Score=195.56  Aligned_cols=163  Identities=62%  Similarity=1.062  Sum_probs=136.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|.+|+|||||+++|.++.+...+.++....+...+.+++..+.+.+|||||++.+..++..+++++|++++
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iil  107 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLI  107 (204)
Confidence            56899999999999999999999998887777788877776677778888999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc--CCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||++++.++..+...|+..+....++.|+++|+||+|+.........  ......+..+++..+++..+..+++++||+
T Consensus       108 v~D~~~~~s~~~~~~~~~~~l~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vSA~  187 (204)
T 3th5_A          108 CFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL  187 (204)
Confidence            999999999998844888888876668999999999999765321110  011123667778888888887689999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       188 ~g~gi  192 (204)
T 3th5_A          188 TQRGL  192 (204)
Confidence            99986

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.97  E-value=2.7e-30  Score=179.09  Aligned_cols=146  Identities=18%  Similarity=0.250  Sum_probs=111.2

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|++|||||||+++|.++.+. .+.+|.+.. ...+.+++  +.+.+|||||++.++.++..+++++|++++
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~-~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~   98 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT-SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVF   98 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS-CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCce-eEEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEEE
Confidence            45789999999999999999999988764 455666544 34555666  788889999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh-----------
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI-----------  152 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------  152 (168)
                      |||+++++++..+ ..|+..+.+..  .+.|+++|+||+|+...            +..+++.+++...           
T Consensus        99 v~D~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~  165 (198)
T 1f6b_A           99 LVDCADHERLLES-KEELDSLMTDETIANVPILILGNKIDRPEA------------ISEERLREMFGLYGQTTGKGSVSL  165 (198)
T ss_dssp             EEETTCGGGHHHH-HHHHHHHHTCGGGTTSCEEEEEECTTSTTC------------CCHHHHHHHHTCTTTCCCSSCCCT
T ss_pred             EEECCCHHHHHHH-HHHHHHHHhCcccCCCcEEEEEECCCcccc------------CCHHHHHHHhCccccccccccccc
Confidence            9999999999998 67777665542  57999999999999753            5567777766532           


Q ss_pred             -----CCcEEEEecccCccCC
Q 030961          153 -----GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 -----~~~~~~~~Sa~~~~~i  168 (168)
                           ...+++++||++|+||
T Consensus       166 ~~~~~~~~~~~~~SA~~g~gv  186 (198)
T 1f6b_A          166 KELNARPLEVFMCSVLKRQGY  186 (198)
T ss_dssp             TTCCSCCEEEEECBTTTTBSH
T ss_pred             ccccCceEEEEEEECCCCCCH
Confidence                 2248999999999985

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.97  E-value=1.1e-30  Score=180.52  Aligned_cols=152  Identities=16%  Similarity=0.149  Sum_probs=113.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ....+||+++|.+|||||||+++|.+..+.. .+.+|.+....   .++...+.+.+|||||++.+..++..+++++|++
T Consensus        14 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~---~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   90 (199)
T 4bas_A           14 SKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNVE---TFEKGRVAFTVFDMGGAKKFRGLWETYYDNIDAV   90 (199)
T ss_dssp             --CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEEE---EEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEE
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeEE---EEEeCCEEEEEEECCCCHhHHHHHHHHHhcCCEE
Confidence            4578899999999999999999999998877 67777764332   2334557888899999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC---------CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHH-HHHHHhC
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS---------PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGE-ELRKQIG  153 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~---------~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~  153 (168)
                      ++|||+++++++..+ ..|+..+.+..         ++.|+++|+||+|+......       ..+...... .++...+
T Consensus        91 i~v~D~~~~~s~~~~-~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~-------~~~~~~~~~~~~~~~~~  162 (199)
T 4bas_A           91 IFVVDSSDHLRLCVV-KSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTA-------AELVEILDLTTLMGDHP  162 (199)
T ss_dssp             EEEEETTCGGGHHHH-HHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCH-------HHHHHHHTHHHHHTTSC
T ss_pred             EEEEECCcHHHHHHH-HHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCH-------HHHHHHhcchhhccCCe
Confidence            999999999999998 66666665431         27999999999999766210       001111111 1123455


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      + +++++||++|+||
T Consensus       163 ~-~~~~~Sa~~g~gv  176 (199)
T 4bas_A          163 F-VIFASNGLKGTGV  176 (199)
T ss_dssp             E-EEEECBTTTTBTH
T ss_pred             e-EEEEeeCCCccCH
Confidence            5 8999999999985

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.97  E-value=8.8e-30  Score=175.37  Aligned_cols=146  Identities=17%  Similarity=0.251  Sum_probs=115.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|++|||||||+++|.++.+. .+.+|.+.. ...+.+++  +.+.+|||||++.++.++..+++++|++++
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~-~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   96 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPT-SEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVF   96 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSCE-EEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCCC-eEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEE
Confidence            45789999999999999999999998874 445665543 34555666  778889999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh-----------
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI-----------  152 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------  152 (168)
                      |||++++.++..+ ..|+..+.+..  .+.|+++|+||+|+...            +..+++.+.....           
T Consensus        97 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~  163 (190)
T 1m2o_B           97 LVDAADPERFDEA-RVELDALFNIAELKDVPFVILGNKIDAPNA------------VSEAELRSALGLLNTTGSQRIEGQ  163 (190)
T ss_dssp             EEETTCGGGHHHH-HHHHHHHHTCGGGTTCCEEEEEECTTSTTC------------CCHHHHHHHTTCSSCCC---CCSS
T ss_pred             EEECCChHHHHHH-HHHHHHHHcchhhcCCCEEEEEECCCCcCC------------CCHHHHHHHhCCcccccccccccc
Confidence            9999999999998 67777665432  67999999999999763            4555655554321           


Q ss_pred             CCcEEEEecccCccCC
Q 030961          153 GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ~~~~~~~~Sa~~~~~i  168 (168)
                      ...+++++||++|+||
T Consensus       164 ~~~~~~~~Sa~~g~gi  179 (190)
T 1m2o_B          164 RPVEVFMCSVVMRNGY  179 (190)
T ss_dssp             CCEEEEECBTTTTBSH
T ss_pred             ceEEEEEeECCcCCCH
Confidence            2237999999999985

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.97  E-value=1.4e-29  Score=174.03  Aligned_cols=146  Identities=16%  Similarity=0.246  Sum_probs=114.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCC-CCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNK-FPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      .+.+||+++|.+|+|||||+++|.+.. +...+.+|.+.. ...+.+++  +.+.+|||||++.+..++..+++++|+++
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~~~-~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   95 (190)
T 2h57_A           19 SKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIGFS-IEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYKEGQAII   95 (190)
T ss_dssp             --CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSSEE-EEEEECSS--CEEEEEEECCSTTTGGGGGGGGGGCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCcccee-EEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEE
Confidence            468999999999999999999999887 555566666532 33444554  67888999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH--H---hCCc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK--Q---IGAS  155 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~--~---~~~~  155 (168)
                      +|||++++.++..+ ..|+..+.+..    .+.|+++|+||+|+...            ...++..+...  .   .++ 
T Consensus        96 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~-  161 (190)
T 2h57_A           96 FVIDSSDRLRMVVA-KEELDTLLNHPDIKHRRIPILFFANKMDLRDA------------VTSVKVSQLLCLENIKDKPW-  161 (190)
T ss_dssp             EEEETTCHHHHHHH-HHHHHHHHHSTTTTTSCCCEEEEEECTTSTTC------------CCHHHHHHHHTGGGCCSSCE-
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHhChhhccCCCeEEEEEeCcCcccC------------CCHHHHHHHhChhhccCCce-
Confidence            99999999999998 66766665543    47899999999999754            34455555543  1   244 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|+||
T Consensus       162 ~~~~~Sa~~~~gi  174 (190)
T 2h57_A          162 HICASDAIKGEGL  174 (190)
T ss_dssp             EEEECBTTTTBTH
T ss_pred             EEEEccCCCCcCH
Confidence            8999999999985

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.97  E-value=8.9e-30  Score=173.89  Aligned_cols=146  Identities=19%  Similarity=0.261  Sum_probs=112.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.+||+++|.+|+|||||+++|.+..+ ..+.++.+... ..+.+++  +.+.+|||||++.+..++..+++++|+++
T Consensus        18 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~-~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   93 (181)
T 2h17_A           18 GSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV-EEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVI   93 (181)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC-EEEEETT--EEEEEEEESSSGGGTCGGGGGGTTCCEEE
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee-EEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            34689999999999999999999999887 44455555433 3444554  77888999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchh--CCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH-----HHhCCcEE
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR-----KQIGASYY  157 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~  157 (168)
                      +|||+++++++..+ ..|+..+.+.  ..+.|+++|+||+|+...            ...++..+..     ...++ ++
T Consensus        94 ~v~D~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~  159 (181)
T 2h17_A           94 VVVDSTDRERISVT-REELYKMLAHEDLRKAGLLIFANKQDVKEC------------MTVAEISQFLKLTSIKDHQW-HI  159 (181)
T ss_dssp             EEEETTCTTTHHHH-HHHHHHHHTCGGGTTCEEEEEEECTTSTTC------------CCHHHHHHHTTGGGCCSSCE-EE
T ss_pred             EEEECCCHHHHHHH-HHHHHHHHhChhhCCCeEEEEEECCCcccC------------CCHHHHHHHhCcccccCCce-EE
Confidence            99999999999998 5666665543  268999999999999754            2233333322     12344 89


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|+||
T Consensus       160 ~~~Sa~~g~gi  170 (181)
T 2h17_A          160 QACCALTGEGL  170 (181)
T ss_dssp             EECBTTTTBTH
T ss_pred             EEccCCCCcCH
Confidence            99999999985

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.97  E-value=1.2e-30  Score=175.14  Aligned_cols=142  Identities=17%  Similarity=0.235  Sum_probs=108.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|++|+|||||+++|.++.+.. +.+|.+.. ...+..  ..+.+.+|||||++.+..++..+++++|++++|||
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~~~-~~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   76 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFN-VETVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVD   76 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSSCC-EEEEEC--SSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCcee-EEEEEE--CCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEE
Confidence            589999999999999999999887754 45665532 223333  44778889999999999999899999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH-----HHHHhCCcEEEEec
Q 030961           89 LVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE-----LRKQIGASYYIECS  161 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~S  161 (168)
                      +++++++..+ ..|+..+....  ++.|+++|+||+|+....            ..++...     .+...++ +++++|
T Consensus        77 ~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~-~~~~~S  142 (164)
T 1r8s_A           77 SNDRERVNEA-REELMRMLAEDELRDAVLLVFANKQDLPNAM------------NAAEITDKLGLHSLRHRNW-YIQATC  142 (164)
T ss_dssp             TTCGGGHHHH-HHHHHHHHTCGGGTTCEEEEEEECTTSTTCC------------CHHHHHHHTTGGGCSSCCE-EEEECB
T ss_pred             CCCHHHHHHH-HHHHHHHHhchhhcCCeEEEEEECcCCcCCC------------CHHHHHHHhCcccccCccE-EEEEcc
Confidence            9999999988 66776665432  589999999999996542            1122111     1112333 799999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|.||
T Consensus       143 a~~~~gi  149 (164)
T 1r8s_A          143 ATSGDGL  149 (164)
T ss_dssp             TTTTBTH
T ss_pred             cCCCcCH
Confidence            9999985

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.97  E-value=4.7e-30  Score=177.46  Aligned_cols=156  Identities=13%  Similarity=0.187  Sum_probs=113.4

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece---eEEEEEC-CeEEEEEEEeCCCCccccccc---ccc
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF---SANVVAE-GTTVNLGLWDTAGQEDYNRLR---PLS   76 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~---~~~~~~~-~~~~~~~i~D~~g~~~~~~~~---~~~   76 (168)
                      .+++.+||+++|.+|||||||++++.+. +...  ++.+..+   .....+. +..+.+.+|||+|++.|..+.   ..+
T Consensus        16 ~~~~~~ki~~vG~~~vGKTsLi~~l~~~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~   92 (196)
T 3llu_A           16 FQGSKPRILLMGLRRSGKSSIQKVVFHK-MSPN--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMI   92 (196)
T ss_dssp             ----CCEEEEEESTTSSHHHHHHHHHSC-CCGG--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHH
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHHhc-CCCc--ceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcccc
Confidence            3567899999999999999999988774 3222  3333333   1222333 567889999999999987766   789


Q ss_pred             ccCCcEEEEEEeCCCh--hHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH----
Q 030961           77 YRGADVFVLAFSLVSR--ASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK----  150 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~--~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~----  150 (168)
                      +++++++++|||++++  +++..+ ..|+..+....++.|+++|+||+|+........   ..+.+..+++..++.    
T Consensus        93 ~~~~~~~i~v~d~~~~~~~~~~~~-~~~l~~~~~~~~~~piilv~nK~Dl~~~~~~~~---~~~~v~~~~~~~~~~~~~~  168 (196)
T 3llu_A           93 FRGTGALIYVIDAQDDYMEALTRL-HITVSKAYKVNPDMNFEVFIHKVDGLSDDHKIE---TQRDIHQRANDDLADAGLE  168 (196)
T ss_dssp             HHTCSEEEEEEETTSCCHHHHHHH-HHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHH---HHHHHHHHHHHHHHHTTCT
T ss_pred             cccCCEEEEEEECCCchHHHHHHH-HHHHHHHHhcCCCCcEEEEEeccccCchhhhhH---HHhHHHHHHHHHHHHhhhh
Confidence            9999999999999997  677776 677777755567899999999999865321000   011266677888888    


Q ss_pred             HhCCcEEEEecccCccCC
Q 030961          151 QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       151 ~~~~~~~~~~Sa~~~~~i  168 (168)
                      ..++ +|+++||++ +||
T Consensus       169 ~~~~-~~~e~Sa~~-~~v  184 (196)
T 3llu_A          169 KLHL-SFYLTSIYD-HSI  184 (196)
T ss_dssp             TSCE-EEEEECTTS-THH
T ss_pred             cCCc-ceEEEEech-hhH
Confidence            6676 899999999 875

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.97  E-value=7.8e-30  Score=175.23  Aligned_cols=146  Identities=24%  Similarity=0.297  Sum_probs=114.2

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|.+|+|||||+++|.+..+...+.+|.+..+..   +....+.+.+||+||++.+..++..+++++|++++
T Consensus        20 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~---~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~   96 (188)
T 1zd9_A           20 KEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK---ITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVY   96 (188)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE---EEETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE---EEeCCEEEEEEECCCCHhHHHHHHHHHccCCEEEE
Confidence            468999999999999999999999998877777877766542   23345778889999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchh-C-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH-----HHhCCcEEE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHY-S-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR-----KQIGASYYI  158 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~-~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~  158 (168)
                      |||++++.++..+ ..|+..+... . .+.|+++|+||+|+....            ..++.....     ...++ +++
T Consensus        97 v~D~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~-~~~  162 (188)
T 1zd9_A           97 MVDAADQEKIEAS-KNELHNLLDKPQLQGIPVLVLGNKRDLPGAL------------DEKELIEKMNLSAIQDREI-CCY  162 (188)
T ss_dssp             EEETTCGGGHHHH-HHHHHHHHTCGGGTTCCEEEEEECTTSTTCC------------CHHHHHHHTTGGGCCSSCE-EEE
T ss_pred             EEECCCHHHHHHH-HHHHHHHHhCcccCCCCEEEEEECCCCccCC------------CHHHHHHHhChhhhccCCe-eEE
Confidence            9999999999998 5666665443 2 689999999999997542            122211111     12233 789


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|.||
T Consensus       163 ~~SA~~g~gv  172 (188)
T 1zd9_A          163 SISCKEKDNI  172 (188)
T ss_dssp             ECCTTTCTTH
T ss_pred             EEECCCCCCH
Confidence            9999999985

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.97  E-value=1e-28  Score=171.09  Aligned_cols=151  Identities=32%  Similarity=0.567  Sum_probs=129.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +..++++++|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||++|++.++.++..+++.+++++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i   82 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   82 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEE
Confidence            4579999999999999999999999988777778877666 456788999999999999999999988888999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|+|+.+..++..+ ..|+..+.... .+.|+++++||+|+...+.          +..++++.++...++ .++++||+
T Consensus        83 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~----------~~~~~a~~l~~~~~~-~~~d~Sal  150 (199)
T 2f9l_A           83 LVYDIAKHLTYENV-ERWLKELRDHADSNIVIMLVGNKSDLRHLRA----------VPTDEARAFAEKNNL-SFIETSAL  150 (199)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECCTT
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHHhcCCCCeEEEEEECcccccccC----------cCHHHHHHHHHHcCC-eEEEEeCC
Confidence            99999999999887 67887776654 5789999999999976554          667889999999998 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      ++.|+
T Consensus       151 ~~~~i  155 (199)
T 2f9l_A          151 DSTNV  155 (199)
T ss_dssp             TCTTH
T ss_pred             CCCCH
Confidence            99874

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.97  E-value=1.3e-29  Score=173.90  Aligned_cols=145  Identities=19%  Similarity=0.254  Sum_probs=110.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.++|+++|.+|+|||||+++|.++.+. .+.+|.+.. ...+.+++  +.+.+|||||++.+..++..+++++|++++
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~-~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~   89 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN-VEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIV   89 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS-CEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc-eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            56899999999999999999999988775 555665533 33444554  778889999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH-----HhCCcEEE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK-----QIGASYYI  158 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~  158 (168)
                      |+|+++++++..+ ..|+..+.+..  .+.|+++|+||+|+...            ...++..+...     ..++ +++
T Consensus        90 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~~  155 (187)
T 1zj6_A           90 VVDSTDRERISVT-REELYKMLAHEDLRKAGLLIFANKQDVKEC------------MTVAEISQFLKLTSIKDHQW-HIQ  155 (187)
T ss_dssp             EEETTCTTTHHHH-HHHHHHHHTSGGGTTCEEEEEEECTTSTTC------------CCHHHHHHHHTGGGCCSSCE-EEE
T ss_pred             EEeCCCHHHHHHH-HHHHHHHHhchhhCCCeEEEEEECCCCcCC------------CCHHHHHHHhChhhhcCCCc-EEE
Confidence            9999999999998 67777776542  68999999999999754            23344333332     2344 899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       156 ~~Sa~~g~gi  165 (187)
T 1zj6_A          156 ACCALTGEGL  165 (187)
T ss_dssp             ECBTTTTBTH
T ss_pred             EccCCCCcCH
Confidence            9999999985

>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=99.96  E-value=4.5e-29  Score=170.87  Aligned_cols=145  Identities=17%  Similarity=0.228  Sum_probs=112.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|++|+|||||+++|.++. ...+.+|.+.. ...+.++  .+.+.+|||||++.+..++..+++++|++++
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~-~~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   91 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFN-IKTLEHR--GFKLNIWDVGGQKSLRSYWRNYFESTDGLIW   91 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEE-EEEEEET--TEEEEEEEECCSHHHHTTGGGGCTTCSEEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccc-eEEEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            578999999999999999999999887 56666766533 2334444  4678889999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchh--CCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH-----HhCCcEEE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK-----QIGASYYI  158 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~  158 (168)
                      |+|++++.++..+ ..|+..+.+.  ..+.|+++|+||+|+....            ..++..+...     ..++ +++
T Consensus        92 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~-~~~  157 (186)
T 1ksh_A           92 VVDSADRQRMQDC-QRELQSLLVEERLAGATLLIFANKQDLPGAL------------SCNAIQEALELDSIRSHHW-RIQ  157 (186)
T ss_dssp             EEETTCGGGHHHH-HHHHHHHHTCGGGTTCEEEEEEECTTSTTCC------------CHHHHHHHTTGGGCCSSCE-EEE
T ss_pred             EEECcCHHHHHHH-HHHHHHHHhChhcCCCcEEEEEeCccCCCCC------------CHHHHHHHhChhhccCCce-EEE
Confidence            9999999999988 6666666543  2679999999999997652            2233222221     2344 899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       158 ~~Sa~~~~gi  167 (186)
T 1ksh_A          158 GCSAVTGEDL  167 (186)
T ss_dssp             ECCTTTCTTH
T ss_pred             EeeCCCCCCH
Confidence            9999999985

>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=2e-29  Score=170.07  Aligned_cols=150  Identities=16%  Similarity=0.179  Sum_probs=111.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|++|+|||||+++|.++.+. .+.++.+.. ...+.++  ...+.+|||||++.+..++..+++++|++++
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~-~~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   80 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIGFN-VETVTYK--NLKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   80 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSSEE-EEEEEET--TEEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCccc-eEEEEEC--CEEEEEEECCCChhhhHHHHHHhccCCEEEE
Confidence            45799999999999999999999988774 345555433 2334444  4678889999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||++++.++... ..|+..+.+..  .+.|+++|+||+|+......       ..+........+...++ +++++||+
T Consensus        81 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~-------~~~~~~~~~~~~~~~~~-~~~~~Sa~  151 (171)
T 1upt_A           81 VVDSCDRDRIGIS-KSELVAMLEEEELRKAILVVFANKQDMEQAMTS-------SEMANSLGLPALKDRKW-QIFKTSAT  151 (171)
T ss_dssp             EEETTCCTTHHHH-HHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH-------HHHHHHHTGGGCTTSCE-EEEECCTT
T ss_pred             EEECCCHHHHHHH-HHHHHHHHhchhhCCCEEEEEEECCCCcCCCCH-------HHHHHHhCchhccCCce-EEEECcCC
Confidence            9999999999988 55665554432  58999999999999765210       00111111122233455 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       152 ~~~gi  156 (171)
T 1upt_A          152 KGTGL  156 (171)
T ss_dssp             TCTTH
T ss_pred             CCcCH
Confidence            99985

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.96  E-value=1e-30  Score=179.10  Aligned_cols=149  Identities=22%  Similarity=0.341  Sum_probs=109.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC--CCCCCCCCceeecee-EEEEE---CCeEEEEEEEeCCCCccccccccccccCCc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN--KFPTDYIPTVFDNFS-ANVVA---EGTTVNLGLWDTAGQEDYNRLRPLSYRGAD   81 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~--~~~~~~~~~~~~~~~-~~~~~---~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~   81 (168)
                      .+||+++|++|||||||+++|.+.  .+...+.+|.+.++. ..+.+   ++..+.+.+|||+|++.+..+++.++++++
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            579999999999999999999985  455566777766553 23322   345778999999999999999999999999


Q ss_pred             EEEEEEeCCCh-hHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCccc---HHHHHHHHHHhCCc--
Q 030961           82 VFVLAFSLVSR-ASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVT---TAQGEELRKQIGAS--  155 (168)
Q Consensus        82 ~~i~v~d~~~~-~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~--  155 (168)
                      ++++|||++++ .++..+ ..|+..+....++.|+++|+||+|+...+.          +.   .+.+..++..+++.  
T Consensus        82 ~~i~v~d~~~~~~s~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~~  150 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAM-KPWLFNIKARASSSPVILVGTHLDVSDEKQ----------RKACMSKITKELLNKRGFPAI  150 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTH-HHHHHHHHHHCTTCEEEEEEECGGGCCHHH----------HHHHHHHHHHHTTTCTTSCEE
T ss_pred             EEEEEEeCCcchhHHHHH-HHHHHHHHhhCCCCcEEEEEECCCcccchh----------hHHHHHHHHHHHHHhcCCcch
Confidence            99999999997 578887 789988877666899999999999976543          22   34456677667773  


Q ss_pred             -EEEEecccCcc-C
Q 030961          156 -YYIECSSKTQQ-V  167 (168)
Q Consensus       156 -~~~~~Sa~~~~-~  167 (168)
                       +|+++||++|. |
T Consensus       151 ~~~~~~Sa~~~~~~  164 (184)
T 2zej_A          151 RDYHFVNATEESDA  164 (184)
T ss_dssp             EEEEECCTTSCCHH
T ss_pred             hheEEEecccCchh
Confidence             39999999985 5

>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=99.96  E-value=4.9e-28  Score=166.80  Aligned_cols=151  Identities=31%  Similarity=0.560  Sum_probs=132.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +..++++++|++|||||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+||++|.+.+..++..+++.+++++
T Consensus        27 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i  106 (191)
T 1oix_A           27 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGAL  106 (191)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEEE
Confidence            4678999999999999999999999988878888888776 557788999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|+|..+..+++.+ ..|+..+.... .+.|+++++||+|+...+.          ...++++.++...++ .++++||+
T Consensus       107 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~----------~~~~~a~~l~~~~~~-~~ld~Sal  174 (191)
T 1oix_A          107 LVYDIAKHLTYENV-ERWLKELRDHADSNIVIMLVGNKSDLRHLRA----------VPTDEARAFAEKNGL-SFIETSAL  174 (191)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCTT
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEEEEeCC
Confidence            99999999999887 67887776544 5789999999999976544          667889999999998 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      ++.|+
T Consensus       175 d~~~v  179 (191)
T 1oix_A          175 DSTNV  179 (191)
T ss_dssp             TCTTH
T ss_pred             CCCCH
Confidence            99874

>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=99.96  E-value=2.6e-30  Score=178.32  Aligned_cols=151  Identities=16%  Similarity=0.213  Sum_probs=104.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.+||+++|++|+|||||+++|.++.+.. +.+|.+.. ...+..  ..+.+.+|||||++.+..++..+++++|+++
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~-~~~t~~~~-~~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii  101 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFN-VETVEY--KNICFTVWDVGGQDKIRPLWRHYFQNTQGLI  101 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCSSCCEE-EEEETTEE-EEEEEE--TTEEEEEEECC-----CTTHHHHHHTCCEEE
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHhCCccc-cCCcCcee-EEEEEE--CCEEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            3568999999999999999999999887642 34444321 223333  3477888999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||+++++++..+ ..|+..+....  .+.|+++|+||+|+.....       ...+..+.+...+...++ +++++||
T Consensus       102 lv~D~~~~~s~~~~-~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~-------~~~i~~~~~~~~~~~~~~-~~~~~SA  172 (192)
T 2b6h_A          102 FVVDSNDRERVQES-ADELQKMLQEDELRDAVLLVFANKQDMPNAMP-------VSELTDKLGLQHLRSRTW-YVQATCA  172 (192)
T ss_dssp             EEEETTCGGGHHHH-HHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC-------HHHHHHHTTGGGCSSCCE-EEEECBT
T ss_pred             EEEECCCHHHHHHH-HHHHHHHhcccccCCCeEEEEEECCCCCCCCC-------HHHHHHHhCcccccCCce-EEEECcC
Confidence            99999999999998 66776665432  5799999999999965421       000111111111112333 7999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       173 ~~g~gi  178 (192)
T 2b6h_A          173 TQGTGL  178 (192)
T ss_dssp             TTTBTH
T ss_pred             CCcCCH
Confidence            999985

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.96  E-value=1.3e-29  Score=174.08  Aligned_cols=150  Identities=19%  Similarity=0.202  Sum_probs=110.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      ++.+||+++|++|+|||||+++|.++.+.. +.+|.+.. ...+..+  .+.+.+|||||++.+..++..+++++|++++
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~~~-~~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   95 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVGVN-LETLQYK--NISFEVWDLGGQTGVRPYWRCYFSDTDAVIY   95 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTTCC-EEEEEET--TEEEEEEEECCSSSSCCCCSSSSTTCCEEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCceE-EEEEEEC--CEEEEEEECCCCHhHHHHHHHHhhcCCEEEE
Confidence            568999999999999999999998877643 44555422 2334444  4678889999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |+|+++++++..+ ..|+..+....  .+.|+++|+||+|+......       ..+....+...+...++ +++++||+
T Consensus        96 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~-------~~~~~~~~~~~~~~~~~-~~~~~Sa~  166 (189)
T 2x77_A           96 VVDSTDRDRMGVA-KHELYALLDEDELRKSLLLIFANKQDLPDAASE-------AEIAEQLGVSSIMNRTW-TIVKSSSK  166 (189)
T ss_dssp             EEETTCCTTHHHH-HHHHHHHHTCSTTTTCEEEEEEECTTSTTCCCH-------HHHHHHTTGGGCCSSCE-EEEECCTT
T ss_pred             EEeCCCHHHHHHH-HHHHHHHHhhhhcCCCeEEEEEECCCCcCCCCH-------HHHHHHhChhhccCCce-EEEEccCC
Confidence            9999999999988 56666554432  57999999999999765210       00111111112223344 79999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       167 ~~~gi  171 (189)
T 2x77_A          167 TGDGL  171 (189)
T ss_dssp             TCTTH
T ss_pred             CccCH
Confidence            99985

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.96  E-value=2.8e-29  Score=171.55  Aligned_cols=146  Identities=21%  Similarity=0.277  Sum_probs=110.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +...+||+++|++|||||||+++|.+..+ ..+.+|.+.. ...+.++  .+.+.+|||||++.++.++..+++++|+++
T Consensus        13 ~~~~~ki~ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g~~-~~~~~~~--~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   88 (181)
T 1fzq_A           13 PDQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGFN-IKSVQSQ--GFKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (181)
T ss_dssp             CSSCEEEEEEESTTSSHHHHHHHHCCSCC-EEEEEETTEE-EEEEEET--TEEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhcCCC-CcccCcCCeE-EEEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            35789999999999999999999998754 2334444422 2334444  467888999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchh-C-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH-----HHhCCcEE
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHY-S-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR-----KQIGASYY  157 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~-~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~  157 (168)
                      +|||+++++++..+ ..|+..+.+. . .+.|+++|+||+|+.....            .++..+..     ...++ ++
T Consensus        89 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~------------~~~~~~~~~~~~~~~~~~-~~  154 (181)
T 1fzq_A           89 YVIDSADRKRFEET-GQELTELLEEEKLSCVPVLIFANKQDLLTAAP------------ASEIAEGLNLHTIRDRVW-QI  154 (181)
T ss_dssp             EEEETTCGGGHHHH-HHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC------------HHHHHHHTTGGGCCSSCE-EE
T ss_pred             EEEECcCHHHHHHH-HHHHHHHHhChhhcCCCEEEEEECcCcccCCC------------HHHHHHHhCchhccCCce-EE
Confidence            99999999999988 6676665443 2 6799999999999976532            22222211     12234 79


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|+||
T Consensus       155 ~~~Sa~~g~gi  165 (181)
T 1fzq_A          155 QSCSALTGEGV  165 (181)
T ss_dssp             EECCTTTCTTH
T ss_pred             EEccCCCCCCH
Confidence            99999999985

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.96  E-value=9.6e-29  Score=168.62  Aligned_cols=145  Identities=12%  Similarity=0.173  Sum_probs=108.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|++|+|||||+++|.++.+ ..+.++.+.. ...+.+++  ..+.+|||||++.+..++..+++++|++++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~-~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~   91 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFN-VETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVIF   91 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCC-EEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccc-eEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEE
Confidence            5789999999999999999999998776 4445555533 23344444  778889999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH-----HhCCcEEE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK-----QIGASYYI  158 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~  158 (168)
                      |+|++++.++..+ ..|+..+.+..  .+.|+++|+||+|+...            ...++..+...     ..++ +++
T Consensus        92 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~~  157 (183)
T 1moz_A           92 VVDSTDKDRMSTA-SKELHLMLQEEELQDAALLVFANKQDQPGA------------LSASEVSKELNLVELKDRSW-SIV  157 (183)
T ss_dssp             EEETTCTTTHHHH-HHHHHHHTTSSTTSSCEEEEEEECTTSTTC------------CCHHHHHHHTTTTTCCSSCE-EEE
T ss_pred             EEECCCHHHHHHH-HHHHHHHHcChhhCCCeEEEEEECCCCCCC------------CCHHHHHHHhCcccccCCce-EEE
Confidence            9999999999998 67777766542  68999999999999754            22333333222     1233 799


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       158 ~~Sa~~~~gi  167 (183)
T 1moz_A          158 ASSAIKGEGI  167 (183)
T ss_dssp             EEBGGGTBTH
T ss_pred             EccCCCCcCH
Confidence            9999999985

>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=99.96  E-value=3.5e-28  Score=169.98  Aligned_cols=122  Identities=16%  Similarity=0.125  Sum_probs=92.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCe-EEEEEEEeCCCCccccc-cccccccCCcE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQEDYNR-LRPLSYRGADV   82 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g~~~~~~-~~~~~~~~~~~   82 (168)
                      +.+.+||+++|++|+|||||+++|++..+...+.++. ..+. .+.+++. .+.+.+|||||++.+.. ++..+++++++
T Consensus         4 ~~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~~-~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   81 (214)
T 2fh5_B            4 KSSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSIT-DSSA-IYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARA   81 (214)
T ss_dssp             ----CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCCS-CEEE-EEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEE
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCcccccCCcc-eeeE-EEEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCE
Confidence            4568999999999999999999999988876655433 2222 2555544 68899999999999887 78888999999


Q ss_pred             EEEEEeCCChh-HHHHHHHhHHHHHchh---CCCCcEEEEeeCCcccccc
Q 030961           83 FVLAFSLVSRA-SYENVLKKWIPELQHY---SPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        83 ~i~v~d~~~~~-s~~~~~~~~~~~l~~~---~~~~p~ivv~nK~D~~~~~  128 (168)
                      +++|||+++.. ++....+.|...+...   ..+.|+++|+||+|+....
T Consensus        82 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  131 (214)
T 2fh5_B           82 VVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  131 (214)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             EEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcc
Confidence            99999999854 4666545566655442   2578999999999997653

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.95  E-value=1.2e-28  Score=177.04  Aligned_cols=150  Identities=17%  Similarity=0.274  Sum_probs=113.7

Q ss_pred             cceeeEEEEECCC---------CCCHHHHHHHHhc---CCCCCCCCCce-eecee-EEE--------------EECCeEE
Q 030961            5 ASRFIKCVTVGDG---------AVGKTCMLICYTS---NKFPTDYIPTV-FDNFS-ANV--------------VAEGTTV   56 (168)
Q Consensus         5 ~~~~~~i~vvG~~---------~~GKStli~~l~~---~~~~~~~~~~~-~~~~~-~~~--------------~~~~~~~   56 (168)
                      ..+.+||+++|.+         |||||||+++|.+   ..+...+.++. +.++. +.+              .+++..+
T Consensus        16 ~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~   95 (255)
T 3c5h_A           16 FQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVEC   95 (255)
T ss_dssp             CCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC---------
T ss_pred             CCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCcEE
Confidence            4567999999999         9999999999999   55666666665 33331 111              2467788


Q ss_pred             EEEEEe-----------------------CCCCcccccccccccc---------------------CCcEEEEEEeCCCh
Q 030961           57 NLGLWD-----------------------TAGQEDYNRLRPLSYR---------------------GADVFVLAFSLVSR   92 (168)
Q Consensus        57 ~~~i~D-----------------------~~g~~~~~~~~~~~~~---------------------~~~~~i~v~d~~~~   92 (168)
                      .+.+||                       ++|++.|..++..+++                     ++|++++|||++++
T Consensus        96 ~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t~~  175 (255)
T 3c5h_A           96 KMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSRG  175 (255)
T ss_dssp             CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECBC-
T ss_pred             EEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECCCC
Confidence            999999                       7778888888888877                     79999999999998


Q ss_pred             --hHHHHHHHhHHHHHchh-C-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh-CCcEEEEecccCccC
Q 030961           93 --ASYENVLKKWIPELQHY-S-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI-GASYYIECSSKTQQV  167 (168)
Q Consensus        93 --~s~~~~~~~~~~~l~~~-~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~  167 (168)
                        .+++.+ ..|+..+.+. . .+.|+++|+||+|+...+.          +  ++++.++... ++ +++++||++|.|
T Consensus       176 ~~~s~~~~-~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~----------v--~~~~~~~~~~~~~-~~~e~SAk~g~g  241 (255)
T 3c5h_A          176 MNRNFDDQ-LKFVSNLYNQLAKTKKPIVVVLTKCDEGVERY----------I--RDAHTFALSKKNL-QVVETSARSNVN  241 (255)
T ss_dssp             ---CHHHH-HHHHHHHHHHHHHTTCCEEEEEECGGGBCHHH----------H--HHHHHHHHTSSSC-CEEECBTTTTBS
T ss_pred             chhhHHHH-HHHHHHHHHHhccCCCCEEEEEEcccccccHH----------H--HHHHHHHHhcCCC-eEEEEECCCCCC
Confidence              999998 7888888765 2 6899999999999976543          3  5777888764 66 899999999998


Q ss_pred             C
Q 030961          168 C  168 (168)
Q Consensus       168 i  168 (168)
                      |
T Consensus       242 v  242 (255)
T 3c5h_A          242 V  242 (255)
T ss_dssp             H
T ss_pred             H
Confidence            5

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.95  E-value=1.3e-27  Score=175.91  Aligned_cols=151  Identities=20%  Similarity=0.252  Sum_probs=114.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC--C-CCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc-----ccccccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF--P-TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY-----NRLRPLSYR   78 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~--~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-----~~~~~~~~~   78 (168)
                      ..+||+++|++|||||||+++|+++..  . ..+.+|.+..+. ...+++ .+.+.+|||||++.+     ..++..+++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~-~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~   79 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHS-HLRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIFQ   79 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEE-EEEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEE-EEEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHhc
Confidence            468999999999999999999998732  2 134455554443 233444 678999999999988     678888899


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHH---HHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC-
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIP---ELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA-  154 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~---~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  154 (168)
                      ++|++++|||++++++++.+ ..|..   .+....++.|+++|+||+|+.....+.    ....+..+++.+++..+|+ 
T Consensus        80 ~ad~vi~V~D~t~~~s~~~l-~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~----~~~~v~~~~~~~~~~~~g~~  154 (307)
T 3r7w_A           80 MVQVLIHVFDVESTEVLKDI-EIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKRE----ELFQIMMKNLSETSSEFGFP  154 (307)
T ss_dssp             TCSEEEEEEETTCSCHHHHH-HHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHH----HHHHHHHHHHHHHHHTTTCC
T ss_pred             cCCEEEEEEECCChhhHHHH-HHHHHHHHHHHHhCCCCeEEEEEecccccchhhhh----HHHHHHHHHHHHHHHHcCCC
Confidence            99999999999999999987 56644   444445789999999999998632100    0001455788999999983 


Q ss_pred             -cEEEEecccC
Q 030961          155 -SYYIECSSKT  164 (168)
Q Consensus       155 -~~~~~~Sa~~  164 (168)
                       .+++++||++
T Consensus       155 ~~~~~~tSa~~  165 (307)
T 3r7w_A          155 NLIGFPTSIWD  165 (307)
T ss_dssp             SCEEEECCTTS
T ss_pred             CeEEEEeeecC
Confidence             5999999998

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.95  E-value=2.4e-27  Score=159.61  Aligned_cols=141  Identities=16%  Similarity=0.143  Sum_probs=102.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccc------ccccccc--
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR------LRPLSYR--   78 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~------~~~~~~~--   78 (168)
                      .++|+++|++|+|||||+++|.+..+.....++.+... ...+.+++  ..+.+|||||++.+..      +...+++  
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   80 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINE   80 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcC
Confidence            58999999999999999999998776544445444333 33455554  5688899999988753      2244454  


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      +++++++|+|+++.++.    ..|+..+.+  .+.|+++|+||+|+...+.          +. .++..+++.+++ +++
T Consensus        81 ~~~~~i~v~D~~~~~~~----~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~----------~~-~~~~~~~~~~~~-~~~  142 (165)
T 2wji_A           81 KPDLVVNIVDATALERN----LYLTLQLME--MGANLLLALNKMDLAKSLG----------IE-IDVDKLEKILGV-KVV  142 (165)
T ss_dssp             CCSEEEEEEETTCHHHH----HHHHHHHHH--TTCCEEEEEECHHHHHHTT----------CC-CCHHHHHHHHTS-CEE
T ss_pred             CCCEEEEEecCCchhHh----HHHHHHHHh--cCCCEEEEEEchHhccccC----------hh-hHHHHHHHHhCC-CEE
Confidence            89999999999886543    346666655  3689999999999975433          22 236778888887 899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       143 ~~SA~~~~~v  152 (165)
T 2wji_A          143 PLSAAKKMGI  152 (165)
T ss_dssp             ECBGGGTBSH
T ss_pred             EEEcCCCCCH
Confidence            9999999985

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.95  E-value=1.5e-28  Score=180.27  Aligned_cols=147  Identities=15%  Similarity=0.158  Sum_probs=107.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC---CCCCceeeceeEEEEECCeEEEEEEEeCCCCccccc---cccccccCCcEE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPT---DYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR---LRPLSYRGADVF   83 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~---~~~~~~~~~~~~   83 (168)
                      ||+++|++|||||||++++.+..+..   .+.+|++..+..   ++ ..+++++|||+|+++|+.   .++.++++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~---v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~   76 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH---FS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGAL   76 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE---EC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSEE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE---Ec-cEEEEEEEECCCchhccchhhhhhhhccCCCEE
Confidence            68999999999999999988664432   245666666542   22 348899999999999964   357889999999


Q ss_pred             EEEEeCCCh--hHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH----hCCcEE
Q 030961           84 VLAFSLVSR--ASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ----IGASYY  157 (168)
Q Consensus        84 i~v~d~~~~--~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~  157 (168)
                      ++|||++++  +++... ..|+..+.+..+++|++++|||+|+..+..+..   ..+.+..++++++++.    +++ +|
T Consensus        77 IlV~Ditd~~~~~~~~l-~~~l~~~~~~~~~ipillvgNK~DL~~~~~R~~---~~R~V~~~~~~~la~~~~~~~~i-~f  151 (331)
T 3r7w_B           77 VYVIDSQDEYINAITNL-AMIIEYAYKVNPSINIEVLIHKVDGLSEDFKVD---AQRDIMQRTGEELLELGLDGVQV-SF  151 (331)
T ss_dssp             EEECCCSSCTTHHHHHH-HHHHHHHHHHCTTCEEEEECCCCCSSCSHHHHH---HHHHHHHHHHHTTSSSSCSCCCE-EE
T ss_pred             EEEEECCchHHHHHHHH-HHHHHHHhhcCCCCcEEEEEECcccCchhhhhh---HHHHhhHHHHHHHHhhcccccCc-eE
Confidence            999999998  333333 344555555557899999999999976521000   0012677788888886    566 89


Q ss_pred             EEecccCc
Q 030961          158 IECSSKTQ  165 (168)
Q Consensus       158 ~~~Sa~~~  165 (168)
                      |+|||+++
T Consensus       152 ~eTSAkd~  159 (331)
T 3r7w_B          152 YLTSIFDH  159 (331)
T ss_dssp             ECCCSSSS
T ss_pred             EEeccCCC
Confidence            99999874

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.95  E-value=1.2e-26  Score=157.53  Aligned_cols=145  Identities=18%  Similarity=0.236  Sum_probs=105.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ..+.++|+++|.+|+|||||+++|.+..+...+.++.+..+ ...+.+++..  +.+|||||++.+..++...+..+|++
T Consensus         5 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~l~Dt~G~~~~~~~~~~~~~~~d~~   82 (178)
T 2lkc_A            5 VERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDKK--ITFLDTPGHEAFTTMRARGAQVTDIV   82 (178)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTEE--EEESCCCSSSSSSCSCCSSCCCCCEE
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCce--EEEEECCCCHHHHHHHHHHHhhCCEE
Confidence            46789999999999999999999999888776666665554 3456666654  56799999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh-------C-Cc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI-------G-AS  155 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~-~~  155 (168)
                      ++|+|++++......  .++..+..  .+.|+++|+||+|+....             .++........       + ..
T Consensus        83 i~v~d~~~~~~~~~~--~~l~~~~~--~~~p~ilv~nK~Dl~~~~-------------~~~~~~~~~~~~~~~~~~~~~~  145 (178)
T 2lkc_A           83 ILVVAADDGVMPQTV--EAINHAKA--ANVPIIVAINKMDKPEAN-------------PDRVMQELMEYNLVPEEWGGDT  145 (178)
T ss_dssp             EEEEETTCCCCHHHH--HHHHHHGG--GSCCEEEEEETTTSSCSC-------------HHHHHHHHTTTTCCBTTTTSSE
T ss_pred             EEEEECCCCCcHHHH--HHHHHHHh--CCCCEEEEEECccCCcCC-------------HHHHHHHHHhcCcChhHcCCcc
Confidence            999999884322221  12223332  478999999999997542             12222222222       2 13


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|+||
T Consensus       146 ~~~~~Sa~~~~gv  158 (178)
T 2lkc_A          146 IFCKLSAKTKEGL  158 (178)
T ss_dssp             EEEECCSSSSHHH
T ss_pred             cEEEEecCCCCCH
Confidence            8999999999875

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.94  E-value=3.7e-27  Score=184.99  Aligned_cols=149  Identities=21%  Similarity=0.269  Sum_probs=112.0

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEE-------E--ECCeEEEEEEEeCCCCccccccccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV-------V--AEGTTVNLGLWDTAGQEDYNRLRPL   75 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~-------~--~~~~~~~~~i~D~~g~~~~~~~~~~   75 (168)
                      ....+||+++|.+|||||||+++|.+..+...+.+|.+.++....       .  .++..+.+.+||+||++.+..+...
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            456899999999999999999999999988777888877764332       1  1334688999999999999999999


Q ss_pred             cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           76 SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      +++.++++++|+|+++.+   .. ..|+..+....++.|+++|+||+|+...+.          +..++++.++...++ 
T Consensus       118 ~l~~~d~ii~V~D~s~~~---~~-~~~~~~l~~~~~~~pvilV~NK~Dl~~~~~----------v~~~~~~~~~~~~~~-  182 (535)
T 3dpu_A          118 FMTRSSVYMLLLDSRTDS---NK-HYWLRHIEKYGGKSPVIVVMNKIDENPSYN----------IEQKKINERFPAIEN-  182 (535)
T ss_dssp             HHHSSEEEEEEECGGGGG---GH-HHHHHHHHHHSSSCCEEEEECCTTTCTTCC----------CCHHHHHHHCGGGTT-
T ss_pred             HccCCcEEEEEEeCCCch---hH-HHHHHHHHHhCCCCCEEEEEECCCcccccc----------cCHHHHHHHHHhcCC-
Confidence            999999999999987754   33 678888888777899999999999987654          677888888888887 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|.||
T Consensus       183 ~~~~vSA~~g~gi  195 (535)
T 3dpu_A          183 RFHRISCKNGDGV  195 (535)
T ss_dssp             CEEECCC-----C
T ss_pred             ceEEEecCcccCH
Confidence            8999999999986

>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=99.94  E-value=1.5e-26  Score=163.41  Aligned_cols=150  Identities=10%  Similarity=0.038  Sum_probs=101.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCcccc---------ccccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYN---------RLRPL   75 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~---------~~~~~   75 (168)
                      ...++|+++|.+|+|||||+++|++..+.....+..+... .......+  ..+.+|||||+....         ..+..
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~  104 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL--NKYQIIDTPGLLDRAFENRNTIEMTTITA  104 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT--EEEEEEECTTTTTSCGGGCCHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC--CeEEEEECCCCcCcccchhhhHHHHHHHH
Confidence            4579999999999999999999998876422111111111 11222233  678889999984311         11123


Q ss_pred             cccCCcEEEEEEeCCChhHHHHH-HHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccH---HHHHHHHHH
Q 030961           76 SYRGADVFVLAFSLVSRASYENV-LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTT---AQGEELRKQ  151 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~-~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~---~~~~~~~~~  151 (168)
                      .+..+|++++|||++++.++... ...|+..+....++.|+++|+||+|+...+.          +..   +.+..++..
T Consensus       105 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~  174 (228)
T 2qu8_A          105 LAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKCNMDS----------LSIDNKLLIKQILDN  174 (228)
T ss_dssp             HHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGCC--C----------CCHHHHHHHHHHHHH
T ss_pred             hhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccCCchh----------hHHHHHHHHHHHHHh
Confidence            36788999999999998876421 1456666666545899999999999976543          333   356677777


Q ss_pred             hC--CcEEEEecccCccCC
Q 030961          152 IG--ASYYIECSSKTQQVC  168 (168)
Q Consensus       152 ~~--~~~~~~~Sa~~~~~i  168 (168)
                      .+  + +++++||++|+||
T Consensus       175 ~~~~~-~~~~~SA~~g~gi  192 (228)
T 2qu8_A          175 VKNPI-KFSSFSTLTGVGV  192 (228)
T ss_dssp             CCSCE-EEEECCTTTCTTH
T ss_pred             cCCCc-eEEEEecccCCCH
Confidence            66  5 8999999999985

>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=9e-28  Score=178.17  Aligned_cols=146  Identities=17%  Similarity=0.235  Sum_probs=103.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|.+|+|||||+++|.+..+... .+|.+..+   ..++...+.+.+|||||++.+..++..+++.+|++++
T Consensus       163 ~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~---~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vil  238 (329)
T 3o47_A          163 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNV---ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIF  238 (329)
T ss_dssp             CCSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEE---EEEEETTEEEEEEECC-----CCSHHHHHTTEEEEEE
T ss_pred             cCcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEE---EEEecCcEEEEEEECCCCHhHHHHHHHHhccCCEEEE
Confidence            3567999999999999999999998876433 23333222   2233344778889999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH-----HHhCCcEEEE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR-----KQIGASYYIE  159 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~  159 (168)
                      |||++++.++..+...|...+.... +++|++||+||+|+.....            .++.....     ...++ ++++
T Consensus       239 V~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~------------~~~i~~~~~~~~~~~~~~-~~~~  305 (329)
T 3o47_A          239 VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN------------AAEITDKLGLHSLRHRNW-YIQA  305 (329)
T ss_dssp             EEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC------------HHHHHHHHTCTTCCSSCE-EEEE
T ss_pred             EEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccC------------HHHHHHHhchhhhhcCCC-EEEE
Confidence            9999999999998444555554443 6899999999999976532            22221111     11233 7999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|+||
T Consensus       306 vSAk~g~gi  314 (329)
T 3o47_A          306 TCATSGDGL  314 (329)
T ss_dssp             CBTTTTBTH
T ss_pred             EECCCCcCH
Confidence            999999985

>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=99.94  E-value=1.1e-27  Score=167.91  Aligned_cols=149  Identities=11%  Similarity=0.124  Sum_probs=105.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCC---CCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccC--
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPT---DYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG--   79 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~--   79 (168)
                      ..+.++|+++|++|+|||||+++|.+..+..   .+.++.+..+        ....+.+|||||++.++..+..+++.  
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~--------~~~~~~l~Dt~G~~~~~~~~~~~~~~~~   80 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY--------DGSGVTLVDFPGHVKLRYKLSDYLKTRA   80 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG--------GGSSCEEEECCCCGGGTHHHHHHHHHHG
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe--------eCceEEEEECCCcHHHHHHHHHHHHhcc
Confidence            4578999999999999999999999987643   2344443333        34567889999999998888888877  


Q ss_pred             --CcEEEEEEeCC-ChhHHHHHHHhHHHHHchh-----CCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH
Q 030961           80 --ADVFVLAFSLV-SRASYENVLKKWIPELQHY-----SPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ  151 (168)
Q Consensus        80 --~~~~i~v~d~~-~~~s~~~~~~~~~~~l~~~-----~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (168)
                        ++++++|+|++ ++.++... ..|+..+...     ..+.|+++|+||+|+........    ......+++..++..
T Consensus        81 ~~~~~~i~v~D~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~----~~~~l~~~~~~~~~~  155 (218)
T 1nrj_B           81 KFVKGLIFMVDSTVDPKKLTTT-AEFLVDILSITESSCENGIDILIACNKSELFTARPPSK----IKDALESEIQKVIER  155 (218)
T ss_dssp             GGEEEEEEEEETTSCTTCCHHH-HHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHH----HHHHHHHHHHHHHHH
T ss_pred             ccCCEEEEEEECCCChHHHHHH-HHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHH----HHHHHHHHHHHHHHH
Confidence              89999999999 88888887 5565555442     25799999999999986643000    000125667788877


Q ss_pred             hCCcEEEEecccCccC
Q 030961          152 IGASYYIECSSKTQQV  167 (168)
Q Consensus       152 ~~~~~~~~~Sa~~~~~  167 (168)
                      .+. +|+++||++|.+
T Consensus       156 ~~~-~~~~~Sa~~~~~  170 (218)
T 1nrj_B          156 RKK-SLNEVERKINEE  170 (218)
T ss_dssp             HHH-HHHC--------
T ss_pred             Hhc-cccccccccccc
Confidence            776 899999998865

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.94  E-value=8e-26  Score=166.35  Aligned_cols=153  Identities=15%  Similarity=0.078  Sum_probs=113.2

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCe-EEEEEEEeCCCCcccc----------c
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGT-TVNLGLWDTAGQEDYN----------R   71 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g~~~~~----------~   71 (168)
                      +++.+.-.|+++|.+|+|||||+|+|++.++........++........... ..++.+|||||.....          .
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~   84 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVE   84 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHHH
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHHH
Confidence            3456778899999999999999999999887532222222222222222222 5678889999986654          4


Q ss_pred             cccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH
Q 030961           72 LRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ  151 (168)
Q Consensus        72 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (168)
                      ....+++.+|++++|+|++++.+.... ..|+..+..  .+.|+++|+||+|+.....          ...+....+...
T Consensus        85 ~~~~~l~~aD~il~VvD~~~~~~~~~~-~~~~~~l~~--~~~pvilV~NK~Dl~~~~~----------~~~~~~~~l~~~  151 (308)
T 3iev_A           85 IAKQSLEEADVILFMIDATEGWRPRDE-EIYQNFIKP--LNKPVIVVINKIDKIGPAK----------NVLPLIDEIHKK  151 (308)
T ss_dssp             HHHHHHHHCSEEEEEEETTTBSCHHHH-HHHHHHTGG--GCCCEEEEEECGGGSSSGG----------GGHHHHHHHHHH
T ss_pred             HHHHHhhcCCEEEEEEeCCCCCCchhH-HHHHHHHHh--cCCCEEEEEECccCCCCHH----------HHHHHHHHHHHh
Confidence            455677899999999999999888876 666888877  4689999999999974333          556777888888


Q ss_pred             hC-CcEEEEecccCccCC
Q 030961          152 IG-ASYYIECSSKTQQVC  168 (168)
Q Consensus       152 ~~-~~~~~~~Sa~~~~~i  168 (168)
                      ++ ..+++++||++|+||
T Consensus       152 ~~~~~~i~~vSA~~g~gv  169 (308)
T 3iev_A          152 HPELTEIVPISALKGANL  169 (308)
T ss_dssp             CTTCCCEEECBTTTTBSH
T ss_pred             ccCCCeEEEEeCCCCCCH
Confidence            74 448999999999985

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.93  E-value=3.1e-26  Score=156.87  Aligned_cols=144  Identities=16%  Similarity=0.154  Sum_probs=105.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccc------cccccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR------LRPLSY   77 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~------~~~~~~   77 (168)
                      +.+.++|+++|++|+|||||+++|.+..+.....++.+... ...+..++  ..+.+|||||++.+..      ++..++
T Consensus         4 ~~~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   81 (188)
T 2wjg_A            4 HMKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYI   81 (188)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHH
Confidence            34679999999999999999999998765433344443333 33445554  6778899999988752      344444


Q ss_pred             c--CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           78 R--GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        78 ~--~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      .  .++++++|+|.++   ++.. ..|+..+..  .+.|+++++||+|+...+.          +. +++..++..+++ 
T Consensus        82 ~~~~~~~~i~v~d~~~---~~~~-~~~~~~~~~--~~~piilv~nK~Dl~~~~~----------~~-~~~~~~~~~~~~-  143 (188)
T 2wjg_A           82 INEKPDLVVNIVDATA---LERN-LYLTLQLME--MGANLLLALNKMDLAKSLG----------IE-IDVDKLEKILGV-  143 (188)
T ss_dssp             HHHCCSEEEEEEEGGG---HHHH-HHHHHHHHT--TTCCEEEEEECHHHHHHTT----------CC-CCHHHHHHHHTS-
T ss_pred             hccCCCEEEEEecchh---HHHH-HHHHHHHHh--cCCCEEEEEEhhhcccccc----------ch-HHHHHHHHHhCC-
Confidence            3  5999999999875   4444 566666655  4789999999999976543          22 356778888887 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|+||
T Consensus       144 ~~~~~Sa~~~~~v  156 (188)
T 2wjg_A          144 KVVPLSAAKKMGI  156 (188)
T ss_dssp             CEEECBGGGTBSH
T ss_pred             CeEEEEecCCCCH
Confidence            8999999999885

>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=99.93  E-value=2.3e-26  Score=158.36  Aligned_cols=146  Identities=18%  Similarity=0.158  Sum_probs=96.7

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCC----------Cccccccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAG----------QEDYNRLR   73 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g----------~~~~~~~~   73 (168)
                      ....++|+++|.+|+|||||+++|++..+...+.++.+..... ....++   .+.+|||||          ++.+..++
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~   96 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMI   96 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHH
Confidence            4568999999999999999999999987655555555444322 233333   578899999          66666666


Q ss_pred             cccccCC---cEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCccc--HHHHHH-
Q 030961           74 PLSYRGA---DVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVT--TAQGEE-  147 (168)
Q Consensus        74 ~~~~~~~---~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~-  147 (168)
                      ..+++.+   +++++|+|++++.++...  .+...+..  .+.|+++|+||+|+...+.          +.  .+++.+ 
T Consensus        97 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~--~~~~~~~~--~~~p~i~v~nK~Dl~~~~~----------~~~~~~~~~~~  162 (195)
T 1svi_A           97 ETYITTREELKAVVQIVDLRHAPSNDDV--QMYEFLKY--YGIPVIVIATKADKIPKGK----------WDKHAKVVRQT  162 (195)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHH--HHHHHHHH--TTCCEEEEEECGGGSCGGG----------HHHHHHHHHHH
T ss_pred             HHHHhhhhcCCEEEEEEECCCCCCHHHH--HHHHHHHH--cCCCEEEEEECcccCChHH----------HHHHHHHHHHH
Confidence            7776666   999999999998777653  33344433  4789999999999986643          21  123333 


Q ss_pred             HHHHhCCcEEEEecccCccCC
Q 030961          148 LRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       148 ~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      ++...+. +++++||++|+||
T Consensus       163 ~~~~~~~-~~~~~Sa~~~~gv  182 (195)
T 1svi_A          163 LNIDPED-ELILFSSETKKGK  182 (195)
T ss_dssp             HTCCTTS-EEEECCTTTCTTH
T ss_pred             HcccCCC-ceEEEEccCCCCH
Confidence            2222344 8999999999985

>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=99.93  E-value=1.9e-25  Score=160.59  Aligned_cols=143  Identities=20%  Similarity=0.144  Sum_probs=105.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccc------cccc-
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLR------PLSY-   77 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~------~~~~-   77 (168)
                      .+.++|+++|++|+|||||+++|.+..+.....+..+.... ..+...  ...+.+|||||+..+...+      ..++ 
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~--~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~   80 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYK--GYTINLIDLPGTYSLGYSSIDEKIARDYLL   80 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEET--TEEEEEEECCCCSSCCSSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEEC--CeEEEEEECCCcCccCCCCHHHHHHHHHHh
Confidence            46789999999999999999999987764433443333322 223333  3678889999998876543      3444 


Q ss_pred             -cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcE
Q 030961           78 -RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASY  156 (168)
Q Consensus        78 -~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (168)
                       ..+|++++|+|+++.++..    .|...+..  .+.|+++++||+|+...+.          +. .++..++..+++ +
T Consensus        81 ~~~~d~ii~V~D~t~~~~~~----~~~~~l~~--~~~pvilv~NK~Dl~~~~~----------i~-~~~~~l~~~lg~-~  142 (258)
T 3a1s_A           81 KGDADLVILVADSVNPEQSL----YLLLEILE--MEKKVILAMTAIDEAKKTG----------MK-IDRYELQKHLGI-P  142 (258)
T ss_dssp             HSCCSEEEEEEETTSCHHHH----HHHHHHHT--TTCCEEEEEECHHHHHHTT----------CC-BCHHHHHHHHCS-C
T ss_pred             hcCCCEEEEEeCCCchhhHH----HHHHHHHh--cCCCEEEEEECcCCCCccc----------hH-HHHHHHHHHcCC-C
Confidence             5899999999999876543    34455544  3699999999999976543          22 246788888998 9


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      ++++||++|.||
T Consensus       143 vi~~SA~~g~gi  154 (258)
T 3a1s_A          143 VVFTSSVTGEGL  154 (258)
T ss_dssp             EEECCTTTCTTH
T ss_pred             EEEEEeeCCcCH
Confidence            999999999985

>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=99.93  E-value=1.9e-25  Score=163.66  Aligned_cols=151  Identities=19%  Similarity=0.130  Sum_probs=101.2

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCC-CCCceeeceeEEEEECCeEEEEEEEeCCCCcc--------ccc
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTD-YIPTVFDNFSANVVAEGTTVNLGLWDTAGQED--------YNR   71 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~   71 (168)
                      |+.. -+..+|+++|.+|+|||||+|+|++.++... ..+..+.. ...........++.+|||||...        +..
T Consensus         1 m~~~-~~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~-~i~~i~~~~~~~l~l~DTpG~~~~~~~l~~~~~~   78 (301)
T 1wf3_A            1 MAEK-TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRK-RLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQ   78 (301)
T ss_dssp             --CC-CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCS-CEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHH
T ss_pred             CCCC-ccCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeE-EEEEEEEeCCcEEEEecCccccchhhHHHHHHHH
Confidence            5443 4556899999999999999999999887532 22222212 11112223356788899999876        334


Q ss_pred             cccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH
Q 030961           72 LRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ  151 (168)
Q Consensus        72 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (168)
                      ....+++.+|++++|+|++++.+...  ..+...+.+..++.|+++|+||+|+.....          ...+.++.+   
T Consensus        79 ~~~~~l~~ad~il~VvD~~~~~~~~~--~~i~~~l~~~~~~~p~ilV~NK~Dl~~~~~----------~~~~~~~~~---  143 (301)
T 1wf3_A           79 EVYEALADVNAVVWVVDLRHPPTPED--ELVARALKPLVGKVPILLVGNKLDAAKYPE----------EAMKAYHEL---  143 (301)
T ss_dssp             HHHHHTSSCSEEEEEEETTSCCCHHH--HHHHHHHGGGTTTSCEEEEEECGGGCSSHH----------HHHHHHHHT---
T ss_pred             HHHHHHhcCCEEEEEEECCCCCChHH--HHHHHHHHhhcCCCCEEEEEECcccCCchH----------HHHHHHHHh---
Confidence            45567889999999999988765543  444566666545799999999999975431          012222222   


Q ss_pred             hCCcEEEEecccCccCC
Q 030961          152 IGASYYIECSSKTQQVC  168 (168)
Q Consensus       152 ~~~~~~~~~Sa~~~~~i  168 (168)
                      .+..+++++||++|.|+
T Consensus       144 ~~~~~~~~iSA~~g~gv  160 (301)
T 1wf3_A          144 LPEAEPRMLSALDERQV  160 (301)
T ss_dssp             STTSEEEECCTTCHHHH
T ss_pred             cCcCcEEEEeCCCCCCH
Confidence            34457999999998874

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.93  E-value=6.1e-26  Score=151.51  Aligned_cols=139  Identities=23%  Similarity=0.188  Sum_probs=94.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCcee-eceeEEEEECCeEEEEEEEeCCCCccc-------cccccccccC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVF-DNFSANVVAEGTTVNLGLWDTAGQEDY-------NRLRPLSYRG   79 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~i~D~~g~~~~-------~~~~~~~~~~   79 (168)
                      +||+++|++|+|||||+++|.+..+. ....+..+ .........++.  .+.+|||||.+.+       ...+...++.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSGDKWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSSSSCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCccchHHHHHHHHHHHHHh
Confidence            68999999999999999999988743 12222222 223344555554  6778999998873       3344556789


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEE
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIE  159 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      +|++++|+|++++.+...  ..+...+.+  .+.|+++|+||+|+.....              ++.+++ .++..++++
T Consensus        80 ~~~~i~v~d~~~~~~~~~--~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~--------------~~~~~~-~~~~~~~~~  140 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQAD--YEVAEYLRR--KGKPVILVATKVDDPKHEL--------------YLGPLY-GLGFGDPIP  140 (161)
T ss_dssp             CSEEEEEEESSSCCCHHH--HHHHHHHHH--HTCCEEEEEECCCSGGGGG--------------GCGGGG-GGSSCSCEE
T ss_pred             CCEEEEEEECCCcccHhH--HHHHHHHHh--cCCCEEEEEECcccccchH--------------hHHHHH-hCCCCCeEE
Confidence            999999999998654433  233333433  4689999999999976521              223344 466657999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|+||
T Consensus       141 ~Sa~~~~gv  149 (161)
T 2dyk_A          141 TSSEHARGL  149 (161)
T ss_dssp             CBTTTTBSH
T ss_pred             EecccCCCh
Confidence            999999985

>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=99.92  E-value=1.2e-25  Score=162.57  Aligned_cols=142  Identities=15%  Similarity=0.154  Sum_probs=104.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccc------ccccccc--
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR------LRPLSYR--   78 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~------~~~~~~~--   78 (168)
                      ..++|+++|++|||||||+++|.+........+..+.. .+...+.. ...+.+|||||++.+..      +...++.  
T Consensus         2 ~~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~-~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~   79 (272)
T 3b1v_A            2 SMTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVE-RKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQ   79 (272)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCS-CEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEE-EEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcC
Confidence            35899999999999999999999876544434433222 23334454 66788999999988763      3444554  


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      .+|++++|+|+++.++..    .|..++.+  .+.|+++++||+|+...+.          +. .+...++..+++ +++
T Consensus        80 ~~d~vi~V~D~t~~e~~~----~~~~~l~~--~~~p~ilv~NK~Dl~~~~~----------~~-~~~~~l~~~lg~-~vi  141 (272)
T 3b1v_A           80 RADSILNVVDATNLERNL----YLTTQLIE--TGIPVTIALNMIDVLDGQG----------KK-INVDKLSYHLGV-PVV  141 (272)
T ss_dssp             CCSEEEEEEEGGGHHHHH----HHHHHHHH--TCSCEEEEEECHHHHHHTT----------CC-CCHHHHHHHHTS-CEE
T ss_pred             CCCEEEEEecCCchHhHH----HHHHHHHh--cCCCEEEEEEChhhCCcCC----------cH-HHHHHHHHHcCC-CEE
Confidence            699999999998866543    45555544  4799999999999975533          22 356778888898 899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       142 ~~SA~~g~gi  151 (272)
T 3b1v_A          142 ATSALKQTGV  151 (272)
T ss_dssp             ECBTTTTBSH
T ss_pred             EEEccCCCCH
Confidence            9999999985

>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=99.92  E-value=3.2e-26  Score=156.84  Aligned_cols=142  Identities=18%  Similarity=0.219  Sum_probs=103.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCC-----------Cccccccccccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG-----------QEDYNRLRPLSY   77 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g-----------~~~~~~~~~~~~   77 (168)
                      +||+++|.+|+|||||+++|.+..+...+.++.+... ......    .+.+|||||           ++.+..++..++
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~-~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~   76 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKI-IEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   76 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSC-EEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCcccee-EEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHHH
Confidence            6899999999999999999999888766666543322 222333    678899999           556666666666


Q ss_pred             cC-CcEEEEEEeCCChhHHHHHHHhHHHH--------Hch-hC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHH
Q 030961           78 RG-ADVFVLAFSLVSRASYENVLKKWIPE--------LQH-YS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGE  146 (168)
Q Consensus        78 ~~-~~~~i~v~d~~~~~s~~~~~~~~~~~--------l~~-~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~  146 (168)
                      +. ++++++|+++.+..++..+...|...        +.. .. .+.|+++|+||+|+...+             .++++
T Consensus        77 ~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-------------~~~~~  143 (190)
T 2cxx_A           77 EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV-------------QEVIN  143 (190)
T ss_dssp             HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH-------------HHHHH
T ss_pred             HhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH-------------HHHHH
Confidence            66 77777777777777777654556542        111 11 579999999999997652             45678


Q ss_pred             HHHHHhCCc------EEEEecccCccCC
Q 030961          147 ELRKQIGAS------YYIECSSKTQQVC  168 (168)
Q Consensus       147 ~~~~~~~~~------~~~~~Sa~~~~~i  168 (168)
                      .++..++..      +++++||++|+||
T Consensus       144 ~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  171 (190)
T 2cxx_A          144 FLAEKFEVPLSEIDKVFIPISAKFGDNI  171 (190)
T ss_dssp             HHHHHHTCCGGGHHHHEEECCTTTCTTH
T ss_pred             HHHHHhhhhhhccCCcEEEEecCCCCCH
Confidence            888888872      3799999999985

>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=99.92  E-value=1.1e-25  Score=152.67  Aligned_cols=140  Identities=20%  Similarity=0.229  Sum_probs=99.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccc--------ccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLR--------PLS   76 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~--------~~~   76 (168)
                      +.++|+++|.+|+|||||+++|.+..+.  ..+.++....+...+.+++..  +.+|||||++.+....        ..+
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMP--LHIIDTAGLREASDEVERIGIERAWQE   80 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEE--EEEEECCCCSCCSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCeE--EEEEECCCcccchhHHHHHHHHHHHHH
Confidence            4689999999999999999999987642  222233222335566677644  6789999987643211        134


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      ++.+|++++|+|++++.++..  ..|+..+.+.. .++|+++|+||+|+.....          .       ++...+. 
T Consensus        81 ~~~ad~~i~v~D~~~~~s~~~--~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~----------~-------~~~~~~~-  140 (172)
T 2gj8_A           81 IEQADRVLFMVDGTTTDAVDP--AEIWPEFIARLPAKLPITVVRNKADITGETL----------G-------MSEVNGH-  140 (172)
T ss_dssp             HHTCSEEEEEEETTTCCCCSH--HHHCHHHHHHSCTTCCEEEEEECHHHHCCCC----------E-------EEEETTE-
T ss_pred             HHhCCEEEEEEECCCCCCHHH--HHHHHHHHHhcccCCCEEEEEECccCCcchh----------h-------hhhccCC-
Confidence            789999999999999888764  46666666654 4799999999999964321          0       0111344 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|+||
T Consensus       141 ~~~~~SA~~g~gv  153 (172)
T 2gj8_A          141 ALIRLSARTGEGV  153 (172)
T ss_dssp             EEEECCTTTCTTH
T ss_pred             ceEEEeCCCCCCH
Confidence            8999999999985

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.92  E-value=1.3e-25  Score=161.13  Aligned_cols=140  Identities=16%  Similarity=0.177  Sum_probs=103.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccc----------cccccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR----------LRPLSY   77 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~----------~~~~~~   77 (168)
                      .+|+++|.+|||||||+|+|.+..+.....+..+.+. ...+..++.  .+.+|||||...+..          +...++
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~   79 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH--LIEITDLPGVYSLVANAEGISQDEQIAAQSV   79 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE--EEEEEECCCCSSCC------CHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe--EEEEEeCCCcccccccccCCCHHHHHHHHHH
Confidence            4899999999999999999998875444445444443 334555654  677899999988764          344455


Q ss_pred             --cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           78 --RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        78 --~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                        ..+|++++|+|+++.++...+    ...+..  .+.|+++++||+|+...+.          +. .....++..+++ 
T Consensus        80 ~~~~~d~vi~VvDas~~~~~~~l----~~~l~~--~~~pvilv~NK~Dl~~~~~----------~~-~~~~~l~~~lg~-  141 (256)
T 3iby_A           80 IDLEYDCIINVIDACHLERHLYL----TSQLFE--LGKPVVVALNMMDIAEHRG----------IS-IDTEKLESLLGC-  141 (256)
T ss_dssp             HHSCCSEEEEEEEGGGHHHHHHH----HHHHTT--SCSCEEEEEECHHHHHHTT----------CE-ECHHHHHHHHCS-
T ss_pred             hhCCCCEEEEEeeCCCchhHHHH----HHHHHH--cCCCEEEEEEChhcCCcCC----------cH-HHHHHHHHHcCC-
Confidence              789999999999986655443    334444  3689999999999976543          11 124557788898 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|.||
T Consensus       142 ~vi~~SA~~g~gi  154 (256)
T 3iby_A          142 SVIPIQAHKNIGI  154 (256)
T ss_dssp             CEEECBGGGTBSH
T ss_pred             CEEEEECCCCCCH
Confidence            9999999999985

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.92  E-value=5.7e-25  Score=151.08  Aligned_cols=148  Identities=17%  Similarity=0.116  Sum_probs=101.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEE-EECCeEEEEEEEeCCC----------Cccccccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV-VAEGTTVNLGLWDTAG----------QEDYNRLR   73 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~D~~g----------~~~~~~~~   73 (168)
                      ....+||+++|.+|+|||||+++|++..+ ..+.++.+....... ..+   ..+.+|||||          ++.+..++
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~t~~~~~~~~~---~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   95 (195)
T 3pqc_A           20 PPLKGEVAFVGRSNVGKSSLLNALFNRKI-AFVSKTPGKTRSINFYLVN---SKYYFVDLPGYGYAKVSKKERMLWKRLV   95 (195)
T ss_dssp             CCTTCEEEEEEBTTSSHHHHHHHHHTSCC-SCCCSSCCCCCCEEEEEET---TTEEEEECCCBSSSCCCHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHcCcc-ccccCCCCCccCeEEEEEC---CcEEEEECCCCccccCChhhHHHHHHHH
Confidence            45678999999999999999999999874 333344433332222 222   2466899999          55566666


Q ss_pred             cccccCC---cEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH
Q 030961           74 PLSYRGA---DVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK  150 (168)
Q Consensus        74 ~~~~~~~---~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (168)
                      ..+++.+   +++++|+|++++.+....  .+...+..  .+.|+++|+||+|+.....        .....++++.++.
T Consensus        96 ~~~~~~~~~~~~vi~v~d~~~~~~~~~~--~~~~~~~~--~~~p~i~v~nK~Dl~~~~~--------~~~~~~~~~~~~~  163 (195)
T 3pqc_A           96 EDYFKNRWSLQMVFLLVDGRIPPQDSDL--MMVEWMKS--LNIPFTIVLTKMDKVKMSE--------RAKKLEEHRKVFS  163 (195)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHH--HHHHHHHH--TTCCEEEEEECGGGSCGGG--------HHHHHHHHHHHHH
T ss_pred             HHHHhcCcCceEEEEEecCCCCCCHHHH--HHHHHHHH--cCCCEEEEEEChhcCChHH--------HHHHHHHHHHHHh
Confidence            6666554   999999998876444332  22333333  2689999999999975432        1145566777777


Q ss_pred             HhCCcEEEEecccCccCC
Q 030961          151 QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       151 ~~~~~~~~~~Sa~~~~~i  168 (168)
                      ..+..+++++||++|+||
T Consensus       164 ~~~~~~~~~~Sa~~~~gv  181 (195)
T 3pqc_A          164 KYGEYTIIPTSSVTGEGI  181 (195)
T ss_dssp             SSCCSCEEECCTTTCTTH
T ss_pred             hcCCCceEEEecCCCCCH
Confidence            766558999999999985

>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=99.91  E-value=6.5e-25  Score=159.07  Aligned_cols=142  Identities=15%  Similarity=0.167  Sum_probs=101.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCcccccccc----------c
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRP----------L   75 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~----------~   75 (168)
                      +.++|+++|.+|+|||||+|+|.+..+.....+..+.+. ...+...+.  .+.+|||||...+.....          .
T Consensus         2 ~~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~~--~~~liDtpG~~~~~~~~~~~~~~e~i~~~   79 (274)
T 3i8s_A            2 KKLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDH--QVTLVDLPGTYSLTTISSQTSLDEQIACH   79 (274)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSSC--EEEEEECCCCSCSCC----CCHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCCC--ceEEEECcCCCccccccccCCHHHHHHHH
Confidence            368999999999999999999999875444444444333 334444443  566799999988763221          1


Q ss_pred             c--ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           76 S--YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        76 ~--~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      +  ...+|++++|+|+++.++...    |...+...  ++|+++|+||+|+...+.          + ......++..++
T Consensus        80 ~~~~~~~d~ii~VvD~~~~~~~~~----~~~~l~~~--~~p~ivv~NK~Dl~~~~~----------~-~~~~~~l~~~lg  142 (274)
T 3i8s_A           80 YILSGDADLLINVVDASNLERNLY----LTLQLLEL--GIPCIVALNMLDIAEKQN----------I-RIEIDALSARLG  142 (274)
T ss_dssp             HHHHTCCSEEEEEEEGGGHHHHHH----HHHHHHHH--TCCEEEEEECHHHHHHTT----------E-EECHHHHHHHHT
T ss_pred             HHhhcCCCEEEEEecCCChHHHHH----HHHHHHhc--CCCEEEEEECccchhhhh----------H-HHHHHHHHHhcC
Confidence            2  268999999999988665544    33334332  689999999999976543          1 123567778889


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      + +++++||++|+||
T Consensus       143 ~-~~i~~SA~~g~gi  156 (274)
T 3i8s_A          143 C-PVIPLVSTRGRGI  156 (274)
T ss_dssp             S-CEEECCCGGGHHH
T ss_pred             C-CEEEEEcCCCCCH
Confidence            8 8999999999875

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.91  E-value=1.6e-24  Score=152.19  Aligned_cols=152  Identities=12%  Similarity=0.001  Sum_probs=98.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEEC-CeEEEEEEEeCCCCc----------ccccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAE-GTTVNLGLWDTAGQE----------DYNRL   72 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~-~~~~~~~i~D~~g~~----------~~~~~   72 (168)
                      ....++|+++|.+|+|||||+++|++.........+.+... .....+. .....+.+|||||..          .+..+
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~  105 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQL  105 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHH
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHH
Confidence            34678999999999999999999998863222222222222 1222333 344678889999943          23344


Q ss_pred             ccccccC---CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH
Q 030961           73 RPLSYRG---ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR  149 (168)
Q Consensus        73 ~~~~~~~---~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (168)
                      ...+++.   +|++++|+|++++.+...  ..++..+..  .+.|+++|+||+|+.......        ...++..+..
T Consensus       106 ~~~~~~~~~~~d~vi~v~d~~~~~~~~~--~~~~~~l~~--~~~p~i~v~nK~Dl~~~~~~~--------~~~~~~~~~l  173 (223)
T 4dhe_A          106 LSSYLQTRPQLCGMILMMDARRPLTELD--RRMIEWFAP--TGKPIHSLLTKCDKLTRQESI--------NALRATQKSL  173 (223)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHH--HHHHHHHGG--GCCCEEEEEECGGGSCHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHhcCcCcCEEEEEEeCCCCCCHHH--HHHHHHHHh--cCCCEEEEEeccccCChhhHH--------HHHHHHHHHH
Confidence            4444444   788999999987654333  456666665  468999999999997654300        1122233333


Q ss_pred             HHh------CCcEEEEecccCccCC
Q 030961          150 KQI------GASYYIECSSKTQQVC  168 (168)
Q Consensus       150 ~~~------~~~~~~~~Sa~~~~~i  168 (168)
                      ..+      ...+++++||++|.||
T Consensus       174 ~~~~~~~~~~~~~~~~~SA~~g~gv  198 (223)
T 4dhe_A          174 DAYRDAGYAGKLTVQLFSALKRTGL  198 (223)
T ss_dssp             HHHHHHTCCSCEEEEEEBTTTTBSH
T ss_pred             HhhhhcccCCCCeEEEeecCCCcCH
Confidence            332      4458999999999985

>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=99.91  E-value=3.4e-24  Score=155.08  Aligned_cols=143  Identities=20%  Similarity=0.134  Sum_probs=103.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccc------cccccc--
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR------LRPLSY--   77 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~------~~~~~~--   77 (168)
                      +.++|+++|++|+|||||+++|.+..+.....++.+.+. ...+...+.  .+.+|||||...+..      +...++  
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~DtpG~~~~~~~~~~~~~~~~~~~~   79 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREK--EFLVVDLPGIYSLTAHSIDELIARNFILD   79 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTE--EEEEEECCCCSCCCSSCHHHHHHHHHHHT
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCc--eEEEEeCCCccccccCCHHHHHHHHhhhc
Confidence            368999999999999999999998876444445444443 234445554  477899999988766      344444  


Q ss_pred             cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEE
Q 030961           78 RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYY  157 (168)
Q Consensus        78 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (168)
                      .++|++++|+|+++.+..    ..|...+... ...|+++++||+|+...+.          ... +...+++.+++ ++
T Consensus        80 ~~~d~vi~v~D~~~~~~~----~~~~~~~~~~-~~~p~ilv~NK~Dl~~~~~----------~~~-~~~~l~~~lg~-~~  142 (271)
T 3k53_A           80 GNADVIVDIVDSTCLMRN----LFLTLELFEM-EVKNIILVLNKFDLLKKKG----------AKI-DIKKMRKELGV-PV  142 (271)
T ss_dssp             TCCSEEEEEEEGGGHHHH----HHHHHHHHHT-TCCSEEEEEECHHHHHHHT----------CCC-CHHHHHHHHSS-CE
T ss_pred             cCCcEEEEEecCCcchhh----HHHHHHHHhc-CCCCEEEEEEChhcCcccc----------cHH-HHHHHHHHcCC-cE
Confidence            679999999999886432    2333333332 2389999999999876543          221 26778888898 89


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|.||
T Consensus       143 ~~~Sa~~g~gi  153 (271)
T 3k53_A          143 IPTNAKKGEGV  153 (271)
T ss_dssp             EECBGGGTBTH
T ss_pred             EEEEeCCCCCH
Confidence            99999999985

>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=99.90  E-value=1.4e-23  Score=162.07  Aligned_cols=142  Identities=15%  Similarity=0.152  Sum_probs=86.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccc--------ccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLR--------PLS   76 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~--------~~~   76 (168)
                      ..++|+++|.+|+|||||+|+|.+...  .....++..+.....+.+++  +.+.+|||||...+...+        ..+
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~~  309 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMK  309 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC--------------------CC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHhh
Confidence            468999999999999999999998753  22222333333345566666  467789999987765443        336


Q ss_pred             ccCCcEEEEEEeCCChhHHHHH--HHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC
Q 030961           77 YRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA  154 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~--~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (168)
                      ++.+|++++|+|++++.++...  ...|+..+.    +.|+++|+||+|+.....          ..   .+.+..... 
T Consensus       310 ~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~----~~piIvV~NK~Dl~~~~~----------~~---~~~l~~~~~-  371 (476)
T 3gee_A          310 MAEADLILYLLDLGTERLDDELTEIRELKAAHP----AAKFLTVANKLDRAANAD----------AL---IRAIADGTG-  371 (476)
T ss_dssp             CSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT----TSEEEEEEECTTSCTTTH----------HH---HHHHHHHHT-
T ss_pred             cccCCEEEEEEECCCCcchhhhHHHHHHHHhcC----CCCEEEEEECcCCCCccc----------hh---HHHHHhcCC-
Confidence            7899999999999998877432  134444443    689999999999976643          21   133444322 


Q ss_pred             cEEEEecccCccCC
Q 030961          155 SYYIECSSKTQQVC  168 (168)
Q Consensus       155 ~~~~~~Sa~~~~~i  168 (168)
                      .+++++||++|+||
T Consensus       372 ~~~i~vSAktg~GI  385 (476)
T 3gee_A          372 TEVIGISALNGDGI  385 (476)
T ss_dssp             SCEEECBTTTTBSH
T ss_pred             CceEEEEECCCCCH
Confidence            48999999999985

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.90  E-value=6.4e-24  Score=162.90  Aligned_cols=146  Identities=18%  Similarity=0.198  Sum_probs=100.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeeceeEEEEECCeEEEEEEEeCCCCc----------ccccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQE----------DYNRLRP   74 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~~~~~~   74 (168)
                      ..+||+++|.+|+|||||+|+|++..+.  ..+.++..+.....+..++..  +.+|||||+.          .|..+..
T Consensus       174 ~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~~--~~l~DT~G~~~~~~~~~~~e~~~~~~~  251 (436)
T 2hjg_A          174 EVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQE--FVIVDTAGMRKKGKVYETTEKYSVLRA  251 (436)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTEE--EEETTHHHHTCBTTBCCCCSHHHHHHH
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCeE--EEEEECCCcCcCccccchHHHHHHHHH
Confidence            5689999999999999999999987653  232333333334556666654  6779999973          3322222


Q ss_pred             -ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHH-HHHHHHh
Q 030961           75 -LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQG-EELRKQI  152 (168)
Q Consensus        75 -~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~  152 (168)
                       .+++.+|++++|+|++++.+++..  .|...+..  .+.|+++++||+|+...+.          ...++. ..+.+.+
T Consensus       252 ~~~~~~ad~~llv~D~~~~~s~~~~--~~~~~~~~--~~~~iiiv~NK~Dl~~~~~----------~~~~~~~~~~~~~l  317 (436)
T 2hjg_A          252 LKAIDRSEVVAVVLDGEEGIIEQDK--RIAGYAHE--AGKAVVIVVNKWDAVDKDE----------STMKEFEENIRDHF  317 (436)
T ss_dssp             HHHHHHCSEEEEEEETTTCCCHHHH--HHHHHHHH--TTCEEEEEEECGGGSCCCT----------THHHHHHHHHHHHC
T ss_pred             HHHHHhCCEEEEEEcCCcCCcHHHH--HHHHHHHH--cCCcEEEEEECccCCCcch----------HHHHHHHHHHHHhc
Confidence             356789999999999999888774  57766655  5799999999999976543          333332 2222222


Q ss_pred             ---CCcEEEEecccCccCC
Q 030961          153 ---GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ---~~~~~~~~Sa~~~~~i  168 (168)
                         +..+++++||++|.||
T Consensus       318 ~~~~~~~~~~~SA~tg~~v  336 (436)
T 2hjg_A          318 QFLDYAPILFMSALTKKRI  336 (436)
T ss_dssp             GGGTTSCEEECCTTTCTTG
T ss_pred             ccCCCCCEEEEecccCCCH
Confidence               2348999999999986

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.90  E-value=1.2e-23  Score=162.29  Aligned_cols=147  Identities=20%  Similarity=0.208  Sum_probs=105.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEECCeEEEEEEEeCCC----------Cccccccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG----------QEDYNRLR   73 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~~~~~~   73 (168)
                      ...++|+++|.+++|||||+++|.+...  ...+.++..+.....+..++.  .+.+|||||          ++.|..+.
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  270 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  270 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHHH
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHHH
Confidence            4578999999999999999999997642  223333333333556666665  677899999          56655554


Q ss_pred             cc-cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh
Q 030961           74 PL-SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI  152 (168)
Q Consensus        74 ~~-~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (168)
                      .. +++.+|++++|+|++++.+...  ..|...+..  .+.|+++|+||+|+...+.          ...+++.+.++..
T Consensus       271 ~~~~~~~ad~~llviD~~~~~~~~~--~~~~~~~~~--~~~~~ilv~NK~Dl~~~~~----------~~~~~~~~~~~~~  336 (456)
T 4dcu_A          271 ALKAIDRSEVVAVVLDGEEGIIEQD--KRIAGYAHE--AGKAVVIVVNKWDAVDKDE----------STMKEFEENIRDH  336 (456)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHH--HHHHHHHHH--TTCEEEEEEECGGGSCCCS----------SHHHHHHHHHHHH
T ss_pred             HHHHHhhCCEEEEEEeCCCCcCHHH--HHHHHHHHH--cCCCEEEEEEChhcCCCch----------HHHHHHHHHHHHh
Confidence            43 6788999999999988655433  466666665  5699999999999986654          5566666666554


Q ss_pred             ----CCcEEEEecccCccCC
Q 030961          153 ----GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ----~~~~~~~~Sa~~~~~i  168 (168)
                          +..+++++||++|+||
T Consensus       337 ~~~~~~~~~~~~SA~~g~gv  356 (456)
T 4dcu_A          337 FQFLDYAPILFMSALTKKRI  356 (456)
T ss_dssp             CGGGTTSCEEECCTTTCTTG
T ss_pred             cccCCCCCEEEEcCCCCcCH
Confidence                2348999999999986

>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=99.89  E-value=5.9e-23  Score=150.60  Aligned_cols=148  Identities=16%  Similarity=0.070  Sum_probs=101.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeeceeEEEEECCeEEEEEEEeCCCCc---------ccccccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDNFSANVVAEGTTVNLGLWDTAGQE---------DYNRLRP   74 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~---------~~~~~~~   74 (168)
                      ..+..+|+++|++|+|||||+|+|++..+.. ...+..+ .......+.....++.+|||||..         .+.....
T Consensus         5 ~~r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tT-r~~~~gi~~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~   83 (301)
T 1ega_A            5 KSYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTT-RHRIVGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAAS   83 (301)
T ss_dssp             CCEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCC-SSCEEEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTT
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcc-eeeEEEEEEECCeeEEEEECcCCCccchhhHHHHHHHHHH
Confidence            4456689999999999999999999987532 1122111 111111222234578889999987         3445567


Q ss_pred             ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC
Q 030961           75 LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA  154 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (168)
                      ..++.+|++++|+|+++ .+  .....+...+..  .+.|+++++||+|+...+.          ...+....+...+++
T Consensus        84 ~~l~~~D~vl~Vvd~~~-~~--~~~~~i~~~l~~--~~~P~ilvlNK~D~~~~~~----------~~~~~l~~l~~~~~~  148 (301)
T 1ega_A           84 SSIGDVELVIFVVEGTR-WT--PDDEMVLNKLRE--GKAPVILAVNKVDNVQEKA----------DLLPHLQFLASQMNF  148 (301)
T ss_dssp             SCCCCEEEEEEEEETTC-CC--HHHHHHHHHHHS--SSSCEEEEEESTTTCCCHH----------HHHHHHHHHHTTSCC
T ss_pred             HHHhcCCEEEEEEeCCC-CC--HHHHHHHHHHHh--cCCCEEEEEECcccCccHH----------HHHHHHHHHHHhcCc
Confidence            78899999999999977 33  221333344433  4689999999999976322          334556667766776


Q ss_pred             cEEEEecccCccCC
Q 030961          155 SYYIECSSKTQQVC  168 (168)
Q Consensus       155 ~~~~~~Sa~~~~~i  168 (168)
                      ..++++||++|.|+
T Consensus       149 ~~~i~iSA~~g~~v  162 (301)
T 1ega_A          149 LDIVPISAETGLNV  162 (301)
T ss_dssp             SEEEECCTTTTTTH
T ss_pred             CceEEEECCCCCCH
Confidence            57999999999874

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.89  E-value=6.3e-24  Score=161.63  Aligned_cols=144  Identities=17%  Similarity=0.146  Sum_probs=102.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeec-eeEEEEECCeEEEEEEEeCCCCccccccccc-------
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDN-FSANVVAEGTTVNLGLWDTAGQEDYNRLRPL-------   75 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~-------   75 (168)
                      ....++|+++|..++|||||+++|++..+. ....+..+.. ..+.+...+.. .+.+|||||++.+..+...       
T Consensus        31 ~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~-~l~liDTpG~~d~~~l~~~~~~~~~~  109 (423)
T 3qq5_A           31 AGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIG-PVTLVDTPGLDDVGELGRLRVEKARR  109 (423)
T ss_dssp             -CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTTE-EEEEEECSSTTCCCTTCCCCHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCC-eEEEEECcCCCcccchhHHHHHHHHH
Confidence            456889999999999999999999988763 2222222222 34455555542 6788999999887765433       


Q ss_pred             cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           76 SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      .+..+|++++|+|++.....    ..|+..+.+.  +.|+++|+||+|+...+.          .  +.++.++..+++ 
T Consensus       110 ~l~~aD~vllVvD~~~~~~~----~~~l~~l~~~--~~piIvV~NK~Dl~~~~~----------~--~~~~~l~~~~g~-  170 (423)
T 3qq5_A          110 VFYRADCGILVTDSAPTPYE----DDVVNLFKEM--EIPFVVVVNKIDVLGEKA----------E--ELKGLYESRYEA-  170 (423)
T ss_dssp             HHTSCSEEEEECSSSCCHHH----HHHHHHHHHT--TCCEEEECCCCTTTTCCC----------T--HHHHHSSCCTTC-
T ss_pred             HHhcCCEEEEEEeCCChHHH----HHHHHHHHhc--CCCEEEEEeCcCCCCccH----------H--HHHHHHHHHcCC-
Confidence            67889999999998333222    5677777664  799999999999987653          2  566777777887 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|.||
T Consensus       171 ~v~~vSAktg~gI  183 (423)
T 3qq5_A          171 KVLLVSALQKKGF  183 (423)
T ss_dssp             CCCCCSSCCTTST
T ss_pred             CEEEEECCCCCCH
Confidence            8999999999986

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.88  E-value=6.4e-23  Score=140.92  Aligned_cols=114  Identities=12%  Similarity=0.155  Sum_probs=86.2

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCC---CCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccC---
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPT---DYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG---   79 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~---   79 (168)
                      .+.++|+++|++|||||||+++|.+..+..   ...++.+.        +...+.+.+|||||++.+...+..++..   
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~--------~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~  117 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAA--------DYDGSGVTLVDFPGHVKLRYKLSDYLKTRAK  117 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC--------------------CCCCTTCSEEEETTCCBSSCCHHHHHHHHGG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceee--------eecCCeEEEEECCCCchHHHHHHHHHHhhcc
Confidence            467899999999999999999999887643   12222222        1134567889999999998887777766   


Q ss_pred             -CcEEEEEEeCC-ChhHHHHHHHhHHHHHchh-----CCCCcEEEEeeCCcccccc
Q 030961           80 -ADVFVLAFSLV-SRASYENVLKKWIPELQHY-----SPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        80 -~~~~i~v~d~~-~~~s~~~~~~~~~~~l~~~-----~~~~p~ivv~nK~D~~~~~  128 (168)
                       +|++++|+|++ ++.++... ..|+..+...     .++.|+++|+||+|+....
T Consensus       118 ~~~~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  172 (193)
T 2ged_A          118 FVKGLIFMVDSTVDPKKLTTT-AEFLVDILSITESSCENGIDILIACNKSELFTAR  172 (193)
T ss_dssp             GEEEEEEEEETTCCHHHHHHH-HHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             cCCEEEEEEECCCCchhHHHH-HHHHHHHHhhhhhccccCCCEEEEEEchHhcCCC
Confidence             89999999999 89999887 5666555432     2479999999999998664

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.88  E-value=5e-22  Score=148.86  Aligned_cols=147  Identities=17%  Similarity=0.155  Sum_probs=103.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCcccccc---------ccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRL---------RPL   75 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~---------~~~   75 (168)
                      ...++++++|.+|+|||||+++|.+........+..+.... ..+...  ...+.+|||||.......         ...
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  242 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDG--YFRYQIIDTPGLLDRPISERNEIEKQAILA  242 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEET--TEEEEEEECTTTSSSCSTTSCHHHHHHHHG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEec--CceEEEEeCCCccccchhhhhHHHHHHHHH
Confidence            35689999999999999999999987642211111111111 122222  356788999998553211         112


Q ss_pred             cccCCcEEEEEEeCCChh--HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           76 SYRGADVFVLAFSLVSRA--SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~--s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      ....+|++++|+|++++.  ++... ..|+..+.....+.|+++|+||+|+.....            .+++..++...+
T Consensus       243 ~~~~ad~illV~D~s~~~~~~~~~~-~~~~~~i~~~~~~~piilV~NK~Dl~~~~~------------~~~~~~~~~~~~  309 (357)
T 2e87_A          243 LRYLGNLIIYIFDPSEHCGFPLEEQ-IHLFEEVHGEFKDLPFLVVINKIDVADEEN------------IKRLEKFVKEKG  309 (357)
T ss_dssp             GGGTCSEEEEEECTTCTTSSCHHHH-HHHHHHHHHHTTTSCEEEEECCTTTCCHHH------------HHHHHHHHHHTT
T ss_pred             HHhcCCEEEEEEeCCccccCCHHHH-HHHHHHHHHhcCCCCEEEEEECcccCChHH------------HHHHHHHHHhcC
Confidence            334699999999998877  66765 678777776555799999999999976533            245666676777


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      + +++++||++|+||
T Consensus       310 ~-~~~~iSA~~g~gi  323 (357)
T 2e87_A          310 L-NPIKISALKGTGI  323 (357)
T ss_dssp             C-CCEECBTTTTBTH
T ss_pred             C-CeEEEeCCCCcCH
Confidence            6 8999999999985

>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=2e-22  Score=154.72  Aligned_cols=140  Identities=21%  Similarity=0.187  Sum_probs=91.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCcee-eceeEEEEECCeEEEEEEEeCCCCccc---------cccccccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVF-DNFSANVVAEGTTVNLGLWDTAGQEDY---------NRLRPLSY   77 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~i~D~~g~~~~---------~~~~~~~~   77 (168)
                      .+|+++|.||||||||+|+|++.+.. ....+..+ +.....+..++..  +.+|||||.+..         ...+..++
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~~--~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   79 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKT--FKLVDTCGVFDNPQDIISQKMKEVTLNMI   79 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTEE--EEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCeE--EEEEECCCccccccchHHHHHHHHHHHHH
Confidence            47999999999999999999988743 22233333 3334556666654  677999997642         23345568


Q ss_pred             cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHH-HHHHHHhCCcE
Q 030961           78 RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQG-EELRKQIGASY  156 (168)
Q Consensus        78 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  156 (168)
                      +++|++++|+|+.++.+...  ..+...+.+  .+.|+++|+||+|+...            . ..+. .++. .+++.+
T Consensus        80 ~~ad~il~V~D~~~~~~~~d--~~i~~~l~~--~~~p~ilv~NK~D~~~~------------~-~~~~~~~~~-~lg~~~  141 (439)
T 1mky_A           80 READLVLFVVDGKRGITKED--ESLADFLRK--STVDTILVANKAENLRE------------F-EREVKPELY-SLGFGE  141 (439)
T ss_dssp             TTCSEEEEEEETTTCCCHHH--HHHHHHHHH--HTCCEEEEEESCCSHHH------------H-HHHTHHHHG-GGSSCS
T ss_pred             HhCCEEEEEEECCCCCCHHH--HHHHHHHHH--cCCCEEEEEeCCCCccc------------c-HHHHHHHHH-hcCCCC
Confidence            89999999999988665443  223333333  36899999999998532            1 1122 3333 456546


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      ++++||++|.||
T Consensus       142 ~~~iSA~~g~gv  153 (439)
T 1mky_A          142 PIPVSAEHNINL  153 (439)
T ss_dssp             CEECBTTTTBSH
T ss_pred             EEEEeccCCCCH
Confidence            899999999985

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.87  E-value=2.3e-22  Score=155.98  Aligned_cols=156  Identities=12%  Similarity=0.020  Sum_probs=97.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCC--CCC----------------------CCC-----ceeece-eEEEEECCeE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKF--PTD----------------------YIP-----TVFDNF-SANVVAEGTT   55 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~--~~~----------------------~~~-----~~~~~~-~~~~~~~~~~   55 (168)
                      ...+||+++|.+++|||||+++|++..-  ...                      .+.     ..+... .....++...
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~  110 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  110 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCC
Confidence            3578999999999999999999976511  000                      000     001111 1122233445


Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHH-----HHHhHHHHHchhCCCCcEEEEeeCCcccccchh
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYEN-----VLKKWIPELQHYSPGVPVVLVGTKLDLREDKHY  130 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~-----~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~  130 (168)
                      ..+.+|||||++.|...+...++.+|++++|+|++++.++..     ...+....+.. ....|+++++||+|+...+..
T Consensus       111 ~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~-~~~~~iIvviNK~Dl~~~~~~  189 (483)
T 3p26_A          111 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS-LGIHNLIIAMNKMDNVDWSQQ  189 (483)
T ss_dssp             CEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHH-TTCCCEEEEEECGGGGTTCHH
T ss_pred             ceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHH-cCCCcEEEEEECcCcccchHH
Confidence            678899999999999888889999999999999998754321     11222232322 223579999999999764320


Q ss_pred             hhcCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          131 LADHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      ..      ....++...+...++.    .+++++||++|+||
T Consensus       190 ~~------~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi  225 (483)
T 3p26_A          190 RF------EEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGV  225 (483)
T ss_dssp             HH------HHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTS
T ss_pred             HH------HHHHHHHHHHHHHcCCCcccceEEEEeeecCCCc
Confidence            00      0123334444444443    48999999999986

>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=7.6e-23  Score=152.03  Aligned_cols=143  Identities=21%  Similarity=0.215  Sum_probs=102.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCC--CceeeceeEEEEECCeEEEEEEEeCCCCc----ccccccccccc---C
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYI--PTVFDNFSANVVAEGTTVNLGLWDTAGQE----DYNRLRPLSYR---G   79 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----~~~~~~~~~~~---~   79 (168)
                      .+|+++|.++||||||+++|++.+......  .|.... ...+.+++ ...+.+|||||..    .+..+...+++   .
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 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPN-LGMVETDD-GRSFVMADLPGLIEGAHQGVGLGHQFLRHIER  236 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCC-EEEEECSS-SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHH
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCce-EEEEEeCC-CceEEEecCCCCcccccccchhHHHHHHHHHh
Confidence            368899999999999999999876422111  122111 11233333 2467889999953    34445455554   4


Q ss_pred             CcEEEEEEeCCC---hhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           80 ADVFVLAFSLVS---RASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        80 ~~~~i~v~d~~~---~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      ++++++|+|+++   +.+++.. ..|..++..+.   .+.|+++|+||+|+....              +..++++..++
T Consensus       237 ~d~ll~VvD~s~~~~~~~~~~~-~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~--------------e~~~~l~~~l~  301 (342)
T 1lnz_A          237 TRVIVHVIDMSGLEGRDPYDDY-LTINQELSEYNLRLTERPQIIVANKMDMPEAA--------------ENLEAFKEKLT  301 (342)
T ss_dssp             CCEEEEEEESSCSSCCCHHHHH-HHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH--------------HHHHHHHHHCC
T ss_pred             ccEEEEEEECCcccccChHHHH-HHHHHHHHHhhhhhcCCCEEEEEECccCCCCH--------------HHHHHHHHHhh
Confidence            999999999998   7888887 78888888764   479999999999996432              34566667666


Q ss_pred             C-cEEEEecccCccCC
Q 030961          154 A-SYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~-~~~~~~Sa~~~~~i  168 (168)
                      . .+++++||++++||
T Consensus       302 ~~~~v~~iSA~tg~gi  317 (342)
T 1lnz_A          302 DDYPVFPISAVTREGL  317 (342)
T ss_dssp             SCCCBCCCSSCCSSTT
T ss_pred             cCCCEEEEECCCCcCH
Confidence            2 37899999999986

>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=3.2e-22  Score=154.58  Aligned_cols=139  Identities=22%  Similarity=0.212  Sum_probs=99.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCc-cccccc--------ccc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQE-DYNRLR--------PLS   76 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-~~~~~~--------~~~   76 (168)
                      .++|+++|.||+|||||+|+|.+..+  ...+..|..+.....+.+++.  .+.+|||||.. .+....        ..+
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g~--~~~l~DTaG~~~~~~~~ve~~gi~~~~~~  320 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGI--LFRIVDTAGVRSETNDLVERLGIERTLQE  320 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTE--EEEEEESSCCCSSCCTTCCCCCHHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCCe--EEEEEECCCccccchhhHHHHHHHHHHHH
Confidence            48999999999999999999998753  333333333334556667664  57789999987 654322        245


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcE
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASY  156 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (168)
                      ++.+|++++|+|++++.+++..  .+++.+    .+.|+++|+||+|+...            +..++...++. .+. +
T Consensus       321 ~~~aD~vl~VvD~s~~~s~~~~--~il~~l----~~~piivV~NK~DL~~~------------~~~~~~~~~~~-~~~-~  380 (482)
T 1xzp_A          321 IEKADIVLFVLDASSPLDEEDR--KILERI----KNKRYLVVINKVDVVEK------------INEEEIKNKLG-TDR-H  380 (482)
T ss_dssp             HHHCSEEEEEEETTSCCCHHHH--HHHHHH----TTSSEEEEEEECSSCCC------------CCHHHHHHHHT-CST-T
T ss_pred             hhcccEEEEEecCCCCCCHHHH--HHHHHh----cCCCEEEEEECcccccc------------cCHHHHHHHhc-CCC-c
Confidence            6789999999999998877653  343443    36899999999999643            23344444432 334 7


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      ++++||++|+||
T Consensus       381 ~i~iSAktg~Gi  392 (482)
T 1xzp_A          381 MVKISALKGEGL  392 (482)
T ss_dssp             EEEEEGGGTCCH
T ss_pred             EEEEECCCCCCH
Confidence            899999999985

>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=99.87  E-value=2.4e-21  Score=147.33  Aligned_cols=155  Identities=14%  Similarity=0.011  Sum_probs=103.6

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCC---Cceeece----eEEEE------------ECCeEEEEEEEeCC
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYI---PTVFDNF----SANVV------------AEGTTVNLGLWDTA   64 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~---~~~~~~~----~~~~~------------~~~~~~~~~i~D~~   64 (168)
                      ...+.++|+++|++++|||||+++|.+........   .+.....    ...+.            .......+.+||||
T Consensus         4 ~~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtP   83 (403)
T 3sjy_A            4 KVQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAP   83 (403)
T ss_dssp             CCCCCCEEEEECSTTSSHHHHHHHHHSCCCCSSSEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECC
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHHHhCcccccccCccccceeeccccccccceecccccccccccccccccceEEEEECC
Confidence            35578999999999999999999998853321100   0000000    00000            01223788999999


Q ss_pred             CCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHH
Q 030961           65 GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQ  144 (168)
Q Consensus        65 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~  144 (168)
                      |++.|...+...+..+|++++|+|++++.++... .+++..+.... ..|+++++||+|+.......        ...++
T Consensus        84 Gh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt-~~~~~~~~~~~-~~~iivviNK~Dl~~~~~~~--------~~~~~  153 (403)
T 3sjy_A           84 GHEVLMATMLSGAALMDGAILVVAANEPFPQPQT-REHFVALGIIG-VKNLIIVQNKVDVVSKEEAL--------SQYRQ  153 (403)
T ss_dssp             CCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHH-HHHHHHHHHHT-CCCEEEEEECGGGSCHHHHH--------HHHHH
T ss_pred             CcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHH-HHHHHHHHHcC-CCCEEEEEECccccchHHHH--------HHHHH
Confidence            9999998888889999999999999988766665 56666665543 35899999999997653200        11223


Q ss_pred             HHHHHHHhC--CcEEEEecccCccCC
Q 030961          145 GEELRKQIG--ASYYIECSSKTQQVC  168 (168)
Q Consensus       145 ~~~~~~~~~--~~~~~~~Sa~~~~~i  168 (168)
                      ..++...++  ..+++++||++|+||
T Consensus       154 i~~~l~~~~~~~~~ii~vSA~~g~gi  179 (403)
T 3sjy_A          154 IKQFTKGTWAENVPIIPVSALHKINI  179 (403)
T ss_dssp             HHHHHTTSTTTTCCEEECBTTTTBSH
T ss_pred             HHHHHHhhCCCCCEEEEEECCCCcCh
Confidence            333332221  237999999999985

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.86  E-value=3.2e-21  Score=147.94  Aligned_cols=156  Identities=14%  Similarity=0.083  Sum_probs=100.6

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCC--CC-----------------------------CCCCceeeceeEEEEECC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKF--PT-----------------------------DYIPTVFDNFSANVVAEG   53 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~--~~-----------------------------~~~~~~~~~~~~~~~~~~   53 (168)
                      ....++|+++|++++|||||+++|++..-  ..                             ...+.++.+.. ...+..
T Consensus        14 ~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~-~~~~~~   92 (439)
T 3j2k_7           14 KKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVG-RAYFET   92 (439)
T ss_pred             CCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEe-EEEEec
Confidence            34678999999999999999999965421  00                             00111122211 112233


Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhH---HH---HHHHhHHHHHchhCCCCc-EEEEeeCCcccc
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRAS---YE---NVLKKWIPELQHYSPGVP-VVLVGTKLDLRE  126 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s---~~---~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~  126 (168)
                      ....+.+|||||++.|...+...++.+|++++|+|++++..   |.   .. .+.+..+..  .++| +++++||+|+..
T Consensus        93 ~~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt-~e~l~~~~~--~~v~~iIvviNK~Dl~~  169 (439)
T 3j2k_7           93 EKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQT-REHAMLAKT--AGVKHLIVLINKMDDPT  169 (439)
T ss_pred             CCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchH-HHHHHHHHH--cCCCeEEEEeecCCCcc
Confidence            34578899999999998888888999999999999988642   11   11 223333333  3566 999999999964


Q ss_pred             cchhhhcCCCCCcccHHHHHHHHHHhCC-----cEEEEecccCccCC
Q 030961          127 DKHYLADHPGLVPVTTAQGEELRKQIGA-----SYYIECSSKTQQVC  168 (168)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i  168 (168)
                      .....    .......++...+...+++     .+++++||++|+||
T Consensus       170 ~~~~~----~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni  212 (439)
T 3j2k_7          170 VNWSN----ERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANL  212 (439)
T ss_pred             cchHH----HHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCccc
Confidence            21100    0001234455566655553     37999999999986

>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=99.86  E-value=3.9e-22  Score=148.72  Aligned_cols=112  Identities=13%  Similarity=0.145  Sum_probs=85.8

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCC----------hhHHHHHHHhHHHHHchhC--CCCcEEEEeeCC
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVS----------RASYENVLKKWIPELQHYS--PGVPVVLVGTKL  122 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~----------~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~  122 (168)
                      .+.+++||++|++.++..|..+++++++++||||+++          ..++.+. ..|+..+....  .++|++|++||+
T Consensus       192 ~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~-~~~~~~i~~~~~~~~~piiLv~NK~  270 (353)
T 1cip_A          192 DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHES-MKLFDSICNNKWFTDTSIILFLNKK  270 (353)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHH-HHHHHHHHTCGGGTTSEEEEEEECH
T ss_pred             CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHH-HHHHHHHHcCccccCCcEEEEEECc
Confidence            4678899999999999999999999999999999998          5678887 66777666542  689999999999


Q ss_pred             cccccchhh----hcCCC-CCcccHHHHHHHHHH-----------hCCcEEEEecccCccCC
Q 030961          123 DLREDKHYL----ADHPG-LVPVTTAQGEELRKQ-----------IGASYYIECSSKTQQVC  168 (168)
Q Consensus       123 D~~~~~~~~----~~~~~-~~~~~~~~~~~~~~~-----------~~~~~~~~~Sa~~~~~i  168 (168)
                      |+...+...    ...+. ..++..+++..++..           .++ .+++|||++++||
T Consensus       271 DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~-~~~etSA~~~~nV  331 (353)
T 1cip_A          271 DLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEI-YTHFTCATDTKNV  331 (353)
T ss_dssp             HHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCE-EEEECCTTCHHHH
T ss_pred             CchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCce-EEEEEECcCchhH
Confidence            996543100    00000 113677888888872           344 8899999999875

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.86  E-value=4.7e-23  Score=158.10  Aligned_cols=141  Identities=18%  Similarity=0.109  Sum_probs=88.8

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCc--------ccccccccccc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE--------DYNRLRPLSYR   78 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~--------~~~~~~~~~~~   78 (168)
                      .++|+++|.+|||||||+|+|.+.++.. ...+.+.+. .....+......+.+|||||.+        .+...+..+++
T Consensus         3 ~~~V~ivG~~nvGKStL~n~l~~~~~~~-v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   81 (436)
T 2hjg_A            3 KPVVAIVGRPNVGKSTIFNRIAGERISI-VEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMD   81 (436)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHEEEECC------------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcee-ecCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            3689999999999999999999876532 122222222 1222333334568889999986        45556667788


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      ++|++++|+|+.++.+...  ..+...+.+  .+.|+++|+||+|+.....          .    ..++. .+++.+++
T Consensus        82 ~ad~il~vvD~~~~~~~~d--~~~~~~l~~--~~~pvilv~NK~D~~~~~~----------~----~~~~~-~lg~~~~~  142 (436)
T 2hjg_A           82 EADVIIFMVNGREGVTAAD--EEVAKILYR--TKKPVVLAVNKLDNTEMRA----------N----IYDFY-SLGFGEPY  142 (436)
T ss_dssp             HCSEEEEEEETTTCSCHHH--HHHHHHHTT--CCSCEEEEEECCCC---------------C----CCSSG-GGSSCCCE
T ss_pred             hCCEEEEEEeCCCCCCHHH--HHHHHHHHH--cCCCEEEEEECccCccchh----------h----HHHHH-HcCCCCeE
Confidence            9999999999998777654  345555554  5789999999999875421          0    01111 34554789


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|.|+
T Consensus       143 ~iSA~~g~gv  152 (436)
T 2hjg_A          143 PISGTHGLGL  152 (436)
T ss_dssp             ECBTTTTBTH
T ss_pred             EEeCcCCCCh
Confidence            9999999985

>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=99.86  E-value=5.9e-22  Score=147.75  Aligned_cols=114  Identities=13%  Similarity=0.112  Sum_probs=82.8

Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCC----------ChhHHHHHHHhHHHHHchhC--CCCcEEEEeeC
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLV----------SRASYENVLKKWIPELQHYS--PGVPVVLVGTK  121 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~----------~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK  121 (168)
                      ..+.+++|||+|++.++.+|..++++++++++|||++          +..++.+. ..|+..+....  +++|++|++||
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~-~~~~~~i~~~~~~~~~piiLvgNK  259 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMET-KELFDWVLKQPCFEKTSFMLFLNK  259 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHH-HHHHHHHHTCGGGSSCEEEEEEEC
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHH-HHHHHHHHhccccCCCeEEEEEEC
Confidence            5789999999999999999999999999999999998          78899998 67777766542  68999999999


Q ss_pred             Ccccccchhhhc------CCCC-----CcccHHHHHHHHHH---------------hCCcEEEEecccCccCC
Q 030961          122 LDLREDKHYLAD------HPGL-----VPVTTAQGEELRKQ---------------IGASYYIECSSKTQQVC  168 (168)
Q Consensus       122 ~D~~~~~~~~~~------~~~~-----~~~~~~~~~~~~~~---------------~~~~~~~~~Sa~~~~~i  168 (168)
                      +|+..++.....      .+..     .+...+++..++..               .....+++|||++++||
T Consensus       260 ~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV  332 (354)
T 2xtz_A          260 FDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLV  332 (354)
T ss_dssp             HHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHH
T ss_pred             cchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhH
Confidence            999654321000      0000     12245777777543               12235689999999875

>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=99.86  E-value=4.5e-21  Score=147.03  Aligned_cols=154  Identities=14%  Similarity=0.100  Sum_probs=101.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCC--CCC----------CCCceeece-------------------e-EEEEECC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKF--PTD----------YIPTVFDNF-------------------S-ANVVAEG   53 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~--~~~----------~~~~~~~~~-------------------~-~~~~~~~   53 (168)
                      ...++|+++|++++|||||+++|++..-  ...          ..++.+..+                   . .......
T Consensus        22 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~~  101 (434)
T 1zun_B           22 KEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFST  101 (434)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEEC
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEeec
Confidence            4578999999999999999999986531  110          011111000                   0 0111223


Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD  133 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~  133 (168)
                      ....+.+|||||++.|...+...+..+|++++|+|++++...+.  .+++..+... .-.|+++++||+|+.......  
T Consensus       102 ~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt--~~~l~~~~~~-~~~~iIvviNK~Dl~~~~~~~--  176 (434)
T 1zun_B          102 AKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQT--RRHSYIASLL-GIKHIVVAINKMDLNGFDERV--  176 (434)
T ss_dssp             SSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHH--HHHHHHHHHT-TCCEEEEEEECTTTTTSCHHH--
T ss_pred             CCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHH--HHHHHHHHHc-CCCeEEEEEEcCcCCcccHHH--
Confidence            34578899999999998887788999999999999998754333  3444444332 223699999999997532100  


Q ss_pred             CCCCCcccHHHHHHHHHHhC--C--cEEEEecccCccCC
Q 030961          134 HPGLVPVTTAQGEELRKQIG--A--SYYIECSSKTQQVC  168 (168)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~--~--~~~~~~Sa~~~~~i  168 (168)
                          .....++...++..++  .  .+++++||++|+||
T Consensus       177 ----~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi  211 (434)
T 1zun_B          177 ----FESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNV  211 (434)
T ss_dssp             ----HHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTT
T ss_pred             ----HHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCc
Confidence                0013456677777777  2  48999999999986

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.86  E-value=1.8e-23  Score=162.98  Aligned_cols=148  Identities=18%  Similarity=0.163  Sum_probs=102.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      +.++|+++|++++|||||+++|.+..+.....++++..+.. .+..+ ....+.+|||||++.|..++...++.+|++++
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~-~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vIL   81 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLP-SGEKITFLDTPGHAAFSAMRARGTQVTDIVIL   81 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSS-CSSCCBCEECSSSCCTTTSBBSSSBSBSSCEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeC-CCCEEEEEECCChHHHHHHHHHHHccCCEEEE
Confidence            46889999999999999999999876554445555444322 22221 22367789999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHH---HHHh-CCcEEEEec
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL---RKQI-GASYYIECS  161 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~S  161 (168)
                      |+|++++......  +++..+..  .++|+++++||+|+...+.        . ....+...+   +..+ +..+++++|
T Consensus        82 VVDa~dg~~~qt~--e~l~~~~~--~~vPiIVViNKiDl~~~~~--------~-~v~~~l~~~~~~~e~~~~~~~iv~vS  148 (537)
T 3izy_P           82 VVAADDGVMKQTV--ESIQHAKD--AHVPIVLAINKCDKAEADP--------E-KVKKELLAYDVVCEDYGGDVQAVHVS  148 (537)
T ss_dssp             ECBSSSCCCHHHH--HHHHHHHT--TTCCEEECCBSGGGTTTSC--------C-SSSSHHHHTTSCCCCSSSSEEECCCC
T ss_pred             EEECCCCccHHHH--HHHHHHHH--cCCcEEEEEecccccccch--------H-HHHHHHHhhhhhHHhcCCCceEEEEE
Confidence            9999987665543  33333433  4689999999999975422        0 011111111   1122 124799999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|+||
T Consensus       149 AktG~GI  155 (537)
T 3izy_P          149 ALTGENM  155 (537)
T ss_dssp             SSSSCSS
T ss_pred             CCCCCCc
Confidence            9999986

>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=99.86  E-value=3.5e-22  Score=153.18  Aligned_cols=157  Identities=14%  Similarity=0.100  Sum_probs=102.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--CCCCCC-----------------------------CCceeeceeEEEEECC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--KFPTDY-----------------------------IPTVFDNFSANVVAEG   53 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--~~~~~~-----------------------------~~~~~~~~~~~~~~~~   53 (168)
                      ....++|+++|++++|||||+++|++.  .+....                             ....+.... ...++.
T Consensus         3 ~k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~-~~~~~~   81 (435)
T 1jny_A            3 QKPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLT-FMRFET   81 (435)
T ss_dssp             -CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC------------CEEEC
T ss_pred             CCCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEee-EEEEec
Confidence            456799999999999999999999864  232110                             001111111 112333


Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-----CC-CcEEEEeeCCccccc
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-----PG-VPVVLVGTKLDLRED  127 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-----~~-~p~ivv~nK~D~~~~  127 (168)
                      ....+.+|||||++.|...+...++.+|++++|+|+++ .+|+.. ..|..+..++.     .+ .|+++++||+|+...
T Consensus        82 ~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~-~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~  159 (435)
T 1jny_A           82 KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAG-MSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEP  159 (435)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHH-HSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSS
T ss_pred             CCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-Cccccc-cccchHHHHHHHHHHHcCCCeEEEEEEcccCCCc
Confidence            44678889999999998888888999999999999998 666643 22222222111     23 468999999999763


Q ss_pred             chhhhcCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          128 KHYLADHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      ....    .......++++.++..+++    .+++++||++|+||
T Consensus       160 ~~~~----~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v  200 (435)
T 1jny_A          160 PYDE----KRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNI  200 (435)
T ss_dssp             TTCH----HHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTT
T ss_pred             cccH----HHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCccc
Confidence            1000    0001345667788877763    48999999999986

>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=99.86  E-value=2.2e-21  Score=153.02  Aligned_cols=148  Identities=14%  Similarity=0.137  Sum_probs=103.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--CCCCC-----CCCc------eeece---eEEEEE---CCeEEEEEEEeCCC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--KFPTD-----YIPT------VFDNF---SANVVA---EGTTVNLGLWDTAG   65 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--~~~~~-----~~~~------~~~~~---~~~~~~---~~~~~~~~i~D~~g   65 (168)
                      .+...+|+++|+.++|||||+++|+..  .+...     ...+      .+.+.   ...+.+   ++..+.+.+|||||
T Consensus         3 ~~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPG   82 (600)
T 2ywe_A            3 QKNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPG   82 (600)
T ss_dssp             GGGEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCC
T ss_pred             ccCceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCC
Confidence            356789999999999999999999862  11110     0000      01111   111211   45678999999999


Q ss_pred             CccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHH
Q 030961           66 QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQG  145 (168)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  145 (168)
                      +..|...+...++.+|++++|+|++++.+.+.. ..|.....   .++|+++++||+|+...+.            .+..
T Consensus        83 h~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~-~~~~~a~~---~~ipiIvviNKiDl~~a~~------------~~v~  146 (600)
T 2ywe_A           83 HVDFSYEVSRALAACEGALLLIDASQGIEAQTV-ANFWKAVE---QDLVIIPVINKIDLPSADV------------DRVK  146 (600)
T ss_dssp             SGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHH-HHHHHHHH---TTCEEEEEEECTTSTTCCH------------HHHH
T ss_pred             cHhHHHHHHHHHHhCCEEEEEEECCCCccHHHH-HHHHHHHH---CCCCEEEEEeccCccccCH------------HHHH
Confidence            999988888889999999999999998887775 66665544   3689999999999976531            2334


Q ss_pred             HHHHHHhCCc--EEEEecccCccCC
Q 030961          146 EELRKQIGAS--YYIECSSKTQQVC  168 (168)
Q Consensus       146 ~~~~~~~~~~--~~~~~Sa~~~~~i  168 (168)
                      .++...+++.  .++++||++|.||
T Consensus       147 ~el~~~lg~~~~~vi~vSAktg~GI  171 (600)
T 2ywe_A          147 KQIEEVLGLDPEEAILASAKEGIGI  171 (600)
T ss_dssp             HHHHHTSCCCGGGCEECBTTTTBSH
T ss_pred             HHHHHhhCCCcccEEEEEeecCCCc
Confidence            5566666652  4899999999985

>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=99.85  E-value=1.6e-21  Score=140.20  Aligned_cols=155  Identities=13%  Similarity=0.079  Sum_probs=92.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC-CCCCCCCc-eeece-eEEEEECCeEEEEEEEeCCCCccccccccc------
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK-FPTDYIPT-VFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPL------   75 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~-~~~~~~~~-~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~------   75 (168)
                      ....++|+++|.+|+|||||+++|++.. +.....++ .+... ......++  ..+.+|||||...+......      
T Consensus        19 ~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~~~~~~~~~~i~   96 (260)
T 2xtp_A           19 SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWKDHCEALYKEVQ   96 (260)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSSCCCHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCCCCHHHHHHHHH
Confidence            3467899999999999999999999876 44444443 22222 22334444  46778999998765433222      


Q ss_pred             -----cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC---CCCcEEEEee-CCcccccchhhhcCCCCCcccHHHHH
Q 030961           76 -----SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS---PGVPVVLVGT-KLDLREDKHYLADHPGLVPVTTAQGE  146 (168)
Q Consensus        76 -----~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~n-K~D~~~~~~~~~~~~~~~~~~~~~~~  146 (168)
                           .++.+|++++|+|+++.....   ..+...+.+..   ...|.++++| |+|+....... .   ......++++
T Consensus        97 ~~~~~~~~~~d~il~V~d~~~~~~~~---~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~~~~~-~---i~~~~~~~~~  169 (260)
T 2xtp_A           97 RCYLLSAPGPHVLLLVTQLGRYTSQD---QQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGGSLMD-Y---MHDSDNKALS  169 (260)
T ss_dssp             HHHHHHTTCCSEEEEEEETTCCCHHH---HHHHHHHHHHHCGGGGGGEEEEEECGGGGTTCCHHH-H---HHHCCCHHHH
T ss_pred             HHHHhcCCCCcEEEEEEeCCCCCHHH---HHHHHHHHHHhCchhhccEEEEEEcccccCCccHHH-H---HHhcchHHHH
Confidence                 567899999999998622222   22223333321   1356666666 99997442100 0   0000013455


Q ss_pred             HHHHHhCCcE--E--EEecccCccCC
Q 030961          147 ELRKQIGASY--Y--IECSSKTQQVC  168 (168)
Q Consensus       147 ~~~~~~~~~~--~--~~~Sa~~~~~i  168 (168)
                      .++...+...  +  +++||++|.||
T Consensus       170 ~~~~~~~~~~~~~~~~~~SA~~~~gv  195 (260)
T 2xtp_A          170 KLVAACGGRICAFNNRAEGSNQDDQV  195 (260)
T ss_dssp             HHHHHTTTCEEECCTTCCHHHHHHHH
T ss_pred             HHHHHhCCeEEEecCcccccccHHHH
Confidence            5666665421  3  78999988764

>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=99.85  E-value=7.5e-21  Score=144.76  Aligned_cols=151  Identities=15%  Similarity=0.101  Sum_probs=93.4

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCC---CCCCCCC--ceeeceeE-EEEE-------------C--C----eEEEE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNK---FPTDYIP--TVFDNFSA-NVVA-------------E--G----TTVNL   58 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~---~~~~~~~--~~~~~~~~-~~~~-------------~--~----~~~~~   58 (168)
                      ...+.++|+++|+.++|||||+++|.+..   +.....+  |+...+.. ....             +  +    ....+
T Consensus         4 ~r~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i   83 (408)
T 1s0u_A            4 GSQAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRV   83 (408)
T ss_dssp             -CCCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEE
T ss_pred             ccCCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEE
Confidence            34567999999999999999999998542   3333333  33323321 1111             1  1    23789


Q ss_pred             EEEeCCCCccccccccccccCCcEEEEEEeCCCh----hHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcC
Q 030961           59 GLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSR----ASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADH  134 (168)
Q Consensus        59 ~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~----~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~  134 (168)
                      .+|||||++.|...+...+..+|++++|+|++++    .+++.+     ..+... ...|+++++||+|+.....     
T Consensus        84 ~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l-----~~~~~l-~~~~iivv~NK~Dl~~~~~-----  152 (408)
T 1s0u_A           84 SFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHL-----MALEIL-GIDKIIIVQNKIDLVDEKQ-----  152 (408)
T ss_dssp             EEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHH-----HHHHHT-TCCCEEEEEECTTSSCTTT-----
T ss_pred             EEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHH-----HHHHHc-CCCeEEEEEEccCCCCHHH-----
Confidence            9999999999888777778899999999999854    444433     222221 2358999999999976532     


Q ss_pred             CCCCcccHHHHHHHHHHh--CCcEEEEecccCccCC
Q 030961          135 PGLVPVTTAQGEELRKQI--GASYYIECSSKTQQVC  168 (168)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~i  168 (168)
                         .....++.++++..+  ...+++++||++|+||
T Consensus       153 ---~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi  185 (408)
T 1s0u_A          153 ---AEENYEQIKEFVKGTIAENAPIIPISAHHEANI  185 (408)
T ss_dssp             ---TTTHHHHHHHHHTTSTTTTCCEEEC------CH
T ss_pred             ---HHHHHHHHHHHHhhcCCCCCeEEEeeCCCCCCH
Confidence               012345666666543  2238999999999985

>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=99.85  E-value=7e-21  Score=146.76  Aligned_cols=154  Identities=13%  Similarity=0.091  Sum_probs=101.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--CCCCC------------------C-----------CCceeeceeEEEEECC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--KFPTD------------------Y-----------IPTVFDNFSANVVAEG   53 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--~~~~~------------------~-----------~~~~~~~~~~~~~~~~   53 (168)
                      ....++|+++|++++|||||+++|++.  .+...                  +           ...++.... ...++.
T Consensus         4 ~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~-~~~~~~   82 (458)
T 1f60_A            4 EKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIA-LWKFET   82 (458)
T ss_dssp             CCEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCS-CEEEEC
T ss_pred             CCceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEE-EEEEec
Confidence            346799999999999999999999864  12110                  0           001111111 112333


Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChh---HHH---HHHHhHHHHHchhCCCCc-EEEEeeCCcccc
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRA---SYE---NVLKKWIPELQHYSPGVP-VVLVGTKLDLRE  126 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~~---~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~  126 (168)
                      ....+.+|||||++.|...+...++.+|++++|+|++++.   +|+   .. .+++..+..  .++| +++++||+|+..
T Consensus        83 ~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt-~~~~~~~~~--~~v~~iivviNK~Dl~~  159 (458)
T 1f60_A           83 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQT-REHALLAFT--LGVRQLIVAVNKMDSVK  159 (458)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHH-HHHHHHHHH--TTCCEEEEEEECGGGGT
T ss_pred             CCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhH-HHHHHHHHH--cCCCeEEEEEEcccccc
Confidence            4467889999999999888888899999999999998764   221   22 223333332  3565 899999999974


Q ss_pred             cchhhhcCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          127 DKHYLADHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      .....      .....++...++..+++    .+++++||++|+||
T Consensus       160 ~~~~~------~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv  199 (458)
T 1f60_A          160 WDESR------FQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNM  199 (458)
T ss_dssp             TCHHH------HHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTT
T ss_pred             CCHHH------HHHHHHHHHHHHHHcCCCccCceEEEeecccCcCc
Confidence            21100      00234566777777764    48999999999986

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.85  E-value=1.8e-21  Score=153.71  Aligned_cols=146  Identities=16%  Similarity=0.160  Sum_probs=100.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC--CCCC-----CCC------ceeecee---EEEEE---CCeEEEEEEEeCCCCc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNK--FPTD-----YIP------TVFDNFS---ANVVA---EGTTVNLGLWDTAGQE   67 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~--~~~~-----~~~------~~~~~~~---~~~~~---~~~~~~~~i~D~~g~~   67 (168)
                      ...+|+++|+.++|||||+++|+...  +...     ...      ..+.+..   ..+..   ++..+.+.+|||||+.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            46799999999999999999998632  1110     000      0111111   11212   4567899999999999


Q ss_pred             cccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH
Q 030961           68 DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE  147 (168)
Q Consensus        68 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  147 (168)
                      .|...+...++.+|++++|+|++++.+.... ..|...+.   .++|+++++||+|+...+            ..+...+
T Consensus        83 dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~-~~~~~~~~---~~ipiIvViNKiDl~~a~------------~~~v~~e  146 (599)
T 3cb4_D           83 DFSYEVSRSLAACEGALLVVDAGQGVEAQTL-ANCYTAME---MDLEVVPVLNKIDLPAAD------------PERVAEE  146 (599)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCCCTHHH-HHHHHHHH---TTCEEEEEEECTTSTTCC------------HHHHHHH
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHH-HHHHHHHH---CCCCEEEeeeccCccccc------------HHHHHHH
Confidence            9998888999999999999999998777765 56665554   368999999999997653            2333455


Q ss_pred             HHHHhCCc--EEEEecccCccCC
Q 030961          148 LRKQIGAS--YYIECSSKTQQVC  168 (168)
Q Consensus       148 ~~~~~~~~--~~~~~Sa~~~~~i  168 (168)
                      +...+++.  .++++||++|.||
T Consensus       147 i~~~lg~~~~~vi~vSAktg~GI  169 (599)
T 3cb4_D          147 IEDIVGIDATDAVRCSAKTGVGV  169 (599)
T ss_dssp             HHHHTCCCCTTCEEECTTTCTTH
T ss_pred             HHHHhCCCcceEEEeecccCCCc
Confidence            66666652  4899999999985

>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=99.85  E-value=2.7e-21  Score=149.77  Aligned_cols=147  Identities=19%  Similarity=0.126  Sum_probs=98.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC-------CCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCcccccccccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK-------FPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLS   76 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~-------~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~   76 (168)
                      ..+.++|+++|+.++|||||+++|.+..       +.....+.++... ...+..++  ..+.+|||||++.|...+...
T Consensus        16 ~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~~~~~~~~~   93 (482)
T 1wb1_A           16 DFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSA   93 (482)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHHHHHHHHHH
Confidence            3467999999999999999999999765       1222222222221 11233344  578889999999988888888


Q ss_pred             ccCCcEEEEEEeCCC---hhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh-
Q 030961           77 YRGADVFVLAFSLVS---RASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI-  152 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  152 (168)
                      +..+|++++|+|+++   +.+.+.+     ..+..  .++|.++++||+|+......        ....++..+++... 
T Consensus        94 ~~~aD~~ilVvda~~g~~~qt~e~l-----~~~~~--~~ip~IvviNK~Dl~~~~~~--------~~~~~~l~~~l~~~~  158 (482)
T 1wb1_A           94 ADIIDLALIVVDAKEGPKTQTGEHM-----LILDH--FNIPIIVVITKSDNAGTEEI--------KRTEMIMKSILQSTH  158 (482)
T ss_dssp             TTSCCEEEEEEETTTCSCHHHHHHH-----HHHHH--TTCCBCEEEECTTSSCHHHH--------HHHHHHHHHHHHHSS
T ss_pred             HhhCCEEEEEEecCCCccHHHHHHH-----HHHHH--cCCCEEEEEECCCcccchhH--------HHHHHHHHHHHhhhc
Confidence            899999999999988   4444433     23333  35888999999999754220        02345566666554 


Q ss_pred             C--CcEEEEecccCccCC
Q 030961          153 G--ASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ~--~~~~~~~Sa~~~~~i  168 (168)
                      +  ..+++++||++|+||
T Consensus       159 ~~~~~~ii~vSA~~g~gI  176 (482)
T 1wb1_A          159 NLKNSSIIPISAKTGFGV  176 (482)
T ss_dssp             SGGGCCEEECCTTTCTTH
T ss_pred             ccccceEEEEECcCCCCH
Confidence            2  238999999999985

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.85  E-value=2.1e-22  Score=151.00  Aligned_cols=147  Identities=14%  Similarity=0.143  Sum_probs=82.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC-CCCCCC--------Cceeece-eEEEEECCeEEEEEEEeCCCC-------ccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNK-FPTDYI--------PTVFDNF-SANVVAEGTTVNLGLWDTAGQ-------EDY   69 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~-~~~~~~--------~~~~~~~-~~~~~~~~~~~~~~i~D~~g~-------~~~   69 (168)
                      ..++|+++|++|+|||||+++|++.. +...+.        ++.+..+ ...+..++..+.+.+|||||.       +.+
T Consensus        36 ~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~  115 (361)
T 2qag_A           36 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCF  115 (361)
T ss_dssp             CEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHH
Confidence            46899999999999999999987643 322221        3333332 222334566788999999998       666


Q ss_pred             ccccc-------ccccCCc-----------EEEEEEeCCC-hhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchh
Q 030961           70 NRLRP-------LSYRGAD-----------VFVLAFSLVS-RASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHY  130 (168)
Q Consensus        70 ~~~~~-------~~~~~~~-----------~~i~v~d~~~-~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~  130 (168)
                      ..++.       .+++.++           +.+++|++++ ..++..+...|++.+.   .++|+++|+||+|+...+. 
T Consensus       116 ~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l~---~~~piIlV~NK~Dl~~~~e-  191 (361)
T 2qag_A          116 KTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAIH---NKVNIVPVIAKADTLTLKE-  191 (361)
T ss_dssp             CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHTC---S-SCEEEEEECCSSSCHHH-
T ss_pred             HHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHhc---cCCCEEEEEECCCCCCHHH-
Confidence            66654       4443322           2234454443 4555555345666553   5789999999999986654 


Q ss_pred             hhcCCCCCcccH--HHHHHHHHHhCCcEEEEecccCccC
Q 030961          131 LADHPGLVPVTT--AQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus       131 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                               +..  +++..++..+++ +++++||++|.|
T Consensus       192 ---------v~~~k~~i~~~~~~~~i-~~~~~Sa~~~~~  220 (361)
T 2qag_A          192 ---------RERLKKRILDEIEEHNI-KIYHLPDAESDE  220 (361)
T ss_dssp             ---------HHHHHHHHHHHTTCC-C-CSCCCC------
T ss_pred             ---------HHHHHHHHHHHHHHCCC-CEEeCCCcCCCc
Confidence                     333  567777777887 899999998865

>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=1.5e-20  Score=144.37  Aligned_cols=146  Identities=21%  Similarity=0.196  Sum_probs=93.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC--CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccc-----------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLR-----------   73 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-----------   73 (168)
                      ..++++++|++|||||||+|+|.+...  .....++..+.....+.+++.  .+.+|||+|........           
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~~  256 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNYR  256 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHHH
Confidence            468999999999999999999998764  222223322233456667776  45679999975433221           


Q ss_pred             -cccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHH-HHHHH
Q 030961           74 -PLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGE-ELRKQ  151 (168)
Q Consensus        74 -~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  151 (168)
                       ...++.+|++++|+|+.++.+...  ..+...+..  .+.|+++++||+|+...+.          ...++.. .+.+.
T Consensus       257 ~~~~i~~ad~vllv~d~~~~~~~~~--~~i~~~l~~--~~~~~ilv~NK~Dl~~~~~----------~~~~~~~~~~~~~  322 (439)
T 1mky_A          257 VVDSIEKADVVVIVLDATQGITRQD--QRMAGLMER--RGRASVVVFNKWDLVVHRE----------KRYDEFTKLFREK  322 (439)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHH--HHHHHHHHH--TTCEEEEEEECGGGSTTGG----------GCHHHHHHHHHHH
T ss_pred             HHHHHhhCCEEEEEEeCCCCCCHHH--HHHHHHHHH--cCCCEEEEEECccCCCchh----------hHHHHHHHHHHHH
Confidence             123567899999999988766654  234444444  4789999999999976432          2233322 22222


Q ss_pred             h---CCcEEEEecccCccCC
Q 030961          152 I---GASYYIECSSKTQQVC  168 (168)
Q Consensus       152 ~---~~~~~~~~Sa~~~~~i  168 (168)
                      +   +..+++++||++|.||
T Consensus       323 ~~~~~~~~~~~~SA~~g~gv  342 (439)
T 1mky_A          323 LYFIDYSPLIFTSADKGWNI  342 (439)
T ss_dssp             CGGGTTSCEEECBTTTTBSH
T ss_pred             hccCCCCcEEEEECCCCCCH
Confidence            2   2348999999999985

>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=99.85  E-value=5.5e-21  Score=135.78  Aligned_cols=150  Identities=17%  Similarity=0.138  Sum_probs=90.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCC--ceeece-eEEEEECCeEEEEEEEeCCCCc-----------ccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIP--TVFDNF-SANVVAEGTTVNLGLWDTAGQE-----------DYN   70 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~--~~~~~~-~~~~~~~~~~~~~~i~D~~g~~-----------~~~   70 (168)
                      ....++|+++|.+|+|||||+++|++..+.....+  +.+... ......++.  .+.+|||||..           .+.
T Consensus        26 ~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~i~liDTpG~~~~~~~~~~~~~~~~  103 (239)
T 3lxx_A           26 RNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKET--ELVVVDTPGIFDTEVPNAETSKEII  103 (239)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETTE--EEEEEECCSCC-----CHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCCc--eEEEEECCCccCCCCCHHHHHHHHH
Confidence            34679999999999999999999999877554444  222222 223445554  56779999943           333


Q ss_pred             ccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH
Q 030961           71 RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE  147 (168)
Q Consensus        71 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  147 (168)
                      ..+...++++|++++|+|+++.....   ..++..+....   ...|+++|+||+|+........    ......+.++.
T Consensus       104 ~~~~~~~~~~~~~l~v~d~~~~~~~~---~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~~~----~i~~~~~~l~~  176 (239)
T 3lxx_A          104 RCILLTSPGPHALLLVVPLGRYTEEE---HKATEKILKMFGERARSFMILIFTRKDDLGDTNLHD----YLREAPEDIQD  176 (239)
T ss_dssp             HHHHHTTTCCSEEEEEEETTCCSSHH---HHHHHHHHHHHHHHHGGGEEEEEECGGGC----------------CHHHHH
T ss_pred             HHHHhcCCCCcEEEEEeeCCCCCHHH---HHHHHHHHHHhhhhccceEEEEEeCCccCCcccHHH----HHHhchHHHHH
Confidence            44444567889999999987543321   22333332211   2469999999999876533000    00011246788


Q ss_pred             HHHHhCCcEEEEecccC
Q 030961          148 LRKQIGASYYIECSSKT  164 (168)
Q Consensus       148 ~~~~~~~~~~~~~Sa~~  164 (168)
                      +.+..+. .|+.+++..
T Consensus       177 l~~~~~~-~~~~~~~~~  192 (239)
T 3lxx_A          177 LMDIFGD-RYCALNNKA  192 (239)
T ss_dssp             HHHHHSS-SEEECCTTC
T ss_pred             HHHHcCC-EEEEEECCC
Confidence            8888887 676666553

>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=99.84  E-value=1.1e-21  Score=151.04  Aligned_cols=139  Identities=20%  Similarity=0.269  Sum_probs=89.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeec-eeEEEEECCeEEEEEEEeCCCCcccccccc--------cc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDN-FSANVVAEGTTVNLGLWDTAGQEDYNRLRP--------LS   76 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~--------~~   76 (168)
                      ..++|+++|.+|+|||||+|+|.+..+. ....+..+.+ ....+.+++.  .+.+|||||...+...++        ..
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~--~v~liDT~G~~~~~~~ve~~gi~~~~~~  300 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGGI--PVQVLDTAGIRETSDQVEKIGVERSRQA  300 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETTE--EEEECC--------------------CC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECCE--EEEEEECCccccchhHHHHHHHHHHhhh
Confidence            4679999999999999999999986432 2222333333 3445666764  467799999866543322        35


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcE
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASY  156 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (168)
                      ++.+|++++|+|++++.+...  ..|+..+..    .|+++|+||+|+.....          ..  ..+.+.  .+. +
T Consensus       301 ~~~aD~vl~VvD~s~~~~~~~--~~i~~~l~~----~piivV~NK~Dl~~~~~----------~~--~~~~~~--~~~-~  359 (462)
T 3geh_A          301 ANTADLVLLTIDAATGWTTGD--QEIYEQVKH----RPLILVMNKIDLVEKQL----------IT--SLEYPE--NIT-Q  359 (462)
T ss_dssp             CCSCSEEEEEEETTTCSCHHH--HHHHHHHTT----SCEEEEEECTTSSCGGG----------ST--TCCCCT--TCC-C
T ss_pred             hhcCCEEEEEeccCCCCCHHH--HHHHHhccC----CcEEEEEECCCCCcchh----------hH--HHHHhc--cCC-c
Confidence            788999999999999877665  456666643    79999999999976643          11  111111  233 7


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      ++++||++|+||
T Consensus       360 ~i~iSAktg~Gi  371 (462)
T 3geh_A          360 IVHTAAAQKQGI  371 (462)
T ss_dssp             EEEEBTTTTBSH
T ss_pred             EEEEECCCCCCH
Confidence            999999999985

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.84  E-value=2.9e-21  Score=139.91  Aligned_cols=151  Identities=13%  Similarity=0.095  Sum_probs=85.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCC-CCCC-------CCceeece-eEEEEECCeEEEEEEEeCCCCccc------
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKF-PTDY-------IPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDY------   69 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~-~~~~-------~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~------   69 (168)
                      +...++|+++|.+|+|||||+|++++... ...+       .+|.+... ...+..++..+.+.+|||||....      
T Consensus         5 ~g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~   84 (274)
T 3t5d_A            5 SGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNC   84 (274)
T ss_dssp             --CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTT
T ss_pred             CccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhh
Confidence            44579999999999999999999877654 3332       34444333 233444566679999999997322      


Q ss_pred             -cccc-------cccc-------------cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           70 -NRLR-------PLSY-------------RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        70 -~~~~-------~~~~-------------~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                       ..+.       ..++             ..+|+++++++.++.. +......+++.+..   ++|+++|+||+|+....
T Consensus        85 ~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~-~~~~d~~~l~~l~~---~~pvi~V~nK~D~~~~~  160 (274)
T 3t5d_A           85 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHG-LKPLDIEFMKRLHE---KVNIIPLIAKADTLTPE  160 (274)
T ss_dssp             THHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSS-CCHHHHHHHHHHTT---TSCEEEEESSGGGSCHH
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCC-CCHHHHHHHHHHhc---cCCEEEEEeccCCCCHH
Confidence             1111       1111             2377899988765422 11222456666665   68999999999986543


Q ss_pred             hhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961          129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      ..        ....+...+.....++ +++++||++++|+
T Consensus       161 e~--------~~~~~~i~~~l~~~~i-~v~~~sa~~~~~~  191 (274)
T 3t5d_A          161 EC--------QQFKKQIMKEIQEHKI-KIYEFPETDDEEE  191 (274)
T ss_dssp             HH--------HHHHHHHHHHHHHTTC-CCCCC--------
T ss_pred             HH--------HHHHHHHHHHHHHcCC-eEEcCCCCCChhH
Confidence            20        0122345555566777 7889999998875

>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=99.84  E-value=4.8e-21  Score=141.13  Aligned_cols=112  Identities=16%  Similarity=0.144  Sum_probs=84.1

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCC----------ChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCC
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLV----------SRASYENVLKKWIPELQHYS--PGVPVVLVGTKL  122 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~----------~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~  122 (168)
                      .+.+++||++|++.++.+|..++++++++++|||++          +..++.+. ..|+..+....  .+.|++|++||+
T Consensus       166 ~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es-~~~~~~i~~~~~~~~~~iiL~~NK~  244 (327)
T 3ohm_A          166 SVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEES-KALFRTIITYPWFQNSSVILFLNKK  244 (327)
T ss_dssp             TEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHH-HHHHHHHHTSGGGTTCEEEEEEECH
T ss_pred             ceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHH-HHHHHHHhhhhccCCceEEEEEECc
Confidence            477889999999999999999999999999999654          67788887 55666655432  689999999999


Q ss_pred             cccccchhhh------cCCCCCcccHHHHHHHH----------HHhCCcEEEEecccCccCC
Q 030961          123 DLREDKHYLA------DHPGLVPVTTAQGEELR----------KQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       123 D~~~~~~~~~------~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~Sa~~~~~i  168 (168)
                      |+..++....      +.........+++.++.          ...++ .+++|||+++.||
T Consensus       245 DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i-~~~~TsA~d~~nV  305 (327)
T 3ohm_A          245 DLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKII-YSHFTCATDTENI  305 (327)
T ss_dssp             HHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCE-EEEECCTTCHHHH
T ss_pred             hhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCc-EEEEEEeecCHHH
Confidence            9976542110      11112246788888884          33454 7889999998875

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.84  E-value=7.2e-21  Score=147.01  Aligned_cols=156  Identities=17%  Similarity=0.100  Sum_probs=87.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--CCCC----------------------CCC-------Cceeecee-EEEEEC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--KFPT----------------------DYI-------PTVFDNFS-ANVVAE   52 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--~~~~----------------------~~~-------~~~~~~~~-~~~~~~   52 (168)
                      ....++|+++|+.++|||||+++|+..  .+..                      ..+       ..++.... ..+..+
T Consensus        40 ~k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~  119 (467)
T 1r5b_A           40 GKEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETE  119 (467)
T ss_dssp             CCEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECS
T ss_pred             CCCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecC
Confidence            346789999999999999999999752  1210                      000       00011110 112223


Q ss_pred             CeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChh---HHHHH--HHhHHHHHchhCCCCc-EEEEeeCCcccc
Q 030961           53 GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRA---SYENV--LKKWIPELQHYSPGVP-VVLVGTKLDLRE  126 (168)
Q Consensus        53 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~~~~--~~~~~~~l~~~~~~~p-~ivv~nK~D~~~  126 (168)
                        ...+.+|||||++.|...+...++.+|++++|+|++++.   +|+..  ..+.+..+..  .++| +++++||+|+..
T Consensus       120 --~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~--~~vp~iivviNK~Dl~~  195 (467)
T 1r5b_A          120 --HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLART--QGINHLVVVINKMDEPS  195 (467)
T ss_dssp             --SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHH--TTCSSEEEEEECTTSTT
T ss_pred             --CeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHH--cCCCEEEEEEECccCCC
Confidence              356788999999999988888899999999999999863   33211  0122222222  3577 999999999964


Q ss_pred             cchhhhcCCCCCcccHHHHHHHHHHh-CC-----cEEEEecccCccCC
Q 030961          127 DKHYLADHPGLVPVTTAQGEELRKQI-GA-----SYYIECSSKTQQVC  168 (168)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-----~~~~~~Sa~~~~~i  168 (168)
                      .....    .......++...++... ++     .+++++||++|+||
T Consensus       196 ~~~~~----~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i  239 (467)
T 1r5b_A          196 VQWSE----ERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNV  239 (467)
T ss_dssp             CSSCH----HHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTT
T ss_pred             ccccH----HHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccc
Confidence            21000    00012345566777665 42     37999999999986

>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=99.84  E-value=5.1e-21  Score=145.55  Aligned_cols=152  Identities=19%  Similarity=0.145  Sum_probs=104.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--------CCCCC--CCC-----ceeece-eEEEEECCeEEEEEEEeCCCCcc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--------KFPTD--YIP-----TVFDNF-SANVVAEGTTVNLGLWDTAGQED   68 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--------~~~~~--~~~-----~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~   68 (168)
                      ....++|+++|++++|||||+++|.+.        .+...  .+.     +.+... .....++.....+.+|||||++.
T Consensus         8 ~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~   87 (405)
T 2c78_A            8 TKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHAD   87 (405)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGG
T ss_pred             CCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHH
Confidence            456789999999999999999999873        11110  000     111111 12233444456778899999999


Q ss_pred             ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHH
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE  147 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  147 (168)
                      |...+...++.+|++++|+|++++.....  .+++..+..  .++| +++++||+|+.......       ....++...
T Consensus        88 f~~~~~~~~~~aD~~ilVvda~~g~~~qt--~~~l~~~~~--~~ip~iivviNK~Dl~~~~~~~-------~~~~~~~~~  156 (405)
T 2c78_A           88 YIKNMITGAAQMDGAILVVSAADGPMPQT--REHILLARQ--VGVPYIVVFMNKVDMVDDPELL-------DLVEMEVRD  156 (405)
T ss_dssp             GHHHHHHHHTTCSSEEEEEETTTCCCHHH--HHHHHHHHH--TTCCCEEEEEECGGGCCCHHHH-------HHHHHHHHH
T ss_pred             HHHHHHHHHHHCCEEEEEEECCCCCcHHH--HHHHHHHHH--cCCCEEEEEEECccccCcHHHH-------HHHHHHHHH
Confidence            98888888999999999999988765433  455555554  3578 89999999997532100       023346677


Q ss_pred             HHHHhCC----cEEEEecccCccC
Q 030961          148 LRKQIGA----SYYIECSSKTQQV  167 (168)
Q Consensus       148 ~~~~~~~----~~~~~~Sa~~~~~  167 (168)
                      ++..+++    .+++++||++|.|
T Consensus       157 ~l~~~~~~~~~~~~i~~SA~~g~~  180 (405)
T 2c78_A          157 LLNQYEFPGDEVPVIRGSALLALE  180 (405)
T ss_dssp             HHHHTTSCTTTSCEEECCHHHHHH
T ss_pred             HHHHhcccccCCCEEEccHHHhhh
Confidence            7777763    4899999999876

>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=99.83  E-value=2.4e-20  Score=142.07  Aligned_cols=150  Identities=15%  Similarity=0.092  Sum_probs=98.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC---CCCCCCC--ceeeceeE-EEEE-------------C--C----eEEEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK---FPTDYIP--TVFDNFSA-NVVA-------------E--G----TTVNLG   59 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~---~~~~~~~--~~~~~~~~-~~~~-------------~--~----~~~~~~   59 (168)
                      ..+.++|+++|+.++|||||+++|.+..   +.....+  |+...+.. ....             +  +    ....+.
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            4567999999999999999999998542   2222223  33222321 1111             1  1    137899


Q ss_pred             EEeCCCCccccccccccccCCcEEEEEEeCCCh----hHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCC
Q 030961           60 LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSR----ASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHP  135 (168)
Q Consensus        60 i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~----~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  135 (168)
                      +|||||++.|...+...+..+|++++|+|++++    .+.+.+     ..+... ...|+++++||+|+......     
T Consensus        87 iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l-----~~~~~~-~~~~iivviNK~Dl~~~~~~-----  155 (410)
T 1kk1_A           87 FIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHL-----MALQII-GQKNIIIAQNKIELVDKEKA-----  155 (410)
T ss_dssp             EEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHH-----HHHHHH-TCCCEEEEEECGGGSCHHHH-----
T ss_pred             EEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHH-----HHHHHc-CCCcEEEEEECccCCCHHHH-----
Confidence            999999999887777778889999999999864    344333     222222 23589999999999765320     


Q ss_pred             CCCcccHHHHHHHHHHh--CCcEEEEecccCccCC
Q 030961          136 GLVPVTTAQGEELRKQI--GASYYIECSSKTQQVC  168 (168)
Q Consensus       136 ~~~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~i  168 (168)
                         ....++.+++....  ...+++++||++|+||
T Consensus       156 ---~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi  187 (410)
T 1kk1_A          156 ---LENYRQIKEFIEGTVAENAPIIPISALHGANI  187 (410)
T ss_dssp             ---HHHHHHHHHHHTTSTTTTCCEEECBTTTTBSH
T ss_pred             ---HHHHHHHHHHHHhcCcCCCeEEEeeCCCCCCH
Confidence               01234455555431  2238999999999985

>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=99.83  E-value=7e-22  Score=152.38  Aligned_cols=142  Identities=18%  Similarity=0.102  Sum_probs=90.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCC--------Cccccccccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAG--------QEDYNRLRPLSY   77 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g--------~~~~~~~~~~~~   77 (168)
                      ...+|+++|.+|||||||+|+|.+.++... ..+.+.+. .....+......+.+|||||        ++.+...+..++
T Consensus        22 ~~~~V~lvG~~nvGKSTL~n~l~~~~~~~v-~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~  100 (456)
T 4dcu_A           22 GKPVVAIVGRPNVGKSTIFNRIAGERISIV-EDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAM  100 (456)
T ss_dssp             -CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCccc-CCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhH
Confidence            467999999999999999999998765321 22223232 22334444556788899999        556666677778


Q ss_pred             cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEE
Q 030961           78 RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYY  157 (168)
Q Consensus        78 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (168)
                      +.+|++++|+|..++.+...  ..+...+.+  .+.|+++|+||+|+.....              ...++ ...+....
T Consensus       101 ~~ad~il~VvD~~~~~~~~d--~~l~~~l~~--~~~pvilV~NK~D~~~~~~--------------~~~e~-~~lg~~~~  161 (456)
T 4dcu_A          101 DEADVIIFMVNGREGVTAAD--EEVAKILYR--TKKPVVLAVNKLDNTEMRA--------------NIYDF-YSLGFGEP  161 (456)
T ss_dssp             HHCSEEEEEEESSSCSCHHH--HHHHHHHTT--CCSCEEEEEECC-----------------------CCS-GGGSSSSE
T ss_pred             hhCCEEEEEEeCCCCCChHH--HHHHHHHHH--cCCCEEEEEECccchhhhh--------------hHHHH-HHcCCCce
Confidence            89999999999877544433  345555554  5799999999999864321              01111 12344356


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|.|+
T Consensus       162 ~~iSA~~g~gv  172 (456)
T 4dcu_A          162 YPISGTHGLGL  172 (456)
T ss_dssp             EECCTTTCTTH
T ss_pred             EEeecccccch
Confidence            79999999885

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.83  E-value=8e-20  Score=144.97  Aligned_cols=154  Identities=12%  Similarity=0.069  Sum_probs=99.2

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCC-------------------------------CceeeceeEEEEECCe
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYI-------------------------------PTVFDNFSANVVAEGT   54 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~-------------------------------~~~~~~~~~~~~~~~~   54 (168)
                      ...++|+++|++++|||||+++|++........                               +.++... ....+...
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~-~~~~~~~~  243 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSI-CTSHFSTH  243 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSC-SCCEEECS
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEee-eeEEEecC
Confidence            457899999999999999999998763211100                               0111111 11122233


Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhH---H---HHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRAS---Y---ENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s---~---~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                      ...+.+|||||++.|...+...++.+|++++|+|++++..   +   ... .+.+..+... ...|++||+||+|+...+
T Consensus       244 ~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt-~e~l~~~~~l-gi~~iIVVvNKiDl~~~~  321 (611)
T 3izq_1          244 RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQT-KEHMLLASSL-GIHNLIIAMNKMDNVDWS  321 (611)
T ss_dssp             SCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHH-HHHHHHHHTT-TCCEEEEEEECTTTTTTC
T ss_pred             CceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHH-HHHHHHHHHc-CCCeEEEEEecccccchh
Confidence            4578889999999999888899999999999999987531   0   111 2222222221 224599999999997632


Q ss_pred             hhhhcCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          129 HYLADHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      ....      ....++...+....+.    .+++++||++|+||
T Consensus       322 ~~~~------~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI  359 (611)
T 3izq_1          322 QQRF------EEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGV  359 (611)
T ss_dssp             HHHH------HHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTT
T ss_pred             HHHH------HHHHHHHHHHHHhhcccccCccEEeeecccCCCc
Confidence            2000      0223445555555553    48999999999986

>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=99.83  E-value=7.4e-20  Score=137.14  Aligned_cols=148  Identities=17%  Similarity=0.082  Sum_probs=94.7

Q ss_pred             eeE-EEEECCCCCCHHHHHHHHhcCCCCCCCCCceeec-eeEEEEECCeEEEEEEEeCCCCcc---------cccccccc
Q 030961            8 FIK-CVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDN-FSANVVAEGTTVNLGLWDTAGQED---------YNRLRPLS   76 (168)
Q Consensus         8 ~~~-i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~~   76 (168)
                      .++ |+++|.+|+|||||+|+|.+..+.....+..+.+ ....+.+++  ..+.+|||+|...         +.... ..
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~tl-~~  254 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVTL-SE  254 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHHH-HG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHHH-HH
Confidence            344 9999999999999999999876532222222222 345666777  4567899999622         22222 24


Q ss_pred             ccCCcEEEEEEeCCChh--HHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh-
Q 030961           77 YRGADVFVLAFSLVSRA--SYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI-  152 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~--s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  152 (168)
                      +..+|++++|+|++++.  ..... ..|...+.... .+.|+++|+||+|+.....         ....+.+..++..+ 
T Consensus       255 ~~~aD~il~VvD~s~~~~~~~~~~-~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~---------~~~~~~~~~l~~~l~  324 (364)
T 2qtf_A          255 AKYSDALILVIDSTFSENLLIETL-QSSFEILREIGVSGKPILVTLNKIDKINGDL---------YKKLDLVEKLSKELY  324 (364)
T ss_dssp             GGGSSEEEEEEETTSCHHHHHHHH-HHHHHHHHHHTCCSCCEEEEEECGGGCCSCH---------HHHHHHHHHHHHHHC
T ss_pred             HHhCCEEEEEEECCCCcchHHHHH-HHHHHHHHHhCcCCCCEEEEEECCCCCCchH---------HHHHHHHHHHHHHhc
Confidence            67899999999998876  44443 55666666554 5789999999999865421         01122344455555 


Q ss_pred             C-CcEEEEecccCccCC
Q 030961          153 G-ASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ~-~~~~~~~Sa~~~~~i  168 (168)
                      . ..+++++||++|+|+
T Consensus       325 ~~~~~~~~~SA~~g~gi  341 (364)
T 2qtf_A          325 SPIFDVIPISALKRTNL  341 (364)
T ss_dssp             SCEEEEEECBTTTTBSH
T ss_pred             CCCCcEEEEECCCCcCH
Confidence            2 236899999999984

>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=99.83  E-value=1.6e-20  Score=142.53  Aligned_cols=149  Identities=19%  Similarity=0.137  Sum_probs=100.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC-------CCCC--C-------CCceeeceeEEEEECCeEEEEEEEeCCCCcccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNK-------FPTD--Y-------IPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYN   70 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~-------~~~~--~-------~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   70 (168)
                      +.++|+++|++++|||||+++|.+..       +...  .       ....+... ....+......+.+|||||++.|.
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~-~~~~~~~~~~~~~iiDtpG~~~f~   80 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINA-AHVEYSTAARHYAHTDCPGHADYV   80 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEEC-EEEEEECSSCEEEEEECSSHHHHH
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEe-eeEEeccCCeEEEEEECCChHHHH
Confidence            46899999999999999999998731       1100  0       00011111 112233344678889999999988


Q ss_pred             ccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH
Q 030961           71 RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR  149 (168)
Q Consensus        71 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (168)
                      ..+...++.+|++++|+|++++...+.  .+++..+..  .++| +++++||+|+......       .....++.++++
T Consensus        81 ~~~~~~~~~aD~~ilVvda~~g~~~qt--~e~l~~~~~--~~vp~iivviNK~Dl~~~~~~-------~~~~~~~~~~~l  149 (397)
T 1d2e_A           81 KNMITGTAPLDGCILVVAANDGPMPQT--REHLLLARQ--IGVEHVVVYVNKADAVQDSEM-------VELVELEIRELL  149 (397)
T ss_dssp             HHHHHTSSCCSEEEEEEETTTCSCHHH--HHHHHHHHH--TTCCCEEEEEECGGGCSCHHH-------HHHHHHHHHHHH
T ss_pred             HHHHhhHhhCCEEEEEEECCCCCCHHH--HHHHHHHHH--cCCCeEEEEEECcccCCCHHH-------HHHHHHHHHHHH
Confidence            777788899999999999998654443  233344443  3678 7899999999753210       002345677777


Q ss_pred             HHhCC----cEEEEecccCccC
Q 030961          150 KQIGA----SYYIECSSKTQQV  167 (168)
Q Consensus       150 ~~~~~----~~~~~~Sa~~~~~  167 (168)
                      ..+++    .+++++||++|.|
T Consensus       150 ~~~~~~~~~~~~i~~SA~~g~n  171 (397)
T 1d2e_A          150 TEFGYKGEETPIIVGSALCALE  171 (397)
T ss_dssp             HHTTSCTTTSCEEECCHHHHHT
T ss_pred             HHcCCCcccCcEEEeehhhccc
Confidence            77764    4899999999764

>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=99.82  E-value=1.3e-19  Score=143.16  Aligned_cols=114  Identities=20%  Similarity=0.160  Sum_probs=80.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCC----CCceeeceeEE-------------EEECCeEEEEEEEeCCCCcc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDY----IPTVFDNFSAN-------------VVAEGTTVNLGLWDTAGQED   68 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~----~~~~~~~~~~~-------------~~~~~~~~~~~i~D~~g~~~   68 (168)
                      .+.++|+++|++++|||||+++|.+..+....    ..+.+..+...             ..++.....+.+|||||++.
T Consensus         3 ~r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~   82 (594)
T 1g7s_A            3 IRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEA   82 (594)
T ss_dssp             ECCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSC
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHH
Confidence            35789999999999999999999876442211    11211111100             00011122588899999999


Q ss_pred             ccccccccccCCcEEEEEEeCCC---hhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           69 YNRLRPLSYRGADVFVLAFSLVS---RASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      |..++...++.+|++++|+|+++   +.+++.+ .    .+..  .++|+++++||+|+..
T Consensus        83 F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l-~----~l~~--~~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           83 FTTLRKRGGALADLAILIVDINEGFKPQTQEAL-N----ILRM--YRTPFVVAANKIDRIH  136 (594)
T ss_dssp             CTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHH-H----HHHH--TTCCEEEEEECGGGST
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHhHHHHH-H----HHHH--cCCeEEEEeccccccc
Confidence            99999999999999999999999   6666544 2    2223  4689999999999964

>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=99.82  E-value=3.3e-21  Score=149.14  Aligned_cols=150  Identities=20%  Similarity=0.240  Sum_probs=96.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      .+.++|+++|++++|||||+++|.+..+.....+.++.+.. ..+..++  ..+.+|||||++.|..++...+..+|+++
T Consensus         2 ~R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~--~~i~~iDTPGhe~f~~~~~~~~~~aD~aI   79 (501)
T 1zo1_I            2 PRAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN--GMITFLDTPGHAAFTSMRARGAQATDIVV   79 (501)
T ss_dssp             CCCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS--SCCCEECCCTTTCCTTSBCSSSBSCSSEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC--EEEEEEECCCcHHHHHHHHHHHhhCCEEE
Confidence            35789999999999999999999876543332222222211 1122233  35778999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccch-hhhcCCCCCcccHHHHHHHHHHhC-CcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH-YLADHPGLVPVTTAQGEELRKQIG-ASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa  162 (168)
                      +|+|++++...+.. + .+..+..  .++|+++++||+|+...+. ..........       .++..++ ..+++++||
T Consensus        80 LVVda~~g~~~qT~-e-~l~~~~~--~~vPiIVviNKiDl~~~~~~~v~~~l~~~~-------~~~~~~~~~~~~v~vSA  148 (501)
T 1zo1_I           80 LVVAADDGVMPQTI-E-AIQHAKA--AQVPVVVAVNKIDKPEADPDRVKNELSQYG-------ILPEEWGGESQFVHVSA  148 (501)
T ss_dssp             EEEETTTBSCTTTH-H-HHHHHHH--TTCCEEEEEECSSSSTTCCCCTTCCCCCCC-------CCTTCCSSSCEEEECCT
T ss_pred             EEeecccCccHHHH-H-HHHHHHh--cCceEEEEEEeccccccCHHHHHHHHHHhh-------hhHHHhCCCccEEEEee
Confidence            99999884322221 1 2222222  4689999999999975321 0000000000       0111222 248999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       149 ktG~gI  154 (501)
T 1zo1_I          149 KAGTGI  154 (501)
T ss_dssp             TTCTTC
T ss_pred             eeccCc
Confidence            999986

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.82  E-value=6.5e-21  Score=148.86  Aligned_cols=118  Identities=11%  Similarity=0.013  Sum_probs=82.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCC----------CCCCc----------eeece-eEEEEECCeEEEEEEEeCC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPT----------DYIPT----------VFDNF-SANVVAEGTTVNLGLWDTA   64 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~----------~~~~~----------~~~~~-~~~~~~~~~~~~~~i~D~~   64 (168)
                      .+..+|+++|++++|||||+++|+...-..          ....+          .+... .....+....+.+.+||||
T Consensus        11 ~~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~liDTP   90 (528)
T 3tr5_A           11 AMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKDYLINLLDTP   90 (528)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETTEEEEEECCC
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCCEEEEEEECC
Confidence            457899999999999999999996211000          00000          01111 1122233334678889999


Q ss_pred             CCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           65 GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        65 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      |+..|...+...++.+|++++|+|++++.+.... ..| ..+..  .++|+++++||+|+...
T Consensus        91 G~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~-~~~-~~~~~--~~iPiivviNK~Dl~~~  149 (528)
T 3tr5_A           91 GHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTI-KLM-EVCRL--RHTPIMTFINKMDRDTR  149 (528)
T ss_dssp             CSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHH-HHH-HHHHT--TTCCEEEEEECTTSCCS
T ss_pred             CchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHH-HHH-HHHHH--cCCCEEEEEeCCCCccc
Confidence            9999999999999999999999999998777664 334 34443  36899999999999654

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.81  E-value=5.6e-20  Score=132.32  Aligned_cols=118  Identities=14%  Similarity=0.180  Sum_probs=81.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccccccccc------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYR------   78 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~------   78 (168)
                      +.++|+++|.+|+|||||+++|++....  ..+.++........+..++  ..+.+|||||++.+....+.+++      
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~liDTpG~~~~~~~~~~~~~~i~~~l  112 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG--FTINIIDTPGLVEAGYVNHQALELIKGFL  112 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECC--eeEEEEECCCCCCcccchHHHHHHHHHHH
Confidence            5799999999999999999999988752  2222222222233344444  47788999999887665555443      


Q ss_pred             ---CCcEEEEEEeCCChhHHHHHHHhHHHHHchhC-C--CCcEEEEeeCCccccc
Q 030961           79 ---GADVFVLAFSLVSRASYENVLKKWIPELQHYS-P--GVPVVLVGTKLDLRED  127 (168)
Q Consensus        79 ---~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~--~~p~ivv~nK~D~~~~  127 (168)
                         .+|++++|+++++.. +......|+..+.+.. .  ..|+++|+||+|+...
T Consensus       113 ~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~  166 (262)
T 3def_A          113 VNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPP  166 (262)
T ss_dssp             TTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCS
T ss_pred             hcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCC
Confidence               789999999886644 3333246666666654 2  2499999999999644

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.81  E-value=1.7e-20  Score=137.10  Aligned_cols=150  Identities=19%  Similarity=0.162  Sum_probs=93.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCC------CCCCcee--------------------ecee-------------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPT------DYIPTVF--------------------DNFS-------------   46 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~------~~~~~~~--------------------~~~~-------------   46 (168)
                      ...++|+++|.+|+|||||+|+|++..+..      ...++..                    ..+.             
T Consensus        24 ~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~i  103 (299)
T 2aka_B           24 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  103 (299)
T ss_dssp             CCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHHh
Confidence            356799999999999999999999987632      1122200                    0000             


Q ss_pred             -----------EEEEEC-CeEEEEEEEeCCCCcc-------------ccccccccccCCcEEE-EEEeCCChhHHHHHHH
Q 030961           47 -----------ANVVAE-GTTVNLGLWDTAGQED-------------YNRLRPLSYRGADVFV-LAFSLVSRASYENVLK  100 (168)
Q Consensus        47 -----------~~~~~~-~~~~~~~i~D~~g~~~-------------~~~~~~~~~~~~~~~i-~v~d~~~~~s~~~~~~  100 (168)
                                 ..+.+. .....+.+|||||...             +..+...+++.++.++ +|+|+++..+.... .
T Consensus       104 ~g~~~gi~~~~~~~~~~~~~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~-~  182 (299)
T 2aka_B          104 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA-L  182 (299)
T ss_dssp             CSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHH-H
T ss_pred             cccCCCccccceEEEEeCCCCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHH-H
Confidence                       000000 0125788899999642             3345556777888666 79999876554443 3


Q ss_pred             hHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH--HhCCcEEEEecccCccCC
Q 030961          101 KWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK--QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       101 ~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~Sa~~~~~i  168 (168)
                      .+...+..  .+.|+++|+||+|+.....          ...+..+....  ..++.+++++||++|.|+
T Consensus       183 ~~~~~~~~--~~~~~i~V~NK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi  240 (299)
T 2aka_B          183 KIAKEVDP--QGQRTIGVITKLDLMDEGT----------DARDVLENKLLPLRRGYIGVVNRSQKDIDGK  240 (299)
T ss_dssp             HHHHHHCT--TCSSEEEEEECGGGSCTTC----------CCHHHHTTCSSCCTTCEEECCCCCCBCTTSC
T ss_pred             HHHHHhCC--CCCeEEEEEEccccCCCCc----------hHHHHHhCCcCcCCCCcEEEECCChhhcccc
Confidence            45555554  4689999999999975432          12222211000  113346889999999986

>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=99.81  E-value=5.3e-20  Score=136.10  Aligned_cols=114  Identities=13%  Similarity=0.112  Sum_probs=82.7

Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCC----------ChhHHHHHHHhHHHHHchhC--CCCcEEEEeeC
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLV----------SRASYENVLKKWIPELQHYS--PGVPVVLVGTK  121 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~----------~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK  121 (168)
                      ..+.+++||++|++.++.+|..++++++++++|||++          +..++.+. ..|+..+....  .++|++|++||
T Consensus       159 ~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es-~~~~~~i~~~~~~~~~piiLv~NK  237 (340)
T 4fid_A          159 KDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTES-IAVFKDIMTNEFLKGAVKLIFLNK  237 (340)
T ss_dssp             SSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHH-HHHHHHHHHCGGGTTSEEEEEEEC
T ss_pred             eeeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHH-HHHHHHHhhhhccCCCeEEEEEEC
Confidence            3467899999999999999999999999999999998          78888888 55665555432  68999999999


Q ss_pred             Ccccccchhhhc----C-CCCCcccHHHHHHHHH-Hh-------------------------CCcEEEEecccCccCC
Q 030961          122 LDLREDKHYLAD----H-PGLVPVTTAQGEELRK-QI-------------------------GASYYIECSSKTQQVC  168 (168)
Q Consensus       122 ~D~~~~~~~~~~----~-~~~~~~~~~~~~~~~~-~~-------------------------~~~~~~~~Sa~~~~~i  168 (168)
                      +|+..++....+    . +...+...+++.++.. .+                         ....+++|||+++.||
T Consensus       238 ~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv  315 (340)
T 4fid_A          238 MDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNI  315 (340)
T ss_dssp             HHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHH
T ss_pred             chhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHH
Confidence            999765431111    0 0011125666655553 33                         1247889999998774

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.81  E-value=9.1e-21  Score=149.93  Aligned_cols=154  Identities=16%  Similarity=0.130  Sum_probs=82.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCC--CCC-----------------------------CCCCceeeceeEEEEECCe
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNK--FPT-----------------------------DYIPTVFDNFSANVVAEGT   54 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~--~~~-----------------------------~~~~~~~~~~~~~~~~~~~   54 (168)
                      ...++|+++|++++|||||+++|++..  +..                             ...+.++.... ...+...
T Consensus       175 k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~-~~~~~~~  253 (592)
T 3mca_A          175 KPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVA-STTFESD  253 (592)
T ss_dssp             CCEEEEEEECCSSSTHHHHHHHHHHHHHCC--------------------------------------------------
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEee-EEEEEeC
Confidence            457899999999999999999996421  000                             00111111110 1112223


Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChh---HH--HHHHHhHHHHHchhCCCCc-EEEEeeCCcccccc
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRA---SY--ENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDK  128 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~--~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~  128 (168)
                      ...+.+|||||++.|...+...++.+|++++|+|++++.   .+  .....+.+..+..  .++| +++++||+|+....
T Consensus       254 ~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~--lgip~iIvviNKiDl~~~~  331 (592)
T 3mca_A          254 KKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA--LGISEIVVSVNKLDLMSWS  331 (592)
T ss_dssp             -----CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH--SSCCCEEEEEECGGGGTTC
T ss_pred             CeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH--cCCCeEEEEEecccccccc
Confidence            467888999999999988888999999999999998642   11  1100222223332  2455 99999999997532


Q ss_pred             hhhhcCCCCCcccHHHHHHHH-HHhCC----cEEEEecccCccCC
Q 030961          129 HYLADHPGLVPVTTAQGEELR-KQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~-~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      ...      .....++...+. ...++    .+++++||++|.||
T Consensus       332 ~~~------~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI  370 (592)
T 3mca_A          332 EDR------FQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNL  370 (592)
T ss_dssp             HHH------HHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSS
T ss_pred             HHH------HHHHHHHHHHHHHHhhCCCccceEEEEEecccCccc
Confidence            100      001233444444 43454    37999999999986

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.80  E-value=4.4e-19  Score=128.14  Aligned_cols=119  Identities=14%  Similarity=0.154  Sum_probs=80.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCC--CCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccc---------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPT--DYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPL---------   75 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~---------   75 (168)
                      ..++|+++|.+|+|||||+|+|++..+..  .+.++.  .......+......+.+|||||...+..+...         
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t--~~~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~  115 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEG--PRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFL  115 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCC--SSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcc--eeeEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHHHh
Confidence            57999999999999999999999877532  212221  11222333334567888999998776543321         


Q ss_pred             cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCC-C--CcEEEEeeCCcccccc
Q 030961           76 SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSP-G--VPVVLVGTKLDLREDK  128 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~-~--~p~ivv~nK~D~~~~~  128 (168)
                      ....+|++++|+|++.. ++......|+..+.+... +  .|+++|+||+|+...+
T Consensus       116 ~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~  170 (270)
T 1h65_A          116 LDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPD  170 (270)
T ss_dssp             TTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGG
T ss_pred             hcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcC
Confidence            12469999999988653 344333467777766532 2  6999999999997553

>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=99.80  E-value=2.1e-20  Score=137.00  Aligned_cols=125  Identities=18%  Similarity=0.149  Sum_probs=103.3

Q ss_pred             HHHHHHhcCCCC-CCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChh-HHHHHHH
Q 030961           23 CMLICYTSNKFP-TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRA-SYENVLK  100 (168)
Q Consensus        23 tli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~  100 (168)
                      +++.+++.+.|. ..+.+|+++.+...+..++   .+.+||+  +++++.+++.+++++|++++|||++++. ++..+ +
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l-~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVEYTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYII-D  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEEEECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHH-H
T ss_pred             cEEEEEEcccccccCCCCCCccEEEEEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHH-H
Confidence            588889888888 8889999977665433333   6889999  9999999999999999999999999987 67776 8


Q ss_pred             hHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC--CcEEEEecccCccCC
Q 030961          101 KWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG--ASYYIECSSKTQQVC  168 (168)
Q Consensus       101 ~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~i  168 (168)
                      .|+..+..  .++|+++|+||+|+.+.+.          +  +++++++..++  . +++++||++|.||
T Consensus       106 ~~l~~~~~--~~~piilv~NK~DL~~~~~----------v--~~~~~~~~~~~~~~-~~~~~SAktg~gv  160 (301)
T 1u0l_A          106 KFLVLAEK--NELETVMVINKMDLYDEDD----------L--RKVRELEEIYSGLY-PIVKTSAKTGMGI  160 (301)
T ss_dssp             HHHHHHHH--TTCEEEEEECCGGGCCHHH----------H--HHHHHHHHHHTTTS-CEEECCTTTCTTH
T ss_pred             HHHHHHHH--CCCCEEEEEeHHHcCCchh----------H--HHHHHHHHHHhhhC-cEEEEECCCCcCH
Confidence            89887765  5799999999999976543          2  55777777777  6 8999999999985

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.78  E-value=2.5e-19  Score=134.62  Aligned_cols=136  Identities=10%  Similarity=0.022  Sum_probs=92.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      +|+++|++++|||||+++|+.        ..++.... ...+......+.+|||||+++|.......++.+|++++|+| 
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~~--------~giTi~~~-~~~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLGK--------KGTSSDIT-MYNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTSE--------EEEESSSE-EEEECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-
T ss_pred             EEEEECCCCCCHHHHHHHHHh--------CCEEEEee-EEEEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-
Confidence            899999999999999999971        11111111 11233334568889999999998777778899999999999 


Q ss_pred             CChhHHHHHHHhHHHHHchhCCCCcE-EEEee-CCcccccchhhhcCCCCCcccHHHHHHHHHHhC--CcEEEE--eccc
Q 030961           90 VSRASYENVLKKWIPELQHYSPGVPV-VLVGT-KLDLREDKHYLADHPGLVPVTTAQGEELRKQIG--ASYYIE--CSSK  163 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~~~~p~-ivv~n-K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~--~Sa~  163 (168)
                      ++.. .... .+++..+...  ++|. ++++| |+|+ ..+. .       ....++.+++...++  ..++++  +||+
T Consensus        93 ~~g~-~~qt-~e~~~~~~~~--~i~~~ivvvNNK~Dl-~~~~-~-------~~~~~~i~~~l~~~~~~~~~ii~~~~SA~  159 (370)
T 2elf_A           93 PQGL-DAHT-GECIIALDLL--GFKHGIIALTRSDST-HMHA-I-------DELKAKLKVITSGTVLQDWECISLNTNKS  159 (370)
T ss_dssp             TTCC-CHHH-HHHHHHHHHT--TCCEEEEEECCGGGS-CHHH-H-------HHHHHHHHHHTTTSTTTTCEEEECCCCTT
T ss_pred             CCCC-cHHH-HHHHHHHHHc--CCCeEEEEEEeccCC-CHHH-H-------HHHHHHHHHHHHhcCCCceEEEecccccc
Confidence            5433 3333 4555555543  5677 88899 9999 4322 0       012245566655443  248999  9999


Q ss_pred             C---ccCC
Q 030961          164 T---QQVC  168 (168)
Q Consensus       164 ~---~~~i  168 (168)
                      +   |+||
T Consensus       160 ~~~~g~gi  167 (370)
T 2elf_A          160 AKNPFEGV  167 (370)
T ss_dssp             SSSTTTTH
T ss_pred             cCcCCCCH
Confidence            9   8874

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.78  E-value=1.3e-18  Score=135.93  Aligned_cols=147  Identities=12%  Similarity=0.069  Sum_probs=96.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCC--CCCC--------CCCc----------eeece-eEEEEECCeEEEEEEEeCC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNK--FPTD--------YIPT----------VFDNF-SANVVAEGTTVNLGLWDTA   64 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~--~~~~--------~~~~----------~~~~~-~~~~~~~~~~~~~~i~D~~   64 (168)
                      .+..+|+++|++++|||||+++|+...  +...        ...+          .+... .....+....+.+.+||||
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTP   90 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTP   90 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETTEEEEEECCC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECCeEEEEEECC
Confidence            468899999999999999999998632  1000        0001          01111 1112233334678889999


Q ss_pred             CCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHH
Q 030961           65 GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQ  144 (168)
Q Consensus        65 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~  144 (168)
                      |+..|...+...++.+|++++|+|++++.....  ..+...+..  .++|+++++||+|+....            ..+.
T Consensus        91 G~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t--~~~~~~~~~--~~ipiivviNK~Dl~~~~------------~~~~  154 (529)
T 2h5e_A           91 GHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRT--RKLMEVTRL--RDTPILTFMNKLDRDIRD------------PMEL  154 (529)
T ss_dssp             CSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHH--HHHHHHHTT--TTCCEEEEEECTTSCCSC------------HHHH
T ss_pred             CChhHHHHHHHHHHHCCEEEEEEeCCccchHHH--HHHHHHHHH--cCCCEEEEEcCcCCcccc------------HHHH
Confidence            999998888889999999999999988654332  334444443  468999999999997653            1334


Q ss_pred             HHHHHHHhCCc----EEEEecccCccCC
Q 030961          145 GEELRKQIGAS----YYIECSSKTQQVC  168 (168)
Q Consensus       145 ~~~~~~~~~~~----~~~~~Sa~~~~~i  168 (168)
                      ..++...++..    .+...|++++.||
T Consensus       155 ~~~i~~~l~~~~~~~~~pi~sa~~~~Gv  182 (529)
T 2h5e_A          155 LDEVENELKIGCAPITWPIGCGKLFKGV  182 (529)
T ss_dssp             HHHHHHHHCCEEEESEEEESCGGGCCEE
T ss_pred             HHHHHHHhCCCccceecceecccCccee
Confidence            55566666651    1223678877764

>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=99.77  E-value=4.3e-19  Score=146.93  Aligned_cols=150  Identities=17%  Similarity=0.148  Sum_probs=100.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC-------CCC--CCC-----Cceeecee-EEEEECCeEEEEEEEeCCCCccc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK-------FPT--DYI-----PTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDY   69 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~-------~~~--~~~-----~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~   69 (168)
                      ..+.++|+++|++++|||||+++|.+..       +..  ..+     .+.+.+.. ..+.++.....+.+|||||++.|
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF  372 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADY  372 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHH
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHH
Confidence            3457899999999999999999998631       100  000     11111111 11233444567888999999999


Q ss_pred             cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHHH
Q 030961           70 NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL  148 (168)
Q Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  148 (168)
                      ...+...++.+|++++|+|++++...+.  .+++..+...  ++| +++++||+|+......       .....++...+
T Consensus       373 ~~~mi~gas~AD~aILVVDAtdGv~~QT--rEhL~ll~~l--gIP~IIVVINKiDLv~d~e~-------le~i~eEi~el  441 (1289)
T 3avx_A          373 VKNMITGAAQMDGAILVVAATDGPMPQT--REHILLGRQV--GVPYIIVFLNKCDMVDDEEL-------LELVEMEVREL  441 (1289)
T ss_dssp             HHHHHHTSCCCSEEEEEEETTTCSCTTH--HHHHHHHHHH--TCSCEEEEEECCTTCCCHHH-------HHHHHHHHHHH
T ss_pred             HHHHHHHHhhCCEEEEEEcCCccCcHHH--HHHHHHHHHc--CCCeEEEEEeecccccchhh-------HHHHHHHHHHH
Confidence            8887888999999999999988654333  3444444442  578 7899999999753210       00234567777


Q ss_pred             HHHhCC----cEEEEecccCc
Q 030961          149 RKQIGA----SYYIECSSKTQ  165 (168)
Q Consensus       149 ~~~~~~----~~~~~~Sa~~~  165 (168)
                      +..+++    .+++++||++|
T Consensus       442 Lk~~G~~~~~vp~IpvSAktG  462 (1289)
T 3avx_A          442 LSQYDFPGDDTPIVRGSALKA  462 (1289)
T ss_dssp             HHHTTSCTTTCCEEECCSTTT
T ss_pred             HHhccccccceeEEEEEeccC
Confidence            777763    48999999998

>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=99.77  E-value=2.4e-19  Score=134.48  Aligned_cols=148  Identities=18%  Similarity=0.146  Sum_probs=94.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeec---------------ee-------------------------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDN---------------FS-------------------------   46 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~---------------~~-------------------------   46 (168)
                      ..++|+++|++|||||||+++|.+..+......+.+..               +.                         
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            45599999999999999999999987633222221100               00                         


Q ss_pred             -------------EEEEE-CCeEEEEEEEeCCCCccc-------------cccccccccCCcEEEEEEeCCChhHHHHHH
Q 030961           47 -------------ANVVA-EGTTVNLGLWDTAGQEDY-------------NRLRPLSYRGADVFVLAFSLVSRASYENVL   99 (168)
Q Consensus        47 -------------~~~~~-~~~~~~~~i~D~~g~~~~-------------~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~   99 (168)
                                   ..+.+ ......+.+|||||...+             ..+...++.+++++++|++.++........
T Consensus       113 ~~~g~~~~~s~~~i~l~i~~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~  192 (360)
T 3t34_A          113 RETGRSKAISSVPIHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDA  192 (360)
T ss_dssp             HTSCTTCCCCCSCEEEEEEETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHH
T ss_pred             HhcCCCCCcccceEEEEEeCCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHH
Confidence                         00111 111235788999998776             445566788999999999876543322111


Q ss_pred             HhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961          100 KKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus       100 ~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      ..++..+..  .+.|+++|+||+|+.....          ...+.++.+...++. +|+++|++++.|
T Consensus       193 ~~l~~~~~~--~~~~~i~V~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~v~~~s~~~  247 (360)
T 3t34_A          193 IKISREVDP--SGDRTFGVLTKIDLMDKGT----------DAVEILEGRSFKLKY-PWVGVVNRSQAD  247 (360)
T ss_dssp             HHHHHHSCT--TCTTEEEEEECGGGCCTTC----------CSHHHHTTSSSCCSS-CCEEECCCCHHH
T ss_pred             HHHHHHhcc--cCCCEEEEEeCCccCCCcc----------cHHHHHcCccccccC-CeEEEEECChHH
Confidence            233333332  4689999999999986543          334444444555666 789999998765

>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=99.76  E-value=1.5e-18  Score=120.59  Aligned_cols=148  Identities=15%  Similarity=-0.002  Sum_probs=88.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccc----------ccccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDY----------NRLRP   74 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~----------~~~~~   74 (168)
                      ....+++++|++|||||||++++.+..+...+.++.+..+ ...+.+++   .+.+|||||....          .....
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  100 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRALG  100 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHHH
Confidence            3567899999999999999999998764444344444333 22233333   4678999997431          11112


Q ss_pred             ccc---cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH
Q 030961           75 LSY---RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ  151 (168)
Q Consensus        75 ~~~---~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (168)
                      .++   ..++++++++|++++.+...  ..+...+..  .+.|+++++||+|+......        ....+.+..++..
T Consensus       101 ~~~~~~~~~~~~~~v~d~~~~~~~~~--~~~~~~~~~--~~~~~~~v~nK~D~~s~~~~--------~~~~~~~~~~~~~  168 (210)
T 1pui_A          101 EYLEKRQSLQGLVVLMDIRHPLKDLD--QQMIEWAVD--SNIAVLVLLTKADKLASGAR--------KAQLNMVREAVLA  168 (210)
T ss_dssp             HHHHHCTTEEEEEEEEETTSCCCHHH--HHHHHHHHH--TTCCEEEEEECGGGSCHHHH--------HHHHHHHHHHHGG
T ss_pred             HHHHhhhcccEEEEEEECCCCCchhH--HHHHHHHHH--cCCCeEEEEecccCCCchhH--------HHHHHHHHHHHHh
Confidence            222   46899999999988665432  122222322  36899999999998654210        0123456666655


Q ss_pred             hC-CcEEEEecccCccCC
Q 030961          152 IG-ASYYIECSSKTQQVC  168 (168)
Q Consensus       152 ~~-~~~~~~~Sa~~~~~i  168 (168)
                      .+ ...++++||+++.|+
T Consensus       169 ~~~~~~~~~~Sal~~~~~  186 (210)
T 1pui_A          169 FNGDVQVETFSSLKKQGV  186 (210)
T ss_dssp             GCSCEEEEECBTTTTBSH
T ss_pred             cCCCCceEEEeecCCCCH
Confidence            54 347889999999874

>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=99.76  E-value=4.8e-18  Score=128.62  Aligned_cols=84  Identities=19%  Similarity=0.205  Sum_probs=47.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCC--ceeeceeE-EE-------------------EECC-eEEEEEEEeCCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIP--TVFDNFSA-NV-------------------VAEG-TTVNLGLWDTAG   65 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~--~~~~~~~~-~~-------------------~~~~-~~~~~~i~D~~g   65 (168)
                      ++|+++|.||+|||||+|+|.+........+  |....... .+                   .+++ ...++.+|||||
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            5899999999999999999998763222222  11111111 11                   1232 257899999999


Q ss_pred             Ccc----cccccc---ccccCCcEEEEEEeCCCh
Q 030961           66 QED----YNRLRP---LSYRGADVFVLAFSLVSR   92 (168)
Q Consensus        66 ~~~----~~~~~~---~~~~~~~~~i~v~d~~~~   92 (168)
                      ...    ...+..   ..++.+|++++|+|++++
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            753    222333   456899999999999875

>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=99.76  E-value=2.8e-18  Score=137.45  Aligned_cols=117  Identities=18%  Similarity=0.106  Sum_probs=83.7

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCce----------------eece-eEEEEECCeEEEEEEEeCCCCc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV----------------FDNF-SANVVAEGTTVNLGLWDTAGQE   67 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~----------------~~~~-~~~~~~~~~~~~~~i~D~~g~~   67 (168)
                      ..+..+++++|+.|+|||||+++|++.........++                +..+ .....+....+.+.+|||||++
T Consensus         6 ~~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~   85 (665)
T 2dy1_A            6 GAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYG   85 (665)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSG
T ss_pred             cCCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCcc
Confidence            3567889999999999999999998533211111110                1111 2223333345778899999999


Q ss_pred             cccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccc
Q 030961           68 DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR  125 (168)
Q Consensus        68 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~  125 (168)
                      .|...+...++.+|++++|+|+.+......  ..++..+..  .++|+++++||+|+.
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            998888889999999999999887655544  345555544  368999999999987

>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=99.74  E-value=8.2e-18  Score=135.27  Aligned_cols=117  Identities=16%  Similarity=0.105  Sum_probs=83.3

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcC--CCC------C------------CCCCceeeceeEEEEECCeEEEEEEEeC
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSN--KFP------T------------DYIPTVFDNFSANVVAEGTTVNLGLWDT   63 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~--~~~------~------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~   63 (168)
                      ...+..+|+++|++++|||||+++|+..  .+.      .            ....|+.  . ....+....+.+.+|||
T Consensus         8 ~~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~--~-~~~~~~~~~~~i~liDT   84 (691)
T 1dar_A            8 DLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITIT--A-AVTTCFWKDHRINIIDT   84 (691)
T ss_dssp             CGGGEEEEEEEECTTSCHHHHHHHHHHHHCC------------------------------C-CEEEEEETTEEEEEECC
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccc--c-ceEEEEECCeEEEEEEC
Confidence            3467899999999999999999999842  110      0            0011111  1 11112222467888999


Q ss_pred             CCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           64 AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        64 ~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      ||+..|...+...++.+|++++|+|+++..+.... ..|.. +.+  .++|+++++||+|+...
T Consensus        85 PG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~-~~~~~-~~~--~~~p~ivviNKiD~~~~  144 (691)
T 1dar_A           85 PGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSE-TVWRQ-AEK--YKVPRIAFANKMDKTGA  144 (691)
T ss_dssp             CSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHH-HHHHH-HHH--TTCCEEEEEECTTSTTC
T ss_pred             cCccchHHHHHHHHHHCCEEEEEEECCCCcchhhH-HHHHH-HHH--cCCCEEEEEECCCcccC
Confidence            99999988888999999999999999998877764 44443 333  37899999999999764

>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=99.74  E-value=1.1e-17  Score=127.23  Aligned_cols=147  Identities=14%  Similarity=0.103  Sum_probs=84.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CceeeceeEEE--EECCeEEEEEEEeCCCCccccc-----
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYI--------PTVFDNFSANV--VAEGTTVNLGLWDTAGQEDYNR-----   71 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~--------~~~~~~~~~~~--~~~~~~~~~~i~D~~g~~~~~~-----   71 (168)
                      ..++|+++|++|+|||||+++|++..+.....        ++.... ...+  ...+....+.+||++|......     
T Consensus        30 vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~-~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~~  108 (418)
T 2qag_C           30 FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVE-QSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCW  108 (418)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEE-EEECC------CEEEEEEECC-----------C
T ss_pred             CCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeee-eEEEEEecCCcccceeeeechhhhhhccchhhH
Confidence            45789999999999999999999876532211        111111 1111  2234446789999999765311     


Q ss_pred             --------------------cccccccCCcEEEEEEeCCCh-hHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchh
Q 030961           72 --------------------LRPLSYRGADVFVLAFSLVSR-ASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHY  130 (168)
Q Consensus        72 --------------------~~~~~~~~~~~~i~v~d~~~~-~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~  130 (168)
                                          +....+.++++.+++|..... .++......|+..+..   ++|+++|+||+|+...+. 
T Consensus       109 ~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~~---~v~iIlVinK~Dll~~~e-  184 (418)
T 2qag_C          109 QPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE---KVNIIPLIAKADTLTPEE-  184 (418)
T ss_dssp             HHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHTT---TSEEEEEEESTTSSCHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHhc---cCcEEEEEEcccCccHHH-
Confidence                                123345566655555554432 3455543467776653   689999999999976544 


Q ss_pred             hhcCCCCCcccH--HHHHHHHHHhCCcEEEEecccCccCC
Q 030961          131 LADHPGLVPVTT--AQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       131 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                               +..  +++...+...++ +++++||++++|+
T Consensus       185 ---------v~~~k~~i~~~~~~~~i-~~~~~sa~~~~~v  214 (418)
T 2qag_C          185 ---------CQQFKKQIMKEIQEHKI-KIYEFPETDDEEE  214 (418)
T ss_dssp             ---------HHHHHHHHHHHHHHHTC-CCCCCC-------
T ss_pred             ---------HHHHHHHHHHHHHHcCC-eEEeCCCCCCcCH
Confidence                     433  677888888887 8999999988764

>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=99.73  E-value=1.2e-18  Score=128.19  Aligned_cols=69  Identities=23%  Similarity=0.276  Sum_probs=46.6

Q ss_pred             EEEEEEeCCCCcc-------------ccccccccccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEeeC
Q 030961           56 VNLGLWDTAGQED-------------YNRLRPLSYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGTK  121 (168)
Q Consensus        56 ~~~~i~D~~g~~~-------------~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~nK  121 (168)
                      ..+.+|||||...             +......++..+|++++|+|.++.. ..... ..+...+..  .+.|+++|+||
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~-~~i~~~~~~--~~~~~i~v~NK  207 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDA-LQLAKEVDP--EGKRTIGVITK  207 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSH-HHHHHHHCS--SCSSEEEEEEC
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHH-HHHHHHhCC--CCCcEEEEEcC
Confidence            4688899999753             3345556778999999999974332 11111 234444443  46899999999


Q ss_pred             Cccccc
Q 030961          122 LDLRED  127 (168)
Q Consensus       122 ~D~~~~  127 (168)
                      +|+...
T Consensus       208 ~Dl~~~  213 (315)
T 1jwy_B          208 LDLMDK  213 (315)
T ss_dssp             TTSSCS
T ss_pred             cccCCc
Confidence            999754

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.73  E-value=2.2e-17  Score=132.90  Aligned_cols=119  Identities=13%  Similarity=0.170  Sum_probs=81.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCcee----ece----eEEEEE-------------------------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVF----DNF----SANVVA-------------------------   51 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~----~~~----~~~~~~-------------------------   51 (168)
                      ...++|+++|.+|+|||||+|+|++..+.. ...++..    ..+    ..+...                         
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            357899999999999999999999876432 2222220    000    001110                         


Q ss_pred             ---------------------CCeE--EEEEEEeCCCCcc---ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHH
Q 030961           52 ---------------------EGTT--VNLGLWDTAGQED---YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPE  105 (168)
Q Consensus        52 ---------------------~~~~--~~~~i~D~~g~~~---~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~  105 (168)
                                           +...  ..+.+|||||...   .......+++.+|++++|+|++++.+.... ..|...
T Consensus       147 ~~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~-~~l~~~  225 (695)
T 2j69_A          147 KKLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGER-RYLENY  225 (695)
T ss_dssp             HHHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHH-HHHHHH
T ss_pred             HHHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHH-HHHHHH
Confidence                                 0000  2578899999654   334556678899999999999988887775 566555


Q ss_pred             HchhCCCCcEEEEeeCCccccc
Q 030961          106 LQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus       106 l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      +..  .+.|+++|+||+|+...
T Consensus       226 l~~--~~~~iiiVlNK~Dl~~~  245 (695)
T 2j69_A          226 IKG--RGLTVFFLVNAWDQVRE  245 (695)
T ss_dssp             TTT--SCCCEEEEEECGGGGGG
T ss_pred             HHh--hCCCEEEEEECcccccc
Confidence            554  35789999999999754

>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=99.72  E-value=2.4e-18  Score=126.02  Aligned_cols=149  Identities=13%  Similarity=0.087  Sum_probs=78.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC-CCCCCC--------CCceeece-eEEEEECCeEEEEEEEeCCCC-------cc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN-KFPTDY--------IPTVFDNF-SANVVAEGTTVNLGLWDTAGQ-------ED   68 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~-~~~~~~--------~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~-------~~   68 (168)
                      ...++|+++|++|+|||||++++.+. .+....        .++..... ......++....+.+||++|.       +.
T Consensus        16 ~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e~   95 (301)
T 2qnr_A           16 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDC   95 (301)
T ss_dssp             --CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC-----------
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHHH
Confidence            35689999999999999999998875 333322        11211111 112223455678999999998       44


Q ss_pred             cccccc-------cccc-------------CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           69 YNRLRP-------LSYR-------------GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        69 ~~~~~~-------~~~~-------------~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                      +..+..       .+++             .+++++++.+.+. .+++.....++..+   ..+.|+++|+||+|+...+
T Consensus        96 ~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~-~~Ld~~~~~~l~~l---~~~~~iilV~~K~Dl~~~~  171 (301)
T 2qnr_A           96 FKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFG-HGLKPLDVAFMKAI---HNKVNIVPVIAKADTLTLK  171 (301)
T ss_dssp             CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSS-SSCCHHHHHHHHHH---TTTSCEEEEECCGGGSCHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcc-cCCCHHHHHHHHHH---HhcCCEEEEEEeCCCCCHH
Confidence            444433       2222             1333444444221 23444322333333   3468999999999997653


Q ss_pred             hhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961          129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      .        .....+++.+++..+++ +|+++||++| |+
T Consensus       172 e--------~~~~~~~~~~~~~~~~~-~~~e~Sa~~~-~v  201 (301)
T 2qnr_A          172 E--------RERLKKRILDEIEEHNI-KIYHLPDAES-DE  201 (301)
T ss_dssp             H--------HHHHHHHHHHHHHHTTC-CCCCCC-------
T ss_pred             H--------HHHHHHHHHHHHHHcCC-eEEecCCccc-cc
Confidence            3        01345678889999997 8999999998 75

>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=99.72  E-value=3.6e-17  Score=122.39  Aligned_cols=112  Identities=13%  Similarity=0.070  Sum_probs=77.2

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCC----------hhHHHHHHHhHHHHHchh--CCCCcEEEEeeCC
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVS----------RASYENVLKKWIPELQHY--SPGVPVVLVGTKL  122 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~----------~~s~~~~~~~~~~~l~~~--~~~~p~ivv~nK~  122 (168)
                      .+.+++|||+|++.++..|..+++++++++||||+++          ..++.+. ..|+..+...  ..++|++|++||+
T Consensus       200 ~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es-~~~~~~i~~~~~~~~~piILv~NK~  278 (362)
T 1zcb_A          200 NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTES-LNIFETIVNNRVFSNVSIILFLNKT  278 (362)
T ss_dssp             TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHH-HHHHHHHHTCGGGTTSEEEEEEECH
T ss_pred             CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHH-HHHHHHHhcchhhCCCCEEEEEECh
Confidence            4778889999999999999999999999999999999          7789888 5666666553  2689999999999


Q ss_pred             cccccchhh----hcCCC--CCcccHHHHHHHHH-----------HhCCcEEEEecccCccCC
Q 030961          123 DLREDKHYL----ADHPG--LVPVTTAQGEELRK-----------QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       123 D~~~~~~~~----~~~~~--~~~~~~~~~~~~~~-----------~~~~~~~~~~Sa~~~~~i  168 (168)
                      |+..++...    ...++  ..++..+++..++.           ..++ .+++|||++++||
T Consensus       279 DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~-~~~~tSA~d~~nV  340 (362)
T 1zcb_A          279 DLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPL-YHHFTTAINTENI  340 (362)
T ss_dssp             HHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CC-EEEECCTTCHHHH
T ss_pred             hhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCce-EEEEEecCCchhH
Confidence            997543100    00011  11256778877762           2344 7899999999875

>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=99.71  E-value=7.5e-17  Score=121.74  Aligned_cols=72  Identities=19%  Similarity=0.293  Sum_probs=64.2

Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCC----------hhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCc
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVS----------RASYENVLKKWIPELQHYS--PGVPVVLVGTKLD  123 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~----------~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D  123 (168)
                      +.+++|||+|++.++.+|..++++++++++|||+++          ..++.++ ..|+..+....  .++|++|++||+|
T Consensus       217 v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~-~~~~~~i~~~~~~~~~piiLvgNK~D  295 (402)
T 1azs_C          217 VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEA-LNLFKSIWNNRWLRTISVILFLNKQD  295 (402)
T ss_dssp             EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHH-HHHHHHHHTCTTCSSCCEEEEEECHH
T ss_pred             ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHH-HHHHHHHHhcccCCCCeEEEEEEChh
Confidence            788899999999999999999999999999999999          8999998 77888776642  6899999999999


Q ss_pred             ccccc
Q 030961          124 LREDK  128 (168)
Q Consensus       124 ~~~~~  128 (168)
                      +...+
T Consensus       296 L~~~k  300 (402)
T 1azs_C          296 LLAEK  300 (402)
T ss_dssp             HHHHH
T ss_pred             hhhhh
Confidence            96543

>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=99.70  E-value=8.6e-17  Score=122.19  Aligned_cols=143  Identities=16%  Similarity=0.099  Sum_probs=92.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECCeEEEEEEEeCCCCccc----ccccccc---ccCCc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQEDY----NRLRPLS---YRGAD   81 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~----~~~~~~~---~~~~~   81 (168)
                      .++++|++|||||||++++.+........+..+..... .+..++ ...+.+||+||....    ..+...+   +..++
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~  237 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIARTR  237 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHHH
Confidence            47999999999999999998864311111111111111 222332 245778999997432    2222222   34699


Q ss_pred             EEEEEEeCCChhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           82 VFVLAFSLVSRASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      .++.++|++ +..+..+ ..+.+++..+.   ...|.++++||+|+... .           ..++..+.....+. +++
T Consensus       238 ~lL~vvDls-~~~~~~l-s~g~~el~~la~aL~~~P~ILVlNKlDl~~~-~-----------~~~~l~~~l~~~g~-~vi  302 (416)
T 1udx_A          238 VLLYVLDAA-DEPLKTL-ETLRKEVGAYDPALLRRPSLVALNKVDLLEE-E-----------AVKALADALAREGL-AVL  302 (416)
T ss_dssp             EEEEEEETT-SCHHHHH-HHHHHHHHHHCHHHHHSCEEEEEECCTTSCH-H-----------HHHHHHHHHHTTTS-CEE
T ss_pred             hhhEEeCCc-cCCHHHH-HHHHHHHHHHhHHhhcCCEEEEEECCChhhH-H-----------HHHHHHHHHHhcCC-eEE
Confidence            999999997 5556665 56666665543   36899999999998654 1           23445555555666 899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++++||
T Consensus       303 ~iSA~~g~gi  312 (416)
T 1udx_A          303 PVSALTGAGL  312 (416)
T ss_dssp             ECCTTTCTTH
T ss_pred             EEECCCccCH
Confidence            9999999885

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.70  E-value=7.3e-17  Score=129.80  Aligned_cols=117  Identities=16%  Similarity=0.099  Sum_probs=82.9

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhc--CCCCCC-----------C-----CCceeece-eEEEEECCeEEEEEEEeCCC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTS--NKFPTD-----------Y-----IPTVFDNF-SANVVAEGTTVNLGLWDTAG   65 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~--~~~~~~-----------~-----~~~~~~~~-~~~~~~~~~~~~~~i~D~~g   65 (168)
                      ..+..+|+++|++|+|||||+++|+.  +.+...           +     .+..+... ...+...  .+.+.+|||||
T Consensus         7 ~~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~--~~~i~liDTPG   84 (693)
T 2xex_A            7 LEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWE--GHRVNIIDTPG   84 (693)
T ss_dssp             STTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEET--TEEEEEECCCC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEEC--CeeEEEEECcC
Confidence            46788999999999999999999985  222110           0     00000011 1122223  46788899999


Q ss_pred             CccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           66 QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      +..|...+...++.+|++++|+|++++.+.... ..|. .+.+  .+.|+++++||+|+...
T Consensus        85 ~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~-~~~~-~~~~--~~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           85 HVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTE-TVWR-QATT--YGVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             CSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHH-HHHH-HHHH--TTCCEEEEEECTTSTTC
T ss_pred             CcchHHHHHHHHHHCCEEEEEECCCCCCcHHHH-HHHH-HHHH--cCCCEEEEEECCCcccc
Confidence            999988888899999999999999988777664 4443 3443  36899999999999764

>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=99.69  E-value=6.9e-16  Score=124.32  Aligned_cols=118  Identities=16%  Similarity=0.097  Sum_probs=83.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--CCCCC-----------C-------CCceeeceeEEEEE-----CCeEEEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--KFPTD-----------Y-------IPTVFDNFSANVVA-----EGTTVNLG   59 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--~~~~~-----------~-------~~~~~~~~~~~~~~-----~~~~~~~~   59 (168)
                      ..+..+|+++|+.++|||||+++|+..  .+...           +       ..|+.... ..+..     ++..+.+.
T Consensus         7 ~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~-~~~~~~~~~~~~~~~~i~   85 (704)
T 2rdo_7            7 IARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAA-TTAFWSGMAKQYEPHRIN   85 (704)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeece-EEEEECCccccCCceeEE
Confidence            456889999999999999999999753  11110           0       00111000 11222     23348899


Q ss_pred             EEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           60 LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        60 i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      +|||||+..|...+...++.+|++++|+|+++....... ..| ..+..  .++|+++++||+|+...
T Consensus        86 liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~-~~~-~~~~~--~~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           86 IIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSE-TVW-RQANK--YKVPRIAFVNKMDRMGA  149 (704)
T ss_pred             EEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHH-HHH-HHHHH--cCCCEEEEEeCCCcccc
Confidence            999999999988888999999999999999987766553 334 33333  46899999999998754

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.68  E-value=7.8e-16  Score=114.79  Aligned_cols=82  Identities=22%  Similarity=0.212  Sum_probs=54.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCC--ceeeceeEEEEECCe---------------EEEEEEEeCCCCcccc-
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIP--TVFDNFSANVVAEGT---------------TVNLGLWDTAGQEDYN-   70 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~~~-   70 (168)
                      ++|+++|.||+|||||+|+|.+........+  |..... ..+.+++.               ...+.+|||||...+. 
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~-g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~   81 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNT-GVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGAS   81 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCS-SEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceE-EEEecCCcccceeeeeecccceeeeEEEEEECCCCccccc
Confidence            6899999999999999999998764322222  222111 12333332               2568899999987653 


Q ss_pred             ---ccccc---cccCCcEEEEEEeCCC
Q 030961           71 ---RLRPL---SYRGADVFVLAFSLVS   91 (168)
Q Consensus        71 ---~~~~~---~~~~~~~~i~v~d~~~   91 (168)
                         .+...   +++.+|++++|+|+++
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               34333   3689999999999975

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.67  E-value=9.8e-17  Score=126.02  Aligned_cols=119  Identities=18%  Similarity=0.185  Sum_probs=80.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCC---CCCCCceeeceeEEE-------EEC-----------------------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFP---TDYIPTVFDNFSANV-------VAE-----------------------   52 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~---~~~~~~~~~~~~~~~-------~~~-----------------------   52 (168)
                      ...++|+++|.+|+|||||+|+|++..+.   ....++.. ......       ..+                       
T Consensus        63 ~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~-~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~~  141 (550)
T 2qpt_A           63 DGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTD-CFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFLN  141 (550)
T ss_dssp             SSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCC-SEEEEECCSSSEEECCC------------------CCCT
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccc-eEEEEEECCcccccCCceeeecCcccHHHHhhhcccccc
Confidence            46789999999999999999999998763   22222221 110000       000                       


Q ss_pred             CeE---------EEEEEEeCCCCcc-----------ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCC
Q 030961           53 GTT---------VNLGLWDTAGQED-----------YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPG  112 (168)
Q Consensus        53 ~~~---------~~~~i~D~~g~~~-----------~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~  112 (168)
                      +..         ..+.+|||||...           +......++..+|++++|+|+++....... ..++..+..  .+
T Consensus       142 ~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~-~~~l~~l~~--~~  218 (550)
T 2qpt_A          142 RFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEF-SEAIGALRG--HE  218 (550)
T ss_dssp             TEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHH-HHHHHHTTT--CG
T ss_pred             cceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHH-HHHHHHHHh--cC
Confidence            000         2578999999764           234445567889999999999875444443 566666665  35


Q ss_pred             CcEEEEeeCCcccccc
Q 030961          113 VPVVLVGTKLDLREDK  128 (168)
Q Consensus       113 ~p~ivv~nK~D~~~~~  128 (168)
                      .|+++|+||+|+....
T Consensus       219 ~pvilVlNK~Dl~~~~  234 (550)
T 2qpt_A          219 DKIRVVLNKADMVETQ  234 (550)
T ss_dssp             GGEEEEEECGGGSCHH
T ss_pred             CCEEEEEECCCccCHH
Confidence            7999999999997543

>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=99.67  E-value=1.5e-16  Score=130.34  Aligned_cols=118  Identities=14%  Similarity=0.126  Sum_probs=86.0

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCC--CCCC--------------CCC--ceeece-eEEEE------------ECC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNK--FPTD--------------YIP--TVFDNF-SANVV------------AEG   53 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~--~~~~--------------~~~--~~~~~~-~~~~~------------~~~   53 (168)
                      .....+|+++|+.++|||||+++|+...  ....              ...  |+.... .....            .++
T Consensus        16 ~~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~   95 (842)
T 1n0u_A           16 VTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDG   95 (842)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCS
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccC
Confidence            4567899999999999999999998641  1100              001  111111 11111            244


Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      ..+.+.+|||||+..|...+...++.+|++++|+|++++.++... ..|.....   .++|+++++||+|+..
T Consensus        96 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~-~~~~~~~~---~~~p~ilviNK~D~~~  164 (842)
T 1n0u_A           96 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTE-TVLRQALG---ERIKPVVVINKVDRAL  164 (842)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHH-HHHHHHHH---TTCEEEEEEECHHHHH
T ss_pred             CCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCeEEEEECCCcch
Confidence            578999999999999999999999999999999999998888775 45554433   3689999999999873

>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=99.67  E-value=2.5e-17  Score=123.17  Aligned_cols=149  Identities=20%  Similarity=0.172  Sum_probs=85.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCC------CCCcee--------------------ecee--------------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTD------YIPTVF--------------------DNFS--------------   46 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~------~~~~~~--------------------~~~~--------------   46 (168)
                      ..++|+++|.+++|||||+++|++.++...      ..|+..                    .++.              
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i~  109 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  109 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHhc
Confidence            467999999999999999999999876321      112210                    0000              


Q ss_pred             ----------EEEEEC-CeEEEEEEEeCCCCcc-------------ccccccccccCCc-EEEEEEeCCChhHHHHHHHh
Q 030961           47 ----------ANVVAE-GTTVNLGLWDTAGQED-------------YNRLRPLSYRGAD-VFVLAFSLVSRASYENVLKK  101 (168)
Q Consensus        47 ----------~~~~~~-~~~~~~~i~D~~g~~~-------------~~~~~~~~~~~~~-~~i~v~d~~~~~s~~~~~~~  101 (168)
                                ..+.+. .....+.+|||||...             +..+...++..++ +++++.+++....-... ..
T Consensus       110 g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~-~~  188 (353)
T 2x2e_A          110 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA-LK  188 (353)
T ss_dssp             TTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHH-HH
T ss_pred             ccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHH-HH
Confidence                      011111 1135688999999632             2334555565555 55556666543322222 23


Q ss_pred             HHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHH--HHHHHhCCcEEEEecccCccCC
Q 030961          102 WIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGE--ELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       102 ~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      ++..+..  .+.|+++|+||+|+.....          ...+..+  .+....++.+++++||+++.|+
T Consensus       189 i~~~~~~--~~~~~i~V~NK~Dl~~~~~----------~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i  245 (353)
T 2x2e_A          189 VAKEVDP--QGQRTIGVITKLDLMDEGT----------DARDVLENKLLPLRRGYIGVVNRSQKDIDGK  245 (353)
T ss_dssp             HHHHHCT--TCTTEEEEEECGGGSCTTC----------CCHHHHTTCSSCCTTCEEECCCCCHHHHHTT
T ss_pred             HHHHhCc--CCCceEEEeccccccCcch----------hHHHHHhCCcccccCCceEEEeCCccccccc
Confidence            4444443  4689999999999975432          1111111  0111124446788999998875

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.62  E-value=7.6e-18  Score=118.33  Aligned_cols=141  Identities=16%  Similarity=0.066  Sum_probs=79.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-------------EEEEEC-CeEE----------------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-------------ANVVAE-GTTV----------------   56 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-------------~~~~~~-~~~~----------------   56 (168)
                      +.++|+++|.+|||||||+++|+...+...+.+++..++.             ..+.++ +..+                
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            4689999999999999999999987554444444443332             222222 1111                


Q ss_pred             ---EEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc
Q 030961           57 ---NLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD  133 (168)
Q Consensus        57 ---~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~  133 (168)
                         .+.++|++|.-....   .+-...+..+.+.|+.+......   .....+     ..|.++++||+|+...+.    
T Consensus       117 ~~~d~~~id~~g~i~~~~---s~~~~~~~~~~v~~~~~~~~~~~---~~~~~~-----~~~~iiv~NK~Dl~~~~~----  181 (226)
T 2hf9_A          117 DEIDLLFIENVGNLICPA---DFDLGTHKRIVVISTTEGDDTIE---KHPGIM-----KTADLIVINKIDLADAVG----  181 (226)
T ss_dssp             GGCSEEEEECCSCSSGGG---GCCCSCSEEEEEEEGGGCTTTTT---TCHHHH-----TTCSEEEEECGGGHHHHT----
T ss_pred             CCCCEEEEeCCCCccCcc---hhhhccCcEEEEEecCcchhhHh---hhhhHh-----hcCCEEEEeccccCchhH----
Confidence               344455554211000   01112334455566422111100   011111     367899999999975432    


Q ss_pred             CCCCCcccHHHHHHHHHHhC-CcEEEEecccCccCC
Q 030961          134 HPGLVPVTTAQGEELRKQIG-ASYYIECSSKTQQVC  168 (168)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i  168 (168)
                            ...+++..++..++ ..+++++||++|+||
T Consensus       182 ------~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv  211 (226)
T 2hf9_A          182 ------ADIKKMENDAKRINPDAEVVLLSLKTMEGF  211 (226)
T ss_dssp             ------CCHHHHHHHHHHHCTTSEEEECCTTTCTTH
T ss_pred             ------HHHHHHHHHHHHhCCCCeEEEEEecCCCCH
Confidence                  45666777776653 238999999999985

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.60  E-value=2e-15  Score=105.61  Aligned_cols=141  Identities=17%  Similarity=0.068  Sum_probs=83.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece------------e-EEEEECC------------------eE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF------------S-ANVVAEG------------------TT   55 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~------------~-~~~~~~~------------------~~   55 (168)
                      ...+++++|.+|+|||||+++|............+..++            . ....++.                  ..
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            467899999999999999999986522111011111000            0 0011111                  23


Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCC
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHP  135 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  135 (168)
                      +.+.+|||+|+.....   .+....+.+++|+|+.+....  . ..+...+     +.|.++++||+|+.....      
T Consensus       109 ~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~~--~-~~~~~~~-----~~~~iiv~NK~Dl~~~~~------  171 (221)
T 2wsm_A          109 CDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDDV--V-EKHPEIF-----RVADLIVINKVALAEAVG------  171 (221)
T ss_dssp             CSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTTH--H-HHCHHHH-----HTCSEEEEECGGGHHHHT------
T ss_pred             CCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcchh--h-hhhhhhh-----hcCCEEEEecccCCcchh------
Confidence            5677899998511111   111256789999998765421  1 1122211     478999999999965422      


Q ss_pred             CCCcccHHHHHHHHHHhC-CcEEEEecccCccCC
Q 030961          136 GLVPVTTAQGEELRKQIG-ASYYIECSSKTQQVC  168 (168)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i  168 (168)
                          ...++....+...+ ..+++++||++|+|+
T Consensus       172 ----~~~~~~~~~~~~~~~~~~i~~~Sa~~g~gi  201 (221)
T 2wsm_A          172 ----ADVEKMKADAKLINPRAKIIEMDLKTGKGF  201 (221)
T ss_dssp             ----CCHHHHHHHHHHHCTTSEEEECBTTTTBTH
T ss_pred             ----hHHHHHHHHHHHhCCCCeEEEeecCCCCCH
Confidence                34555666665543 238999999999985

>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=99.58  E-value=1.9e-14  Score=107.79  Aligned_cols=82  Identities=20%  Similarity=0.177  Sum_probs=53.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCC--ceeeceeEEEEECC-------------------eEEEEEEEeCCCCc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIP--TVFDNFSANVVAEG-------------------TTVNLGLWDTAGQE   67 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~-------------------~~~~~~i~D~~g~~   67 (168)
                      ++|+++|.||+|||||+|++.+........+  |+..... ...+++                   ....+.+|||||..
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g-~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~   80 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVG-VVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLV   80 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEE-EEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceecccee-eEecChHHHHHHHHHhcccccccccCCceEEEEECCCcc
Confidence            5799999999999999999987642111111  1111111 111221                   23578899999987


Q ss_pred             cccc----ccc---ccccCCcEEEEEEeCCC
Q 030961           68 DYNR----LRP---LSYRGADVFVLAFSLVS   91 (168)
Q Consensus        68 ~~~~----~~~---~~~~~~~~~i~v~d~~~   91 (168)
                      ....    +..   ..++.+|++++|+|+++
T Consensus        81 ~~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           81 KGAHKGEGLGNQFLAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             CCCCSSSCTTHHHHHHHHTCSEEEEEEECCC
T ss_pred             ccccccchHHHHHHHHHHhCCEEEEEEECCC
Confidence            6532    222   23689999999999975

>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=99.55  E-value=3e-15  Score=112.03  Aligned_cols=95  Identities=14%  Similarity=0.024  Sum_probs=57.9

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcC
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADH  134 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~  134 (168)
                      .+.+.+|||||...   .....+..+|++++|+|....+.+..+        .....+.|+++|+||+|+.......   
T Consensus       171 ~~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l--------~~~~~~~p~ivVlNK~Dl~~~~~~~---  236 (355)
T 3p32_A          171 GFDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGI--------KKGVLELADIVVVNKADGEHHKEAR---  236 (355)
T ss_dssp             TCCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTC--------CTTSGGGCSEEEEECCCGGGHHHHH---
T ss_pred             CCCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHH--------HHhHhhcCCEEEEECCCCcChhHHH---
Confidence            36788899999432   122235789999999998765544322        1111246899999999996543200   


Q ss_pred             CCCCcccHHHHHHHHHHh-----CC-cEEEEecccCccCC
Q 030961          135 PGLVPVTTAQGEELRKQI-----GA-SYYIECSSKTQQVC  168 (168)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~-----~~-~~~~~~Sa~~~~~i  168 (168)
                           ...++........     ++ .+++++||++|+||
T Consensus       237 -----~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi  271 (355)
T 3p32_A          237 -----LAARELSAAIRLIYPREALWRPPVLTMSAVEGRGL  271 (355)
T ss_dssp             -----HHHHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSH
T ss_pred             -----HHHHHHHHHHhhccccccCCCCceEEEEcCCCCCH
Confidence                 1112222222222     11 37999999999985

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.48  E-value=7.4e-15  Score=109.59  Aligned_cols=91  Identities=15%  Similarity=0.068  Sum_probs=50.3

Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCC
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHP  135 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  135 (168)
                      +.+.++||+|....   .......+|++++|+|++++...... .   ..+    -+.|.++++||+|+.....      
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i-~---~~i----l~~~~ivVlNK~Dl~~~~~------  229 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGI-K---RGI----IEMADLVAVTKSDGDLIVP------  229 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHH------
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHh-H---HHH----HhcCCEEEEeeecCCCchh------
Confidence            56788999995311   12235689999999999876533222 1   111    1357899999999964321      


Q ss_pred             CCCcccHHHHHHHHHHh---------CCcEEEEecccCccCC
Q 030961          136 GLVPVTTAQGEELRKQI---------GASYYIECSSKTQQVC  168 (168)
Q Consensus       136 ~~~~~~~~~~~~~~~~~---------~~~~~~~~Sa~~~~~i  168 (168)
                          . ......+....         ...+++++||++|+|+
T Consensus       230 ----~-~~~~~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi  266 (349)
T 2www_A          230 ----A-RRIQAEYVSALKLLRKRSQVWKPKVIRISARSGEGI  266 (349)
T ss_dssp             ----H-HHHHHHHHHHHTTCC-----CCCEEEECCTTTCTTH
T ss_pred             ----H-HHHHHHHHHHHHhcCccccCCCceEEEEecCCCCCH
Confidence                0 11122222111         1237899999999985

>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=99.48  E-value=6.4e-14  Score=112.93  Aligned_cols=150  Identities=19%  Similarity=0.139  Sum_probs=88.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCC-CCCCCCcee--e---------ce----------------------------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVF--D---------NF----------------------------   45 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~-~~~~~~~~~--~---------~~----------------------------   45 (168)
                      ...++|+|+|.+++|||||+|.|++..+ +.....+..  .         .+                            
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            3467999999999999999999999775 211110000  0         00                            


Q ss_pred             ----------eEEEEE-CCeEEEEEEEeCCCCccc-------------cccccccc-cCCcEEEEEEeCCChhHHHHHHH
Q 030961           46 ----------SANVVA-EGTTVNLGLWDTAGQEDY-------------NRLRPLSY-RGADVFVLAFSLVSRASYENVLK  100 (168)
Q Consensus        46 ----------~~~~~~-~~~~~~~~i~D~~g~~~~-------------~~~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~  100 (168)
                                ...+.+ ......+.++||||-...             ..+...++ ..+|++++|+|+++...-... .
T Consensus       129 ~g~~~~is~~~i~l~I~~P~~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~-l  207 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA-L  207 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETTCCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHH-H
T ss_pred             cCCCCcccccceEEEEecCCCCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHH-H
Confidence                      000111 011124678999995441             11222333 578999999999875443332 2


Q ss_pred             hHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH--HHHHhCCcEEEEecccCccCC
Q 030961          101 KWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE--LRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       101 ~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      .++..+..  .+.|+++|+||+|+.....          ........  +....++.+++.+||++|.|+
T Consensus       208 ~ll~~L~~--~g~pvIlVlNKiDlv~~~~----------~~~~il~~~~~~l~lg~~~VV~iSA~~G~Gv  265 (772)
T 3zvr_A          208 KIAKEVDP--QGQRTIGVITKLDLMDEGT----------DARDVLENKLLPLRRGYIGVVNRSQKDIDGK  265 (772)
T ss_dssp             HHHHHHCT--TCSSEEEEEECTTSSCTTC----------CSHHHHTTCSSCCSSCEEECCCCCCEESSSS
T ss_pred             HHHHHHHh--cCCCEEEEEeCcccCCcch----------hhHHHHHHHhhhhhccCCceEEecccccccc
Confidence            45555554  4689999999999976532          11111110  000124446788999999985

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.45  E-value=5e-13  Score=104.98  Aligned_cols=132  Identities=11%  Similarity=0.027  Sum_probs=89.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC--CC-------------CCCCCce-----eece-eEEEEECCeEEEEEEEeCCC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNK--FP-------------TDYIPTV-----FDNF-SANVVAEGTTVNLGLWDTAG   65 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~--~~-------------~~~~~~~-----~~~~-~~~~~~~~~~~~~~i~D~~g   65 (168)
                      +.-+|+++|+.++|||||..+|+...  ..             ...+...     +... ...+......+.+.++||||
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPG  109 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRDRVVNLLDTPG  109 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETTEEEEEECCCC
T ss_pred             ccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECCEEEEEEeCCC
Confidence            56789999999999999999986321  00             0000000     0011 11122233456788899999


Q ss_pred             CccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHH
Q 030961           66 QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQG  145 (168)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  145 (168)
                      +..|.......++-+|++++|+|+..+-..+.. .-| +++.+  .++|.++++||+|....+.            .+-.
T Consensus       110 HvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~-~v~-~~a~~--~~lp~i~fINK~Dr~~ad~------------~~~~  173 (548)
T 3vqt_A          110 HQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTR-KLM-DVCRM--RATPVMTFVNKMDREALHP------------LDVM  173 (548)
T ss_dssp             GGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHH-HHH-HHHHH--TTCCEEEEEECTTSCCCCH------------HHHH
T ss_pred             cHHHHHHHHHHHHhcCceEEEeecCCCcccccH-HHH-HHHHH--hCCceEEEEecccchhcch------------hHhh
Confidence            999999999999999999999999988777664 444 44444  3699999999999876642            3444


Q ss_pred             HHHHHHhCC
Q 030961          146 EELRKQIGA  154 (168)
Q Consensus       146 ~~~~~~~~~  154 (168)
                      .++...++.
T Consensus       174 ~~i~~~l~~  182 (548)
T 3vqt_A          174 ADIEQHLQI  182 (548)
T ss_dssp             HHHHHHHTS
T ss_pred             hhhhhhcCC
Confidence            555555655

>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=99.45  E-value=2e-13  Score=97.77  Aligned_cols=69  Identities=17%  Similarity=-0.000  Sum_probs=41.8

Q ss_pred             EEEEEEeCCCCcccccccc------ccccCCcEEEEEEeCCCh---hHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           56 VNLGLWDTAGQEDYNRLRP------LSYRGADVFVLAFSLVSR---ASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~------~~~~~~~~~i~v~d~~~~---~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      +.+.+|||||.........      ..+.. +++++++|+...   ..+.............  .+.|+++|+||+|+..
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~--~~~p~~iv~NK~D~~~  185 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLR--LGATTIPALNKVDLLS  185 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHH--HTSCEEEEECCGGGCC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcc--cCCCeEEEEecccccc
Confidence            5788999999876533221      13355 888889887543   3333221111111111  3689999999999875


Q ss_pred             c
Q 030961          127 D  127 (168)
Q Consensus       127 ~  127 (168)
                      .
T Consensus       186 ~  186 (262)
T 1yrb_A          186 E  186 (262)
T ss_dssp             H
T ss_pred             c
Confidence            4

>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=99.44  E-value=4.2e-13  Score=98.28  Aligned_cols=89  Identities=17%  Similarity=0.104  Sum_probs=72.8

Q ss_pred             CccccccccccccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCccc-HH
Q 030961           66 QEDYNRLRPLSYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVT-TA  143 (168)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~  143 (168)
                      ++++..+.+.+++++|++++|+|++++. ++..+ +.|+..+..  .++|+++|+||+|+.+...          +. .+
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l-~~~l~~~~~--~~~~~ilV~NK~DL~~~~~----------v~~~~  132 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLL-DNMLVVYEY--FKVEPVIVFNKIDLLNEEE----------KKELE  132 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHH-HHHHHHHHH--TTCEEEEEECCGGGCCHHH----------HHHHH
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHH-HHHHHHHHh--CCCCEEEEEEcccCCCccc----------cHHHH
Confidence            7778888888999999999999999986 88876 788887766  5799999999999975532          22 45


Q ss_pred             HHHHHHHHhCCcEEEEecccCccCC
Q 030961          144 QGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       144 ~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      +...+.+..+. +++++||++|+|+
T Consensus       133 ~~~~~~~~~g~-~~~~~SA~~g~gi  156 (302)
T 2yv5_A          133 RWISIYRDAGY-DVLKVSAKTGEGI  156 (302)
T ss_dssp             HHHHHHHHTTC-EEEECCTTTCTTH
T ss_pred             HHHHHHHHCCC-eEEEEECCCCCCH
Confidence            56666777787 8999999999985

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.43  E-value=1.9e-12  Score=97.01  Aligned_cols=141  Identities=12%  Similarity=0.043  Sum_probs=84.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccc----ccc---cccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR----LRP---LSYR   78 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~----~~~---~~~~   78 (168)
                      ...+|.+||.||+|||||+|+|.+.+......+-.+.+. ...+.+++.  +++++||||...-..    +..   ..++
T Consensus        71 g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~~--~i~l~D~pGl~~~a~~~~~~g~~~l~~i~  148 (376)
T 4a9a_A           71 GVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKGA--KIQMLDLPGIIDGAKDGRGRGKQVIAVAR  148 (376)
T ss_dssp             SSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETTE--EEEEEECGGGCCC-----CHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCCc--EEEEEeCCCccCCchhhhHHHHHHHHHHH
Confidence            356899999999999999999998764333233222222 234455554  566799999643211    111   2356


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCC
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGA  154 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (168)
                      .+|++++|+|++++..-..   .+..+|....   .+.|.+++.||.|......  ...........++.+.+...+.+
T Consensus       149 ~ad~il~vvD~~~p~~~~~---~i~~EL~~~~~~l~~k~~~i~~nK~d~~gi~i--~~~~~~~~l~~eeik~il~~~~l  222 (376)
T 4a9a_A          149 TCNLLFIILDVNKPLHHKQ---IIEKELEGVGIRLNKTPPDILIKKKEKGGISI--TNTVPLTHLGNDEIRAVMSEYRI  222 (376)
T ss_dssp             HCSEEEEEEETTSHHHHHH---HHHHHHHHTTEEETCCCCCEEEEECSSSCEEE--EESSCCSSCCHHHHHHHHHHTTC
T ss_pred             hcCccccccccCccHHHHH---HHHHHHHHhhHhhccCChhhhhhHhhhhhhhh--hcchhhhhccHHHHHHHHHHhcc
Confidence            8999999999998754332   2333333322   4678889999999753321  11111122455666666555544

>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=99.41  E-value=1.9e-14  Score=107.11  Aligned_cols=93  Identities=15%  Similarity=0.091  Sum_probs=54.7

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcC
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADH  134 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~  134 (168)
                      .+.+.+|||||.......   ....+|++++|+|++....+..+    ....    .+.|.++|+||+|+.....     
T Consensus       148 ~~~i~liDTpG~~~~~~~---~~~~aD~vl~Vvd~~~~~~~~~l----~~~~----~~~p~ivv~NK~Dl~~~~~-----  211 (341)
T 2p67_A          148 GYDVVIVETVGVGQSETE---VARMVDCFISLQIAGGGDDLQGI----KKGL----MEVADLIVINKDDGDNHTN-----  211 (341)
T ss_dssp             TCSEEEEEEECCTTHHHH---HHTTCSEEEEEECC------CCC----CHHH----HHHCSEEEECCCCTTCHHH-----
T ss_pred             CCCEEEEeCCCccchHHH---HHHhCCEEEEEEeCCccHHHHHH----HHhh----hcccCEEEEECCCCCChHH-----
Confidence            357889999996543222   35789999999998765432211    0011    1368899999999965422     


Q ss_pred             CCCCccc--HHHHHHHHHHhC------CcEEEEecccCccCC
Q 030961          135 PGLVPVT--TAQGEELRKQIG------ASYYIECSSKTQQVC  168 (168)
Q Consensus       135 ~~~~~~~--~~~~~~~~~~~~------~~~~~~~Sa~~~~~i  168 (168)
                           ..  .++.+.....++      ..+++++||++|+|+
T Consensus       212 -----~~~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi  248 (341)
T 2p67_A          212 -----VAIARHMYESALHILRRKYDEWQPRVLTCSALEKRGI  248 (341)
T ss_dssp             -----HHHHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSH
T ss_pred             -----HHHHHHHHHHHHHhccccccCCCCcEEEeeCCCCCCH
Confidence                 11  112232222222      247899999999985

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.37  E-value=4.8e-12  Score=102.30  Aligned_cols=119  Identities=18%  Similarity=0.154  Sum_probs=81.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC--------CCCCCCCCc--eeeceeEEE---------EEC-----CeEEEEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN--------KFPTDYIPT--VFDNFSANV---------VAE-----GTTVNLGLW   61 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~--------~~~~~~~~~--~~~~~~~~~---------~~~-----~~~~~~~i~   61 (168)
                      +++-+|+++|+.++|||||..+|+..        ........+  ...+....+         ...     ...+.+.++
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            56778999999999999999998732        111100000  000111111         111     235789999


Q ss_pred             eCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           62 DTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        62 D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                      ||||+..|.......++-+|++++|+|+..+-..+.. .-|.+....   ++|.++++||+|....+
T Consensus        91 DTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~-~v~~~a~~~---~lp~i~~iNKiDr~~a~  153 (709)
T 4fn5_A           91 DTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSE-TVWRQANKY---GVPRIVYVNKMDRQGAN  153 (709)
T ss_dssp             CCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHH-HHHHHHHHH---TCCEEEEEECSSSTTCC
T ss_pred             eCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHH-HHHHHHHHc---CCCeEEEEccccccCcc
Confidence            9999999999999999999999999999988766653 334444333   69999999999987653

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.36  E-value=9.6e-14  Score=110.90  Aligned_cols=116  Identities=16%  Similarity=0.080  Sum_probs=80.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc--CCCCCC---CCC-ce----------eece-eEEEEECCeEEEEEEEeCCCCcccc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS--NKFPTD---YIP-TV----------FDNF-SANVVAEGTTVNLGLWDTAGQEDYN   70 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~--~~~~~~---~~~-~~----------~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~   70 (168)
                      +-+|+++|+.++|||||..+|+.  +.....   ... +.          +.+. ..........+.+.++||||+..|.
T Consensus         2 IRNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~   81 (638)
T 3j25_A            2 IINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFL   81 (638)
T ss_dssp             CCCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTH
T ss_pred             eeEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHH
Confidence            45799999999999999999873  211110   000 00          0111 1122234445678889999999999


Q ss_pred             ccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           71 RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        71 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      ......++-+|++++|+|+...-..+.. .-| .++.+.  ++|.++++||+|....
T Consensus        82 ~Ev~raL~~~DgavlVVDa~~GV~~qT~-~v~-~~a~~~--~lp~i~~INKmDr~~a  134 (638)
T 3j25_A           82 AEVYRSLSVLDGAILLISAKDGVQAQTR-ILF-HALRKM--GIPTIFFINKIDQNGI  134 (638)
T ss_dssp             HHHHHHHTTCSEEECCEESSCTTCSHHH-HHH-HHHHHH--TCSCEECCEECCSSSC
T ss_pred             HHHHHHHHHhCEEEEEEeCCCCCcHHHH-HHH-HHHHHc--CCCeEEEEeccccccC
Confidence            9999999999999999999987665553 334 444442  6899999999998654

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.35  E-value=6.6e-13  Score=99.98  Aligned_cols=88  Identities=16%  Similarity=0.073  Sum_probs=49.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCe---------------EEEEEEEeCCCCcccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGT---------------TVNLGLWDTAGQEDYN   70 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~---------------~~~~~i~D~~g~~~~~   70 (168)
                      ..++++++|.+|+|||||+|++.+..+.....+..+... ...+.+++.               ...+.+|||||.....
T Consensus        21 ~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~a  100 (396)
T 2ohf_A           21 TSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKGA  100 (396)
T ss_dssp             SCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC-----
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCccccc
Confidence            457899999999999999999998865433333333332 223333332               2358899999987654


Q ss_pred             c-------cccccccCCcEEEEEEeCCChhH
Q 030961           71 R-------LRPLSYRGADVFVLAFSLVSRAS   94 (168)
Q Consensus        71 ~-------~~~~~~~~~~~~i~v~d~~~~~s   94 (168)
                      .       .+..+++++|++++|+|+.+.++
T Consensus       101 s~~~glg~~~l~~ir~aD~Il~VvD~~~~~~  131 (396)
T 2ohf_A          101 HNGQGLGNAFLSHISACDGIFHLTRAFEDDD  131 (396)
T ss_dssp             ------CCHHHHHHHTSSSEEEEEEC-----
T ss_pred             chhhHHHHHHHHHHHhcCeEEEEEecCCCcc
Confidence            3       23445789999999999876444

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.25  E-value=9.4e-12  Score=92.39  Aligned_cols=93  Identities=14%  Similarity=0.111  Sum_probs=52.2

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcC
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADH  134 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~  134 (168)
                      .+.+.++||+|...-.   ......+|.+++++|....+....+ ...   +.    +.+.++++||+|+.....     
T Consensus       147 ~~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i-~~~---i~----~~~~ivvlNK~Dl~~~~~-----  210 (337)
T 2qm8_A          147 GFDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGI-KKG---IF----ELADMIAVNKADDGDGER-----  210 (337)
T ss_dssp             TCCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------C-CTT---HH----HHCSEEEEECCSTTCCHH-----
T ss_pred             CCCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHH-HHH---Hh----ccccEEEEEchhccCchh-----
Confidence            4578889999964321   1224689999999998654432211 111   11    235577779999754322     


Q ss_pred             CCCCcccHHHHHHHHHHh---C------CcEEEEecccCccCC
Q 030961          135 PGLVPVTTAQGEELRKQI---G------ASYYIECSSKTQQVC  168 (168)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~---~------~~~~~~~Sa~~~~~i  168 (168)
                           ......+.+....   .      ..+++.+||+++.|+
T Consensus       211 -----~s~~~~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi  248 (337)
T 2qm8_A          211 -----RASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGL  248 (337)
T ss_dssp             -----HHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSH
T ss_pred             -----HHHHHHHHHHHHHHhccccccCCCCCEEEEeCCCCCCH
Confidence                 2222233333321   1      236889999999884

>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=99.21  E-value=6.2e-12  Score=86.43  Aligned_cols=92  Identities=7%  Similarity=-0.066  Sum_probs=57.7

Q ss_pred             CCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhH---HHHHchhC--CCCcEEEEeeCC-cccccchhhhcCCC
Q 030961           63 TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKW---IPELQHYS--PGVPVVLVGTKL-DLREDKHYLADHPG  136 (168)
Q Consensus        63 ~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~---~~~l~~~~--~~~p~ivv~nK~-D~~~~~~~~~~~~~  136 (168)
                      .+|++.++.+|..++.++|++|||+|.+|++.++ ..+++   ...+....  .+.|++|++||. |+...         
T Consensus       109 ~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~A---------  178 (227)
T 3l82_B          109 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR---------  178 (227)
T ss_dssp             --------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCB---------
T ss_pred             cCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCC---------
Confidence            3489999999999999999999999999886443 32334   44444432  578999999995 67543         


Q ss_pred             CCcccHHHHHHHHH----HhCCcEEEEecccCccCC
Q 030961          137 LVPVTTAQGEELRK----QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       137 ~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~~i  168 (168)
                         .+..+..+...    ...| .+..|||++|+|+
T Consensus       179 ---ms~~EI~e~L~L~~l~R~W-~Iq~csA~TGeGL  210 (227)
T 3l82_B          179 ---MPCFYLAHELHLNLLNHPW-LVQDTEAETLTGF  210 (227)
T ss_dssp             ---CCHHHHHHHTTGGGGCSCE-EEEEEETTTCTTH
T ss_pred             ---CCHHHHHHHcCCcCCCCCE-EEEEeECCCCcCH
Confidence               34433332221    2344 6788999999984

>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=99.02  E-value=1.7e-10  Score=83.04  Aligned_cols=92  Identities=8%  Similarity=-0.068  Sum_probs=62.1

Q ss_pred             CCCCccccccccccccCCcEEEEEEeCCChhHHHHHHH---hHHHHHchh--CCCCcEEEEeeC-CcccccchhhhcCCC
Q 030961           63 TAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLK---KWIPELQHY--SPGVPVVLVGTK-LDLREDKHYLADHPG  136 (168)
Q Consensus        63 ~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~---~~~~~l~~~--~~~~p~ivv~nK-~D~~~~~~~~~~~~~  136 (168)
                      .+||+.++.+|..++.++|++|||+|.+|++.++ ..+   ++...+...  ..+.|++|++|| .|+...         
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A---------  263 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR---------  263 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB---------
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC---------
Confidence            4688999999999999999999999999987543 223   233444432  257999999997 577544         


Q ss_pred             CCcccHHHHHHHHH----HhCCcEEEEecccCccCC
Q 030961          137 LVPVTTAQGEELRK----QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       137 ~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~~i  168 (168)
                         .+..+..+...    ...+ .+..|||++|+|+
T Consensus       264 ---ms~~EI~e~L~L~~l~r~W-~Iq~csA~tGeGL  295 (312)
T 3l2o_B          264 ---MPCFYLAHELHLNLLNHPW-LVQDTEAETLTGF  295 (312)
T ss_dssp             ---CCHHHHHHHTTGGGGCSCE-EEEEEETTTCTTH
T ss_pred             ---CCHHHHHHHcCCccCCCcE-EEEecccCCCcCH
Confidence               34333322211    1344 6788999999985

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.97  E-value=9.1e-11  Score=88.12  Aligned_cols=113  Identities=14%  Similarity=0.063  Sum_probs=65.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC------CCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccc----ccccc-
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN------KFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR----LRPLS-   76 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----~~~~~-   76 (168)
                      ..+++++|.+|+|||||+|.+.+.      .......+..+. ....+.++..   +.++||||-.....    +.... 
T Consensus       162 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~-~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l  237 (369)
T 3ec1_A          162 GGDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTL-DMIEIPLESG---ATLYDTPGIINHHQMAHFVDARDL  237 (369)
T ss_dssp             TSCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSC-EEEEEECSTT---CEEEECCSCCCCSSGGGGSCTTTH
T ss_pred             cCcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEE-eeEEEEeCCC---eEEEeCCCcCcHHHHHHHHhHHHH
Confidence            357999999999999999999975      221111111111 1122333322   67899999643221    11111 


Q ss_pred             --c---cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           77 --Y---RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        77 --~---~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                        +   +..+.++++++.....-+..+  ..+..+..  .+.|+++++||+|.....
T Consensus       238 ~~~~~~~~i~~~~~~l~~~~~~~~g~l--~~l~~l~~--~~~~~~~v~~k~d~~~~~  290 (369)
T 3ec1_A          238 KIITPKREIHPRVYQLNEGQTLFFGGL--ARLDYIKG--GRRSFVCYMANELTVHRT  290 (369)
T ss_dssp             HHHSCSSCCCCEEEEECTTEEEEETTT--EEEEEEES--SSEEEEEEECTTSCEEEE
T ss_pred             HHHhcccccCceEEEEcCCceEEECCE--EEEEEccC--CCceEEEEecCCcccccc
Confidence              1   568899999987432111121  11222332  468999999999987654

>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=98.96  E-value=1.2e-09  Score=82.33  Aligned_cols=85  Identities=19%  Similarity=0.139  Sum_probs=57.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC-CCCCCCceeece-eEEEEECCe---------------EEEEEEEeCCCCccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNF-SANVVAEGT---------------TVNLGLWDTAGQEDY   69 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~-~~~~~~~~~~~~-~~~~~~~~~---------------~~~~~i~D~~g~~~~   69 (168)
                      ...++.++|++|+|||||+|.+.+... .....|..+... ...+.+.+.               ...+.+||+||....
T Consensus        19 ~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~~   98 (392)
T 1ni3_A           19 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKG   98 (392)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccccC
Confidence            356899999999999999999999765 344444333333 233445441               135788999995432


Q ss_pred             cc-------cccccccCCcEEEEEEeCCC
Q 030961           70 NR-------LRPLSYRGADVFVLAFSLVS   91 (168)
Q Consensus        70 ~~-------~~~~~~~~~~~~i~v~d~~~   91 (168)
                      ..       .....++.+|++++|+|+.+
T Consensus        99 ~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           99 ASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            21       22234578999999999863

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.90  E-value=1.1e-10  Score=87.68  Aligned_cols=114  Identities=10%  Similarity=0.001  Sum_probs=64.4

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCC-C----CCCceeece-eEEEEECCeEEEEEEEeCCCCcccccc----cccc-
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPT-D----YIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRL----RPLS-   76 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~-~----~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~----~~~~-   76 (168)
                      ..+++++|.+|+|||||+|++++..... .    .....+++. ...+.+...   +.++||||-.....+    .... 
T Consensus       160 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l  236 (368)
T 3h2y_A          160 GKDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQSL  236 (368)
T ss_dssp             TSCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSS---CEEEECCCBCCTTSGGGGSCHHHH
T ss_pred             cceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCC---eEEEeCCCcCcHHHHHHHhhHHHH
Confidence            3579999999999999999998753111 0    011111111 112233322   678999996433211    1111 


Q ss_pred             -----ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           77 -----YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        77 -----~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                           .+..+.++++++.....-+..+  ..++.+..  .+.|+++++||+|.....
T Consensus       237 ~~~~~~~~i~~~~~~l~~~~~~~~g~l--~~~d~l~~--~~~~~~~v~nk~d~~~~~  289 (368)
T 3h2y_A          237 KLITPTKEIKPMVFQLNEEQTLFFSGL--ARFDYVSG--GRRAFTCHFSNRLTIHRT  289 (368)
T ss_dssp             HHHSCSSCCCCEEEEECTTEEEEETTT--EEEEEEES--SSEEEEEEECTTSCEEEE
T ss_pred             HHhccccccCceEEEEcCCCEEEEcce--EEEEEecC--CCceEEEEecCccccccc
Confidence                 2567888888886332111121  11222332  468999999999988664

>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=98.86  E-value=7.8e-08  Score=73.15  Aligned_cols=116  Identities=15%  Similarity=0.143  Sum_probs=63.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCC--ceeece-eEEEEEC--CeEEEEEEEeCCCCccccc-----------
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIP--TVFDNF-SANVVAE--GTTVNLGLWDTAGQEDYNR-----------   71 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~--~~~~~~-~~~~~~~--~~~~~~~i~D~~g~~~~~~-----------   71 (168)
                      .++++++|++|+|||||++.+.+..+......  ..+... ...+...  +....+.++|++|......           
T Consensus        42 i~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~~~i~~~  121 (427)
T 2qag_B           42 CFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKPIVEF  121 (427)
T ss_dssp             EEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHSHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhhhHHHHH
Confidence            45799999999999999999998754321111  011111 1122222  2334788899998532100           


Q ss_pred             -------cccc---------cccCC--cE-EEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           72 -------LRPL---------SYRGA--DV-FVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        72 -------~~~~---------~~~~~--~~-~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                             ....         ...++  |+ ++|+.|...+.+...  .++++.+.   .+.|+++|.||+|.....
T Consensus       122 i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~D--ieilk~L~---~~~~vI~Vi~KtD~Lt~~  192 (427)
T 2qag_B          122 IDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLD--LVTMKKLD---SKVNIIPIIAKADAISKS  192 (427)
T ss_dssp             HHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHH--HHHHHHTC---SCSEEEEEESCGGGSCHH
T ss_pred             HHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHH--HHHHHHHh---hCCCEEEEEcchhccchH
Confidence                   0000         11222  33 556667665544333  34555554   478999999999986543

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.84  E-value=2.2e-09  Score=80.60  Aligned_cols=87  Identities=22%  Similarity=0.268  Sum_probs=64.3

Q ss_pred             CCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHH
Q 030961           65 GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQ  144 (168)
Q Consensus        65 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~  144 (168)
                      ..+.|+.+.+...+.++++++|+|+.++.      ..|...+.+...+.|+++|+||+|+.+..           ...++
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~------~~~~~~l~~~~~~~p~ilV~NK~DL~~~~-----------~~~~~  117 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN------GSWLPGLHRFVGNNKVLLVGNKADLIPKS-----------VKHDK  117 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH------HHCCTTHHHHSSSSCEEEEEECGGGSCTT-----------SCHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc------ccHHHHHHHHhCCCcEEEEEEChhcCCcc-----------cCHHH
Confidence            45778888888888999999999998853      34656666655689999999999997543           22223


Q ss_pred             ----HHHHHHHhCC--cEEEEecccCccCC
Q 030961          145 ----GEELRKQIGA--SYYIECSSKTQQVC  168 (168)
Q Consensus       145 ----~~~~~~~~~~--~~~~~~Sa~~~~~i  168 (168)
                          ...+++..+.  ..++++||++|.||
T Consensus       118 ~~~~l~~~~~~~g~~~~~v~~iSA~~g~gi  147 (368)
T 3h2y_A          118 VKHWMRYSAKQLGLKPEDVFLISAAKGQGI  147 (368)
T ss_dssp             HHHHHHHHHHHTTCCCSEEEECCTTTCTTH
T ss_pred             HHHHHHHHHHHcCCCcccEEEEeCCCCcCH
Confidence                3344566665  27899999999985

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.80  E-value=7.7e-08  Score=69.23  Aligned_cols=115  Identities=15%  Similarity=0.118  Sum_probs=63.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCC-------Cceeece-eEEEEECC--eEEEEEEEeCCCCccccc---c--
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYI-------PTVFDNF-SANVVAEG--TTVNLGLWDTAGQEDYNR---L--   72 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~-------~~~~~~~-~~~~~~~~--~~~~~~i~D~~g~~~~~~---~--   72 (168)
                      .++++++|+.|+|||||++.+++......-.       ....... ...+....  ....+.++|++|-.....   .  
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~   81 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWE   81 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHH
Confidence            4789999999999999999998743221100       0000001 11222222  223678899998421100   0  


Q ss_pred             -----------------------ccccccCCcEEEEEEeCC-ChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           73 -----------------------RPLSYRGADVFVLAFSLV-SRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        73 -----------------------~~~~~~~~~~~i~v~d~~-~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                                             ....+..+++.++++|.. .+-+-..  ..++..+.+   ..++++|.+|+|....
T Consensus        82 ~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD--~~~l~~L~~---~~~vI~Vi~K~D~lt~  155 (270)
T 3sop_A           82 PIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD--LEFMKHLSK---VVNIIPVIAKADTMTL  155 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH--HHHHHHHHT---TSEEEEEETTGGGSCH
T ss_pred             HHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH--HHHHHHHHh---cCcEEEEEeccccCCH
Confidence                                   011122467888888843 3222222  345555554   3899999999998754

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.77  E-value=2.2e-09  Score=83.34  Aligned_cols=115  Identities=18%  Similarity=0.118  Sum_probs=64.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHh------cCCCC---CC-CCCcee-------eceeEE-EEE----------------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYT------SNKFP---TD-YIPTVF-------DNFSAN-VVA----------------   51 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~------~~~~~---~~-~~~~~~-------~~~~~~-~~~----------------   51 (168)
                      .+...|+++|.+||||||++++|.      +.+..   .+ +.+...       ...... +..                
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~  178 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEK  178 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHH
Confidence            345689999999999999999998      33210   00 011000       000000 000                


Q ss_pred             -CCeEEEEEEEeCCCCccccc-cccc---c--ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcE-EEEeeCCc
Q 030961           52 -EGTTVNLGLWDTAGQEDYNR-LRPL---S--YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPV-VLVGTKLD  123 (168)
Q Consensus        52 -~~~~~~~~i~D~~g~~~~~~-~~~~---~--~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~-ivv~nK~D  123 (168)
                       ....+.+.++||||...... ++..   .  ...+|.+++|+|+........    ....+.+   ..|+ .+|.||.|
T Consensus       179 ~~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~----~a~~~~~---~~~i~gvVlNK~D  251 (504)
T 2j37_W          179 FKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEA----QAKAFKD---KVDVASVIVTKLD  251 (504)
T ss_dssp             HHHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHH----HHHHHHH---HHCCCCEEEECTT
T ss_pred             HHHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHH----HHHHHHh---hcCceEEEEeCCc
Confidence             00346788999999754221 1111   0  237899999999987543222    2233333   2575 78899999


Q ss_pred             cccc
Q 030961          124 LRED  127 (168)
Q Consensus       124 ~~~~  127 (168)
                      ....
T Consensus       252 ~~~~  255 (504)
T 2j37_W          252 GHAK  255 (504)
T ss_dssp             SCCC
T ss_pred             cccc
Confidence            8743

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.70  E-value=6.7e-09  Score=77.97  Aligned_cols=91  Identities=16%  Similarity=0.203  Sum_probs=62.6

Q ss_pred             CCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHH
Q 030961           65 GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQ  144 (168)
Q Consensus        65 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~  144 (168)
                      .++.|+...+.....++++++|+|++++.+      .|...+.+...+.|+++|+||+|+.+....       .....+.
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~------s~~~~l~~~l~~~piilV~NK~DLl~~~~~-------~~~~~~~  123 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG------SFIPGLPRFAADNPILLVGNKADLLPRSVK-------YPKLLRW  123 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG------GCCSSHHHHCTTSCEEEEEECGGGSCTTCC-------HHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC------chhhHHHHHhCCCCEEEEEEChhcCCCccC-------HHHHHHH
Confidence            477888888888889999999999998773      344444444457899999999999754210       0011223


Q ss_pred             HHHHHHHhCC--cEEEEecccCccCC
Q 030961          145 GEELRKQIGA--SYYIECSSKTQQVC  168 (168)
Q Consensus       145 ~~~~~~~~~~--~~~~~~Sa~~~~~i  168 (168)
                      ...+++..+.  ..++.+||++|.|+
T Consensus       124 l~~~~~~~g~~~~~v~~iSA~~g~gi  149 (369)
T 3ec1_A          124 MRRMAEELGLCPVDVCLVSAAKGIGM  149 (369)
T ss_dssp             HHHHHHTTTCCCSEEEECBTTTTBTH
T ss_pred             HHHHHHHcCCCcccEEEEECCCCCCH
Confidence            3334555665  37899999999885

>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=98.64  E-value=2.9e-08  Score=71.90  Aligned_cols=58  Identities=24%  Similarity=0.289  Sum_probs=35.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeeceeEEEEECCeEEEEEEEeCCCCc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQE   67 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   67 (168)
                      ...++++++|.||+|||||+|++.+.... ....+..+.... .+....   .+.+|||||..
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~g~T~~~~-~~~~~~---~~~l~DtpG~~  176 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQ-WVKVGK---ELELLDTPGIL  176 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC------------C-CEEETT---TEEEEECCCCC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeecCCCCCeeeeeE-EEEeCC---CEEEEECcCcC
Confidence            35689999999999999999999987532 221121111111 122222   46789999964

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.61  E-value=2.1e-08  Score=71.90  Aligned_cols=56  Identities=14%  Similarity=0.057  Sum_probs=34.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCcc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQED   68 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~   68 (168)
                      ++++++|.+|+|||||+|+|.+..... ..++.+.+.. ..+..+   ..+.+|||||...
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~-~~~~~g~T~~~~~~~~~---~~~~l~DtpG~~~  156 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASS-VGAQPGITKGIQWFSLE---NGVKILDTPGILY  156 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECT---TSCEEESSCEECC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccc-cCCCCCCccceEEEEeC---CCEEEEECCCccc
Confidence            589999999999999999999876422 1222222221 112222   2467899999654

>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=98.50  E-value=8.4e-07  Score=67.84  Aligned_cols=139  Identities=16%  Similarity=0.090  Sum_probs=76.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc------CCC---C-CCCCCce-------eeceeEEEEE--C---------------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS------NKF---P-TDYIPTV-------FDNFSANVVA--E---------------   52 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~------~~~---~-~~~~~~~-------~~~~~~~~~~--~---------------   52 (168)
                      +...|+++|.+|+||||++..|..      .+.   . ..+.+..       .......+..  .               
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            357899999999999999998863      111   0 0010100       0000000100  0               


Q ss_pred             -CeEEEEEEEeCCCCcccccccc------ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccc
Q 030961           53 -GTTVNLGLWDTAGQEDYNRLRP------LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR  125 (168)
Q Consensus        53 -~~~~~~~i~D~~g~~~~~~~~~------~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~  125 (168)
                       ...+.+.++||+|........-      .....+|.+++|+|+.........    ...+...  -.+..+|.||.|..
T Consensus       179 ~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~----a~~f~~~--~~i~gVIlTKlD~~  252 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQ----ALAFKEA--TPIGSIIVTKLDGS  252 (443)
T ss_dssp             HHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHH----HHHHHHS--CTTEEEEEECCSSC
T ss_pred             HhCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHH----HHHHHhh--CCCeEEEEECCCCc
Confidence             0126788999999643221100      112357899999998765443322    2333332  23556889999987


Q ss_pred             ccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961          126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      ...              ..+.......+. |+.+++.  |++|
T Consensus       253 ~~g--------------G~~ls~~~~~g~-PI~fig~--Ge~v  278 (443)
T 3dm5_A          253 AKG--------------GGALSAVAATGA-PIKFIGT--GEKI  278 (443)
T ss_dssp             SSH--------------HHHHHHHHTTCC-CEEEEEC--SSST
T ss_pred             ccc--------------cHHHHHHHHHCC-CEEEEEc--CCCh
Confidence            542              234455556776 7766664  5553

>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=98.41  E-value=1.4e-07  Score=68.22  Aligned_cols=88  Identities=16%  Similarity=0.051  Sum_probs=56.7

Q ss_pred             EeCCCCc-cccccccccccCCcEEEEEEeCCChhHHHH-HHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCC
Q 030961           61 WDTAGQE-DYNRLRPLSYRGADVFVLAFSLVSRASYEN-VLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLV  138 (168)
Q Consensus        61 ~D~~g~~-~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~-~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~  138 (168)
                      -..||+. .........+..+|+++.|+|+.++.+... ....++       .+.|.++|+||+|+.+...         
T Consensus         4 ~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l-------~~kp~ilVlNK~DL~~~~~---------   67 (282)
T 1puj_A            4 QWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL-------KNKPRIMLLNKADKADAAV---------   67 (282)
T ss_dssp             -----CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC-------SSSCEEEEEECGGGSCHHH---------
T ss_pred             cCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH-------CCCCEEEEEECcccCCHHH---------
Confidence            4467764 333445566889999999999999887652 112222       4689999999999965321         


Q ss_pred             cccHHHHHHHHHHhCCcEEEEecccCccCC
Q 030961          139 PVTTAQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                         .+...++.+..+. +++++||+++.|+
T Consensus        68 ---~~~~~~~~~~~g~-~~i~iSA~~~~gi   93 (282)
T 1puj_A           68 ---TQQWKEHFENQGI-RSLSINSVNGQGL   93 (282)
T ss_dssp             ---HHHHHHHHHTTTC-CEEECCTTTCTTG
T ss_pred             ---HHHHHHHHHhcCC-cEEEEECCCcccH
Confidence               2222334444566 7899999999875

>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=98.39  E-value=3.4e-07  Score=72.41  Aligned_cols=63  Identities=21%  Similarity=0.100  Sum_probs=38.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCce-eeceeEEE---EE-CCeEEEEEEEeCCCCcc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANV---VA-EGTTVNLGLWDTAGQED   68 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~-~~~~~~~~---~~-~~~~~~~~i~D~~g~~~   68 (168)
                      .+..+|+++|.||+|||||+|+|++....-....+. +.......   .. ......+.++||||...
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            457889999999999999999999875321111111 11111100   11 12234577799999654

>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=98.38  E-value=2.8e-06  Score=64.54  Aligned_cols=112  Identities=14%  Similarity=0.179  Sum_probs=59.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCce-eece-eEEEEEC-CeEEEEEEEeCCCCccccc-----cccccccC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNF-SANVVAE-GTTVNLGLWDTAGQEDYNR-----LRPLSYRG   79 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~-~~~~-~~~~~~~-~~~~~~~i~D~~g~~~~~~-----~~~~~~~~   79 (168)
                      ...++++|++|+|||||+|.+.+......-.-.. +... ...+... ...-.+.+||++|......     +....+..
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~~~~~ltv~D~~g~~~~~~~~~~~L~~~~L~~  148 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGSTNFPPDTYLEKMKFYE  148 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSCTTEEEEECCCGGGSSCCHHHHHHHTTGGG
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEeccccccCCeeehHhhcccchHHHHHHHHHHcCCCc
Confidence            4479999999999999999999843211100000 0000 0011111 1112467899998532111     11112334


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccc
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLR  125 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~  125 (168)
                      .+..++ ++...... ..  ..+...+..  .+.|+++|.||.|+.
T Consensus       149 ~~~~~~-lS~G~~~k-qr--v~la~aL~~--~~~p~~lV~tkpdll  188 (413)
T 1tq4_A          149 YDFFII-ISATRFKK-ND--IDIAKAISM--MKKEFYFVRTKVDSD  188 (413)
T ss_dssp             CSEEEE-EESSCCCH-HH--HHHHHHHHH--TTCEEEEEECCHHHH
T ss_pred             cCCeEE-eCCCCccH-HH--HHHHHHHHh--cCCCeEEEEecCccc
Confidence            455555 77763111 11  223344444  358999999999975

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=98.37  E-value=9.4e-07  Score=67.57  Aligned_cols=112  Identities=17%  Similarity=0.076  Sum_probs=62.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC------CCC-CCCC---C----------------------ceee--ceeEEEEECC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN------KFP-TDYI---P----------------------TVFD--NFSANVVAEG   53 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~------~~~-~~~~---~----------------------~~~~--~~~~~~~~~~   53 (168)
                      ...|+++|.+|+||||+++.|...      +.. ...+   +                      +..+  .......-.-
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r~~a~~qL~~~~~~~gv~v~~~~~~~~dp~~i~~~~l~~~  178 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIVKEGMEKF  178 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCCTTGGGSSHHHHHHSSCCEECCSSSCCSSSTTHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeccccCchHHHHHHHhhhccCcceEecCCCCCCHHHHHHHHHHHh
Confidence            357999999999999999988752      110 0000   0                      0000  0000000001


Q ss_pred             eEEEEEEEeCCCCccccc-cc-----cccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCC-c-EEEEeeCCccc
Q 030961           54 TTVNLGLWDTAGQEDYNR-LR-----PLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGV-P-VVLVGTKLDLR  125 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~-~~-----~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~-p-~ivv~nK~D~~  125 (168)
                      ..+.+.++||||...... +.     -..+..+|.+++|+|+.......    .....+.   ... | ..+|.||.|..
T Consensus       179 ~~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~~~----~~~~~~~---~~~~~i~gvVlnK~D~~  251 (432)
T 2v3c_C          179 KKADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQAG----IQAKAFK---EAVGEIGSIIVTKLDGS  251 (432)
T ss_dssp             SSCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGGHH----HHHHHHH---TTSCSCEEEEEECSSSC
T ss_pred             hCCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHHHH----HHHHHHh---hcccCCeEEEEeCCCCc
Confidence            345678999999754211 10     11233689999999986654221    2223332   235 5 78999999986


Q ss_pred             c
Q 030961          126 E  126 (168)
Q Consensus       126 ~  126 (168)
                      .
T Consensus       252 ~  252 (432)
T 2v3c_C          252 A  252 (432)
T ss_dssp             S
T ss_pred             c
Confidence            4

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=98.34  E-value=8e-07  Score=67.87  Aligned_cols=90  Identities=13%  Similarity=0.048  Sum_probs=53.3

Q ss_pred             EEEEEEEeCCCCcc--ccc-cccc-----cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           55 TVNLGLWDTAGQED--YNR-LRPL-----SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        55 ~~~~~i~D~~g~~~--~~~-~~~~-----~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      .+.+.++||||...  ... +...     .....+.+++|+|+.........    ...+.+.  -.+..|+.||.|...
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~~----a~~f~~~--~~~~gVIlTKlD~~a  252 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDL----ASRFHQA--SPIGSVIITKMDGTA  252 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHHH----HHHHHHH--CSSEEEEEECGGGCS
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHHH----HHHHhcc--cCCcEEEEecccccc
Confidence            45677899999643  111 1000     11246899999998765443332    2333332  135678899999874


Q ss_pred             cchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961          127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      .              ...+.......+. |+.+++.  |++
T Consensus       253 ~--------------~G~als~~~~~g~-Pi~fig~--Ge~  276 (433)
T 3kl4_A          253 K--------------GGGALSAVVATGA-TIKFIGT--GEK  276 (433)
T ss_dssp             C--------------HHHHHHHHHHHTC-EEEEEEC--CSS
T ss_pred             c--------------chHHHHHHHHHCC-CEEEEEC--CCC
Confidence            3              2334555666777 7777765  554

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.27  E-value=2.6e-06  Score=62.27  Aligned_cols=85  Identities=26%  Similarity=0.237  Sum_probs=56.7

Q ss_pred             ccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcc--cHHHHHHH
Q 030961           71 RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPV--TTAQGEEL  148 (168)
Q Consensus        71 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~--~~~~~~~~  148 (168)
                      .+....+.++|.+++|+|+.++..-....+.++.....  .++|.+||+||+|+.++..          .  ..++..+.
T Consensus        78 ~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~--~~~~~vivlnK~DL~~~~~----------~~~~~~~~~~~  145 (307)
T 1t9h_A           78 ELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA--NDIQPIICITKMDLIEDQD----------TEDTIQAYAED  145 (307)
T ss_dssp             EETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT--TTCEEEEEEECGGGCCCHH----------HHHHHHHHHHH
T ss_pred             hhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHH--CCCCEEEEEECCccCchhh----------hHHHHHHHHHH
Confidence            34445688999999999998776433333555554444  4789999999999976521          0  01233333


Q ss_pred             HHHhCCcEEEEecccCccCC
Q 030961          149 RKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       149 ~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      ....|. +.+.+||.++.|+
T Consensus       146 y~~~g~-~v~~~sa~~~~g~  164 (307)
T 1t9h_A          146 YRNIGY-DVYLTSSKDQDSL  164 (307)
T ss_dssp             HHHHTC-CEEECCHHHHTTC
T ss_pred             HHhCCC-eEEEEecCCCCCH
Confidence            344566 7889999988764

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=98.06  E-value=1.7e-05  Score=57.79  Aligned_cols=85  Identities=14%  Similarity=0.056  Sum_probs=50.9

Q ss_pred             EEEEEEEeCCCCcc--ccc-ccc-----ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCccc
Q 030961           55 TVNLGLWDTAGQED--YNR-LRP-----LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLR  125 (168)
Q Consensus        55 ~~~~~i~D~~g~~~--~~~-~~~-----~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~  125 (168)
                      .+.+.++||||...  ... +..     .....+|.+++|+|+.......    ...+.+..   ..+ ..+|.||.|..
T Consensus       180 ~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~~~----~~~~~~~~---~~~i~gvVlnk~D~~  252 (297)
T 1j8m_F          180 KMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAY----DLASKFNQ---ASKIGTIIITKMDGT  252 (297)
T ss_dssp             TCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHH----HHHHHHHH---TCTTEEEEEECGGGC
T ss_pred             CCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHHHH----HHHHHHHh---hCCCCEEEEeCCCCC
Confidence            45688999999866  211 111     1234789999999986432221    12233332   355 67889999975


Q ss_pred             ccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961          126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ..              ...+..++...+. ++.+++
T Consensus       253 ~~--------------~g~~~~~~~~~~~-pi~~i~  273 (297)
T 1j8m_F          253 AK--------------GGGALSAVAATGA-TIKFIG  273 (297)
T ss_dssp             TT--------------HHHHHHHHHTTTC-CEEEEE
T ss_pred             cc--------------hHHHHHHHHHHCc-CEEEEe
Confidence            33              2234556777776 666655

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.04  E-value=1.6e-06  Score=62.13  Aligned_cols=83  Identities=16%  Similarity=0.093  Sum_probs=52.7

Q ss_pred             CCCcc-ccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccH
Q 030961           64 AGQED-YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTT  142 (168)
Q Consensus        64 ~g~~~-~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~  142 (168)
                      ||+.. ........+.++|+++.|+|+.++.+....  .+    . .. ++|.++|+||+|+.+...            .
T Consensus         5 PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~--~l----~-ll-~k~~iivlNK~DL~~~~~------------~   64 (262)
T 3cnl_A            5 PGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAY--GV----D-FS-RKETIILLNKVDIADEKT------------T   64 (262)
T ss_dssp             ----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCT--TS----C-CT-TSEEEEEEECGGGSCHHH------------H
T ss_pred             chHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcCh--HH----H-hc-CCCcEEEEECccCCCHHH------------H
Confidence            55432 223445567899999999999998776532  11    1 11 689999999999975421            2


Q ss_pred             HHHHHHHHHhCCcEEEEecccCccCC
Q 030961          143 AQGEELRKQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~Sa~~~~~i  168 (168)
                      +....+.+..+. ++ .+||+++.|+
T Consensus        65 ~~~~~~~~~~g~-~v-~iSa~~~~gi   88 (262)
T 3cnl_A           65 KKWVEFFKKQGK-RV-ITTHKGEPRK   88 (262)
T ss_dssp             HHHHHHHHHTTC-CE-EECCTTSCHH
T ss_pred             HHHHHHHHHcCC-eE-EEECCCCcCH
Confidence            222334445566 67 9999999873

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.00  E-value=5.1e-06  Score=66.22  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=21.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      ..++++|+.|||||||++.+.+-.
T Consensus        46 p~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           46 PAIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CCEECCCCTTSCHHHHHHHHHSCC
T ss_pred             CeEEEECCCCChHHHHHHHHhCCC
Confidence            359999999999999999998864

>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=97.93  E-value=1.8e-07  Score=72.29  Aligned_cols=101  Identities=16%  Similarity=-0.048  Sum_probs=57.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCcc--ccccc--------c
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQED--YNRLR--------P   74 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~--~~~~~--------~   74 (168)
                      ....+|+++|.+|+||||+.++|...-. .....+...... ......+......+||..|.+.  .+..+        .
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~-~~~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~  115 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLN-FIGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVR  115 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHh-ccCCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHH
Confidence            3467899999999999999999875311 001112211100 0000111112335689888732  23332        4


Q ss_pred             ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchh
Q 030961           75 LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY  109 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~  109 (168)
                      .++....+.++|+|.++.. .... +.|...+.+.
T Consensus       116 ~~l~~~~G~~vV~D~tn~~-~~~R-~~~~~~~~~~  148 (469)
T 1bif_A          116 KFLSEEGGHVAVFDATNTT-RERR-AMIFNFGEQN  148 (469)
T ss_dssp             HHHHTTCCSEEEEESCCCS-HHHH-HHHHHHHHHH
T ss_pred             HHHHhCCCCEEEEeCCCCC-HHHH-HHHHHHHHhc
Confidence            4555678889999998873 4443 6676666654

>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=97.76  E-value=1.9e-05  Score=52.67  Aligned_cols=30  Identities=17%  Similarity=0.187  Sum_probs=23.6

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      |++.+...-.++++|++||||||+.+.+.+
T Consensus         1 m~~~~~~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            1 MSTTNHDHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             --CCCTTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCccCCCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            666665666799999999999999998764

>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=97.72  E-value=4.4e-05  Score=58.51  Aligned_cols=25  Identities=12%  Similarity=0.149  Sum_probs=22.2

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+..-|.|+|.+++|||+|+|+|++
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg   89 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLR   89 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhh
Confidence            3566799999999999999999986

>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=97.61  E-value=0.00014  Score=54.20  Aligned_cols=76  Identities=21%  Similarity=0.211  Sum_probs=48.1

Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH---HHhC
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR---KQIG  153 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~  153 (168)
                      ..++|.+++|... ++..-....+.++.....  .++|.+||+||+|+.++..            .+..+.+.   ...|
T Consensus       128 ~anvD~v~iv~a~-~P~~~~~~i~r~L~~a~~--~~~~~iivlNK~DL~~~~~------------~~~~~~~~~~y~~~G  192 (358)
T 2rcn_A          128 AANIDQIVIVSAI-LPELSLNIIDRYLVGCET--LQVEPLIVLNKIDLLDDEG------------MDFVNEQMDIYRNIG  192 (358)
T ss_dssp             EECCCEEEEEEES-TTTCCHHHHHHHHHHHHH--HTCEEEEEEECGGGCCHHH------------HHHHHHHHHHHHTTT
T ss_pred             HhcCCEEEEEEeC-CCCCCHHHHHHHHHHHHh--cCCCEEEEEECccCCCchh------------HHHHHHHHHHHHhCC
Confidence            5789999988664 555322222555544433  3688899999999975421            11122332   3456


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      . +.+.+||.++.|+
T Consensus       193 ~-~v~~~Sa~~~~gl  206 (358)
T 2rcn_A          193 Y-RVLMVSSHTQDGL  206 (358)
T ss_dssp             C-CEEECBTTTTBTH
T ss_pred             C-cEEEEecCCCcCH
Confidence            6 7889999999874

>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=97.55  E-value=5e-05  Score=51.08  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.2

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+++++|++|+|||||++.+.+.
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            36899999999999999988764

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.53  E-value=5e-05  Score=51.03  Aligned_cols=22  Identities=18%  Similarity=0.273  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|++|||||||++.+.+.
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999999763

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.50  E-value=6.6e-05  Score=51.42  Aligned_cols=30  Identities=17%  Similarity=0.017  Sum_probs=24.1

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      |++...+...|++.|.+||||||+++.|..
T Consensus         3 ~~~~~~~~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A            3 MTDDKKKGKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             TTCCCBCSCEEEEEESTTSSHHHHHHHHHH
T ss_pred             ccchhhcCCEEEEEcCCCCCHHHHHHHHHH
Confidence            544444567899999999999999998864

>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=97.50  E-value=7.1e-05  Score=50.43  Aligned_cols=30  Identities=20%  Similarity=0.244  Sum_probs=23.2

Q ss_pred             CCCcceeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            2 ASSASRFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         2 ~~~~~~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ++...+...|+++|.+||||||+.+.|...
T Consensus         4 ~~~~~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            4 SMEQPKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             --CCCSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcCCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            344445678999999999999999988653

>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=97.47  E-value=7.2e-05  Score=50.44  Aligned_cols=23  Identities=13%  Similarity=0.095  Sum_probs=20.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -.++++|++||||||+++.+.+.
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            35899999999999999999875

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.47  E-value=6.8e-05  Score=51.21  Aligned_cols=22  Identities=23%  Similarity=0.240  Sum_probs=19.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.++++|++|||||||++.+.+
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3689999999999999999875

>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=97.39  E-value=6.4e-05  Score=54.94  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=20.2

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -.++++|++|+|||||+|.+.+.
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CEEEEECCCCCCHHHHHHHhccc
Confidence            36899999999999999999874

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.36  E-value=0.00011  Score=50.05  Aligned_cols=22  Identities=14%  Similarity=0.218  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|++|||||||++.+.+.
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            5899999999999999998764

>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=97.34  E-value=0.00013  Score=48.08  Aligned_cols=20  Identities=15%  Similarity=0.051  Sum_probs=18.5

Q ss_pred             eEEEEECCCCCCHHHHHHHH
Q 030961            9 IKCVTVGDGAVGKTCMLICY   28 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l   28 (168)
                      ..|++.|++||||||+.+.|
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

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.33  E-value=0.00011  Score=48.93  Aligned_cols=20  Identities=20%  Similarity=0.202  Sum_probs=17.6

Q ss_pred             EEEEECCCCCCHHHHHHHHh
Q 030961           10 KCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~   29 (168)
                      -++++|++|||||||++.+.
T Consensus        11 i~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            47899999999999999654

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.31  E-value=0.00013  Score=50.10  Aligned_cols=25  Identities=20%  Similarity=0.177  Sum_probs=20.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+...+.++|+.|||||||++.+.+
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3455799999999999999998865

>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=97.31  E-value=0.00016  Score=49.40  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=20.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .--++++|++|+|||||+++|...
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECcCCCCHHHHHHHHHhh
Confidence            345889999999999999999853

>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=97.30  E-value=0.00014  Score=49.43  Aligned_cols=31  Identities=23%  Similarity=0.132  Sum_probs=23.1

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      |...+.+...|++.|.+||||||+.+.|...
T Consensus         1 ~~~~~~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            1 MGHEAKHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             -----CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CCCcccCceEEEEECCCCCCHHHHHHHHHHC
Confidence            5445556778999999999999999998764

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.30  E-value=0.00014  Score=50.04  Aligned_cols=23  Identities=22%  Similarity=0.224  Sum_probs=20.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      --++++|++||||||+++.|...
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhh
Confidence            35889999999999999999864

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.30  E-value=0.00015  Score=49.08  Aligned_cols=21  Identities=24%  Similarity=0.319  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |+++|++|||||||+++|+..
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            789999999999999999753

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.29  E-value=0.00019  Score=47.68  Aligned_cols=22  Identities=18%  Similarity=0.187  Sum_probs=20.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|++.|.|||||||+.++|..
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            4589999999999999999976

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.29  E-value=0.00016  Score=49.23  Aligned_cols=24  Identities=21%  Similarity=0.120  Sum_probs=20.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...++++|++||||||+++.+.+.
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            346899999999999999998764

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.28  E-value=0.00015  Score=48.27  Aligned_cols=21  Identities=19%  Similarity=0.213  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      +|+++|.+||||||+...|..
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            699999999999999998854

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.28  E-value=0.00017  Score=49.54  Aligned_cols=25  Identities=12%  Similarity=0.022  Sum_probs=21.2

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+...+.++|++|||||||++.+.+
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999998764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.28  E-value=0.00015  Score=50.27  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|++|||||||++.+.+.
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999998763

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.27  E-value=0.00017  Score=49.39  Aligned_cols=22  Identities=27%  Similarity=0.268  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-|+++|++||||||++++|..
T Consensus        13 ~~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           13 PPLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999875

>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=97.27  E-value=0.00018  Score=48.33  Aligned_cols=23  Identities=13%  Similarity=0.008  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|++.|.+||||||+.+.|..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>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=97.26  E-value=0.00016  Score=49.63  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+.
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999998764

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=97.26  E-value=0.00058  Score=49.74  Aligned_cols=20  Identities=35%  Similarity=0.632  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHh
Q 030961           10 KCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~   29 (168)
                      .++++|++|+|||||+|.+.
T Consensus       167 i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            57999999999999999998

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.26  E-value=0.00016  Score=50.25  Aligned_cols=22  Identities=9%  Similarity=0.232  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+.
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5789999999999999998864

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.25  E-value=0.00018  Score=49.48  Aligned_cols=22  Identities=18%  Similarity=0.113  Sum_probs=19.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++|++.|++||||||+.+.|..
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            3799999999999999999854

>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=97.25  E-value=0.00019  Score=47.34  Aligned_cols=21  Identities=10%  Similarity=0.012  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|++.|.+||||||+.+.|..
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            589999999999999999864

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.25  E-value=0.00019  Score=48.93  Aligned_cols=23  Identities=22%  Similarity=0.198  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.++++|++||||||+++.+.+
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999998864

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.23  E-value=0.00019  Score=47.54  Aligned_cols=22  Identities=18%  Similarity=0.114  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|+++|++||||||+.+.|.+
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999998875

>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=97.23  E-value=0.00016  Score=49.51  Aligned_cols=23  Identities=17%  Similarity=-0.041  Sum_probs=20.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|++.|.+||||||+++.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>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=97.23  E-value=0.0002  Score=49.28  Aligned_cols=22  Identities=18%  Similarity=0.070  Sum_probs=19.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++|++.|++||||||+..+|..
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            3699999999999999999854

>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=97.21  E-value=0.00023  Score=49.01  Aligned_cols=22  Identities=18%  Similarity=0.141  Sum_probs=19.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++|+++|+|||||+|...++..
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            3689999999999999998875

>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=97.21  E-value=0.00024  Score=49.19  Aligned_cols=22  Identities=14%  Similarity=0.101  Sum_probs=19.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|.++|++||||||+.+.|.+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>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=97.18  E-value=0.00028  Score=48.01  Aligned_cols=25  Identities=12%  Similarity=0.263  Sum_probs=21.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .....|++.|.+||||||+.+.|..
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            3456899999999999999998864

>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=97.17  E-value=0.00023  Score=47.93  Aligned_cols=21  Identities=19%  Similarity=0.260  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -++++|++||||||+++.+.+
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999999975

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.16  E-value=0.00029  Score=48.85  Aligned_cols=24  Identities=17%  Similarity=0.062  Sum_probs=19.3

Q ss_pred             eeeE-EEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIK-CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~-i~vvG~~~~GKStli~~l~~   30 (168)
                      +..| |+++|+|||||+|.+.+|..
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3444 56789999999999998864

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.16  E-value=0.00032  Score=46.96  Aligned_cols=23  Identities=13%  Similarity=0.044  Sum_probs=20.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|+++|.+||||||+.+.|..
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            45799999999999999998864

>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=97.16  E-value=0.00025  Score=52.90  Aligned_cols=23  Identities=22%  Similarity=0.353  Sum_probs=20.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      .++++|++|+|||||+|.+.+..
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCS
T ss_pred             EEEEECCCCccHHHHHHHHhccc
Confidence            58999999999999999999754

>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=97.15  E-value=0.00027  Score=48.81  Aligned_cols=24  Identities=21%  Similarity=0.214  Sum_probs=20.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +...|+++|.+||||||+.+.|..
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998864

>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=97.15  E-value=0.0003  Score=49.55  Aligned_cols=22  Identities=18%  Similarity=0.312  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHh
Q 030961            8 FIKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~   29 (168)
                      .-.++++|++||||||+++.+.
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            4579999999999999999998

>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=97.14  E-value=0.00027  Score=46.99  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-|++.|.+||||||+.+.|..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999875

>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=97.14  E-value=0.00034  Score=49.29  Aligned_cols=24  Identities=13%  Similarity=0.079  Sum_probs=21.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +..+|++.|++||||||++.+|..
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            567899999999999999999864

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.14  E-value=0.00029  Score=47.15  Aligned_cols=23  Identities=17%  Similarity=0.112  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|+++|.+||||||+...|..
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            34799999999999999998864

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.13  E-value=0.00029  Score=47.78  Aligned_cols=21  Identities=19%  Similarity=0.222  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|++.|.+||||||+++.|..
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            689999999999999998865

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.13  E-value=0.00026  Score=48.21  Aligned_cols=22  Identities=18%  Similarity=0.148  Sum_probs=19.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|+++|.+||||||+++.|..
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998864

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.10  E-value=0.00026  Score=49.21  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=20.4

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|++.|.+||||||+.++|..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999998863

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.10  E-value=0.00033  Score=47.65  Aligned_cols=23  Identities=17%  Similarity=0.293  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.|+++|++||||||+...+..
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            34799999999999999998864

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.08  E-value=0.00031  Score=47.18  Aligned_cols=21  Identities=24%  Similarity=0.257  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|++.|.+||||||+++.|..
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.08  E-value=0.00042  Score=46.56  Aligned_cols=23  Identities=13%  Similarity=0.105  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|++.|.+||||||+...|..
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            45799999999999999998864

>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=97.08  E-value=0.00032  Score=47.16  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|++.|.+||||||+.+.|..
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            35699999999999999998864

>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=97.07  E-value=0.00037  Score=46.75  Aligned_cols=22  Identities=23%  Similarity=0.080  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|++.|.+||||||+++.|..
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            4799999999999999998854

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.07  E-value=0.00048  Score=46.86  Aligned_cols=25  Identities=12%  Similarity=0.074  Sum_probs=21.2

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .....|++.|.+||||||+.++|..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999998864

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.05  E-value=0.00032  Score=47.62  Aligned_cols=21  Identities=24%  Similarity=0.311  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      +++++|+.|+|||||++.+.+
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            578999999999999998875

>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=97.05  E-value=0.00033  Score=48.24  Aligned_cols=22  Identities=14%  Similarity=0.226  Sum_probs=19.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++|++.|.+||||||+++.|..
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            3689999999999999998864

>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=97.04  E-value=0.00038  Score=46.61  Aligned_cols=24  Identities=17%  Similarity=0.033  Sum_probs=20.7

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...++++|.+|+|||||++++...
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            346899999999999999998863

>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=97.04  E-value=0.00047  Score=47.04  Aligned_cols=22  Identities=23%  Similarity=0.172  Sum_probs=20.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +.|.++|++||||||+.+.|.+
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            4689999999999999999976

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.04  E-value=0.00036  Score=48.96  Aligned_cols=22  Identities=23%  Similarity=0.199  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4799999999999999988764

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.03  E-value=0.00046  Score=47.06  Aligned_cols=23  Identities=13%  Similarity=0.014  Sum_probs=20.4

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|++.|.+||||||+++.|..
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            35799999999999999999865

>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=97.01  E-value=0.00035  Score=47.56  Aligned_cols=22  Identities=14%  Similarity=0.202  Sum_probs=19.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+|+++|.+||||||+.+.|.+
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            3799999999999999999876

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.01  E-value=0.00042  Score=45.63  Aligned_cols=23  Identities=22%  Similarity=0.109  Sum_probs=20.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      .++++|+.|+|||||++.+.+.-
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            58899999999999999988753

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.01  E-value=0.0005  Score=49.72  Aligned_cols=24  Identities=17%  Similarity=0.083  Sum_probs=21.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...-|++.|++||||||++.++..
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            356799999999999999999864

>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=97.01  E-value=0.0004  Score=47.27  Aligned_cols=23  Identities=13%  Similarity=0.050  Sum_probs=19.8

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.|+++|++||||||+.+.+.+
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999988754

>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=97.00  E-value=0.00053  Score=46.53  Aligned_cols=24  Identities=21%  Similarity=0.019  Sum_probs=21.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...|++.|.+||||||+++.|...
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            457999999999999999998763

>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=97.00  E-value=0.00038  Score=46.50  Aligned_cols=24  Identities=25%  Similarity=0.189  Sum_probs=20.4

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-.++++|++|+|||||++.+.+.
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            346899999999999999988653

>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=96.99  E-value=0.00048  Score=45.95  Aligned_cols=23  Identities=26%  Similarity=0.239  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|++.|.+||||||+...+..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            45689999999999999998863

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.99  E-value=0.0005  Score=45.23  Aligned_cols=21  Identities=14%  Similarity=0.104  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      +|++.|.+||||||+.+.|..
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            689999999999999998865

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.98  E-value=0.0004  Score=47.93  Aligned_cols=24  Identities=13%  Similarity=0.104  Sum_probs=20.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +...|+++|.+||||||+.+.|..
T Consensus         4 ~~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            4 KKHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             GCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998854

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.97  E-value=0.00033  Score=48.45  Aligned_cols=23  Identities=22%  Similarity=0.157  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|+++|.+||||||+.+.|..
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            45799999999999999998864

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.97  E-value=0.00051  Score=47.65  Aligned_cols=21  Identities=14%  Similarity=0.079  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|++.|.+||||||+++.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998864

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.95  E-value=0.00047  Score=49.16  Aligned_cols=21  Identities=14%  Similarity=0.238  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .++++|+.|||||||++.+.+
T Consensus        27 ~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHH
Confidence            589999999999999998876

>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=96.94  E-value=0.00062  Score=46.49  Aligned_cols=25  Identities=16%  Similarity=0.076  Sum_probs=21.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      +...|.++|.+||||||+++.|.+.
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            4567999999999999999998764

>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=96.94  E-value=0.00045  Score=50.28  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=20.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      .++++|++|+|||||++.+.+..
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCcHHHHHHHhcccc
Confidence            57899999999999999998753

>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=96.94  E-value=0.00057  Score=47.67  Aligned_cols=24  Identities=17%  Similarity=0.195  Sum_probs=21.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ....|+++|.+||||||+.+.|..
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            446899999999999999998864

>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=96.94  E-value=0.00051  Score=50.09  Aligned_cols=21  Identities=14%  Similarity=0.143  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .++++|++|+|||||++.+.+
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhh
Confidence            689999999999999998874

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.94  E-value=0.00055  Score=48.20  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998874

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.91  E-value=0.00032  Score=48.84  Aligned_cols=23  Identities=17%  Similarity=0.108  Sum_probs=15.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHh-cC
Q 030961            9 IKCVTVGDGAVGKTCMLICYT-SN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~-~~   31 (168)
                      --++++|+.||||||+++.+. +.
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC--
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            358999999999999999998 53

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.91  E-value=0.00045  Score=48.13  Aligned_cols=22  Identities=18%  Similarity=0.214  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988764

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.91  E-value=0.00048  Score=46.44  Aligned_cols=23  Identities=17%  Similarity=-0.003  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|++.|.+||||||+.+.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>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=96.91  E-value=0.00055  Score=49.20  Aligned_cols=22  Identities=18%  Similarity=0.383  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999988774

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.90  E-value=0.00041  Score=46.28  Aligned_cols=23  Identities=22%  Similarity=-0.041  Sum_probs=16.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|++.|.+||||||+.+.|..
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            45799999999999999999864

>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=96.90  E-value=0.00062  Score=47.82  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999988764

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.90  E-value=0.00057  Score=48.76  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4689999999999999988764

>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=96.90  E-value=0.0006  Score=47.19  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998764

>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=96.88  E-value=0.00067  Score=47.81  Aligned_cols=22  Identities=14%  Similarity=0.107  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5799999999999999998764

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.88  E-value=0.00067  Score=45.56  Aligned_cols=21  Identities=19%  Similarity=-0.026  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|++.|.+||||||+.+.|..
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            589999999999999998865

>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=96.88  E-value=0.00067  Score=47.97  Aligned_cols=22  Identities=18%  Similarity=0.117  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998774

>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=96.87  E-value=0.00074  Score=44.95  Aligned_cols=23  Identities=22%  Similarity=0.234  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+.++|.+|||||||+.++..
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999999875

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.86  E-value=0.00087  Score=44.94  Aligned_cols=24  Identities=21%  Similarity=0.111  Sum_probs=20.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +...|+++|.+||||||++..+..
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            456799999999999999998864

>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=96.86  E-value=0.00082  Score=48.67  Aligned_cols=25  Identities=16%  Similarity=0.022  Sum_probs=21.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+...|.++|++|||||||++.+..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999987653

>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=96.86  E-value=0.00064  Score=48.63  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+.++|+.|||||||++.+.+-
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4689999999999999998874

>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=96.85  E-value=0.00064  Score=48.35  Aligned_cols=22  Identities=18%  Similarity=0.314  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988764

>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=96.85  E-value=0.00087  Score=49.06  Aligned_cols=25  Identities=20%  Similarity=0.089  Sum_probs=21.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ....-+.++|++|||||||++.+.+
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            4456789999999999999998865

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.84  E-value=0.00081  Score=47.80  Aligned_cols=22  Identities=18%  Similarity=0.200  Sum_probs=19.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|++.|.+||||||+...|..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4699999999999999998864

>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=96.84  E-value=0.00078  Score=47.07  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999988774

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.83  E-value=0.00083  Score=47.44  Aligned_cols=25  Identities=16%  Similarity=0.068  Sum_probs=21.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+.|.+.|.+||||||+.+.|..
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998854

>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=96.82  E-value=0.00056  Score=47.25  Aligned_cols=22  Identities=18%  Similarity=0.084  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|++|+|||||++.+.+.
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999863

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.82  E-value=0.00053  Score=48.52  Aligned_cols=24  Identities=21%  Similarity=0.180  Sum_probs=20.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ....|+++|++||||||+...+..
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            456799999999999999998864

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.82  E-value=0.00072  Score=48.28  Aligned_cols=22  Identities=27%  Similarity=0.478  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Confidence            4789999999999999988764

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.82  E-value=0.00071  Score=47.94  Aligned_cols=21  Identities=29%  Similarity=0.238  Sum_probs=18.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -++++|++|||||||...|..
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            478999999999999998864

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.82  E-value=0.00057  Score=46.15  Aligned_cols=23  Identities=13%  Similarity=0.024  Sum_probs=20.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|++.|.+||||||+.+.|..
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            45799999999999999998865

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.82  E-value=0.00095  Score=49.04  Aligned_cols=25  Identities=20%  Similarity=0.044  Sum_probs=21.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+-+.++|++|||||||++.+.+
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            3456799999999999999988753

>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=96.82  E-value=0.00072  Score=47.57  Aligned_cols=22  Identities=23%  Similarity=0.277  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988774

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.81  E-value=0.00084  Score=44.61  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=20.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -.+++.|++|+|||++++.+...
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            46899999999999999988653

>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=96.81  E-value=0.00058  Score=50.97  Aligned_cols=24  Identities=13%  Similarity=0.180  Sum_probs=21.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-+++++|++|+|||||++.+.+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999988764

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.81  E-value=0.0008  Score=47.95  Aligned_cols=22  Identities=23%  Similarity=0.342  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5799999999999999998774

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.81  E-value=0.00064  Score=46.83  Aligned_cols=22  Identities=18%  Similarity=0.292  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|+|||||++.+.+-
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            4789999999999999998864

>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=96.81  E-value=0.00079  Score=47.66  Aligned_cols=22  Identities=14%  Similarity=0.206  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|+|||||++.+.+-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999884

>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=96.80  E-value=0.00077  Score=47.93  Aligned_cols=22  Identities=23%  Similarity=0.206  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998774

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.80  E-value=0.001  Score=45.81  Aligned_cols=23  Identities=13%  Similarity=0.141  Sum_probs=20.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+.|++.|.+||||||+.+.|..
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            46799999999999999999865

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.80  E-value=0.00081  Score=44.38  Aligned_cols=21  Identities=19%  Similarity=0.104  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|++.|.+||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>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=96.79  E-value=0.00084  Score=48.03  Aligned_cols=22  Identities=14%  Similarity=0.235  Sum_probs=20.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999885

>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=96.79  E-value=0.00079  Score=47.67  Aligned_cols=22  Identities=23%  Similarity=0.253  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|+|||||++.+.+-
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999988764

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.79  E-value=0.00029  Score=47.07  Aligned_cols=22  Identities=23%  Similarity=0.234  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+.++|++|||||||++.+.+.
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            6899999999999999988763

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.79  E-value=0.00085  Score=48.11  Aligned_cols=22  Identities=18%  Similarity=0.193  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988774

>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=96.78  E-value=0.00093  Score=49.92  Aligned_cols=23  Identities=30%  Similarity=0.564  Sum_probs=20.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHH
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICY   28 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l   28 (168)
                      .+..||+++|.++|||||++.++
T Consensus        31 ~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHH
Confidence            45789999999999999999885

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.77  E-value=0.00087  Score=44.81  Aligned_cols=21  Identities=29%  Similarity=0.235  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|+++|.+||||||+...|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999998864

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.76  E-value=0.00093  Score=48.13  Aligned_cols=22  Identities=27%  Similarity=0.326  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999988764

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.75  E-value=0.0011  Score=45.25  Aligned_cols=24  Identities=17%  Similarity=0.001  Sum_probs=20.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ....+.++|.+||||||+++.+.+
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            456799999999999999998864

>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=96.75  E-value=0.00082  Score=49.01  Aligned_cols=23  Identities=26%  Similarity=0.190  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.++++|+.||||||+++.+.+
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            34689999999999999998864

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.75  E-value=0.001  Score=46.72  Aligned_cols=24  Identities=21%  Similarity=0.082  Sum_probs=20.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +...|.++|+.|||||||++.+.+
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            345699999999999999998865

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.74  E-value=0.00062  Score=44.32  Aligned_cols=22  Identities=18%  Similarity=0.339  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+.++|++|+|||+|++.+.+.
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999988763

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.73  E-value=0.0009  Score=47.48  Aligned_cols=22  Identities=18%  Similarity=0.234  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988774

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.73  E-value=0.00026  Score=48.51  Aligned_cols=21  Identities=14%  Similarity=0.143  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -|+|.|.+||||||+++.|..
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            489999999999999998864

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.71  E-value=0.00094  Score=47.72  Aligned_cols=22  Identities=18%  Similarity=0.249  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999988764

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.71  E-value=0.0009  Score=48.02  Aligned_cols=22  Identities=18%  Similarity=0.250  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|++|+|||||++.+.+.
T Consensus        46 GvlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           46 GVLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEEESSTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            3999999999999999998763

>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=96.70  E-value=0.00099  Score=46.96  Aligned_cols=22  Identities=27%  Similarity=0.342  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|++|+|||||++.+.+.
T Consensus        51 g~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           51 GVLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3899999999999999998764

>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=96.70  E-value=0.0011  Score=46.40  Aligned_cols=23  Identities=13%  Similarity=0.137  Sum_probs=20.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+.|.+.|++||||||+.+.+..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999998863

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.69  E-value=0.0012  Score=43.42  Aligned_cols=21  Identities=19%  Similarity=0.118  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|++.|.+||||||+...|..
T Consensus         9 ~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            9 HLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.68  E-value=0.0012  Score=47.17  Aligned_cols=22  Identities=27%  Similarity=0.428  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|+|||||++.+.+-
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999988775

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.66  E-value=0.0011  Score=48.37  Aligned_cols=23  Identities=26%  Similarity=0.086  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.++++|+.||||||++..+.+
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            34689999999999999998865

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.63  E-value=0.0015  Score=43.46  Aligned_cols=23  Identities=17%  Similarity=0.117  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|+++|.+||||||+.+.|..
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            45689999999999999998865

>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=96.63  E-value=0.00071  Score=49.37  Aligned_cols=22  Identities=23%  Similarity=0.238  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTS
T ss_pred             EEEEECCCCchHHHHHHHHHcC
Confidence            5899999999999999988763

>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=96.62  E-value=0.0011  Score=49.36  Aligned_cols=21  Identities=19%  Similarity=0.270  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .++++|+.|||||||++.+.+
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            689999999999999998865

>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=96.61  E-value=0.0013  Score=47.41  Aligned_cols=24  Identities=13%  Similarity=0.057  Sum_probs=21.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..+.|++.|.+||||||+.+.|..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998863

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.60  E-value=0.0014  Score=46.31  Aligned_cols=22  Identities=14%  Similarity=0.075  Sum_probs=19.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHh
Q 030961            8 FIKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~   29 (168)
                      ...|.++|++||||||+++.+.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999999887

>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=96.59  E-value=0.0017  Score=47.91  Aligned_cols=24  Identities=21%  Similarity=0.170  Sum_probs=20.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +.--++++|+.||||||+++.+.+
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            355789999999999999998875

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.59  E-value=0.0013  Score=45.34  Aligned_cols=21  Identities=19%  Similarity=0.325  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -++++|++|+|||||+..+..
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999874

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.57  E-value=0.0012  Score=48.57  Aligned_cols=23  Identities=22%  Similarity=0.250  Sum_probs=20.2

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -.++++|++|+|||||++.+.+.
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            45899999999999999988763

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.56  E-value=0.0014  Score=49.15  Aligned_cols=21  Identities=14%  Similarity=0.238  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .++++|++||||||+++.+.+
T Consensus       138 ~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          138 LILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999998876

>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=96.56  E-value=0.0014  Score=47.77  Aligned_cols=24  Identities=21%  Similarity=0.081  Sum_probs=20.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ....+.++|+.|||||||++.+.+
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            446799999999999999998875

>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=96.56  E-value=0.0015  Score=48.86  Aligned_cols=22  Identities=18%  Similarity=0.369  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.++|+.|||||||++.+.+-
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHhcC
Confidence            4689999999999999988774

>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=96.55  E-value=0.0014  Score=44.87  Aligned_cols=23  Identities=17%  Similarity=0.137  Sum_probs=19.7

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|+++|.+||||||+.+.+..
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            45689999999999999998754

>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=96.55  E-value=0.0011  Score=46.25  Aligned_cols=25  Identities=20%  Similarity=0.230  Sum_probs=21.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      +..-|++.|+.||||||+++.+.+.
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            3457999999999999999988764

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.55  E-value=0.0011  Score=43.96  Aligned_cols=24  Identities=25%  Similarity=0.290  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-.+++.|++|+|||+++..+...
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            346899999999999999988653

>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=96.55  E-value=0.0012  Score=49.26  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            3689999999999999998874

>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=96.55  E-value=0.002  Score=44.94  Aligned_cols=24  Identities=17%  Similarity=-0.025  Sum_probs=20.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +..-|++.|++||||||+++++..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~   48 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYH   48 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            456799999999999999998865

>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=96.55  E-value=0.0015  Score=47.18  Aligned_cols=22  Identities=18%  Similarity=0.187  Sum_probs=19.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|+++|.+||||||+.++|..
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            4689999999999999999875

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.54  E-value=0.0015  Score=48.68  Aligned_cols=22  Identities=23%  Similarity=0.203  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4689999999999999998874

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.54  E-value=0.0016  Score=45.03  Aligned_cols=23  Identities=13%  Similarity=0.085  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.+++.|++|+|||+++..+..
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998865

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.53  E-value=0.0015  Score=46.77  Aligned_cols=22  Identities=27%  Similarity=0.342  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|++|+|||||++.+.+.
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcChHHHHHHHHHHH
Confidence            3899999999999999998764

>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=96.53  E-value=0.0015  Score=48.67  Aligned_cols=22  Identities=23%  Similarity=0.295  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHHCC
Confidence            4689999999999999998874

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.52  E-value=0.0016  Score=48.63  Aligned_cols=22  Identities=18%  Similarity=0.246  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            4689999999999999998874

>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=96.52  E-value=0.0016  Score=48.92  Aligned_cols=22  Identities=27%  Similarity=0.300  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHHcC
Confidence            3689999999999999998874

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.49  E-value=0.0013  Score=49.11  Aligned_cols=22  Identities=23%  Similarity=0.376  Sum_probs=20.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus       177 ~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          177 VIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             CEEEEESSSSCHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            6899999999999999999874

>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=96.49  E-value=0.0014  Score=47.42  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|+|||||++.+.+-
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            5789999999999999988764

>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=96.48  E-value=0.0017  Score=48.67  Aligned_cols=22  Identities=23%  Similarity=0.235  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCcHHHHHHHHHHcC
Confidence            3689999999999999998774

>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=96.47  E-value=0.0018  Score=48.56  Aligned_cols=22  Identities=27%  Similarity=0.230  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            4689999999999999998774

>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=96.47  E-value=0.0022  Score=43.54  Aligned_cols=24  Identities=13%  Similarity=0.117  Sum_probs=20.8

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.|.+.|.+||||||+.+.|...
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999999999988653

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.46  E-value=0.0014  Score=48.40  Aligned_cols=22  Identities=18%  Similarity=0.262  Sum_probs=20.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~  194 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEF  194 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998874

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.46  E-value=0.0017  Score=48.46  Aligned_cols=23  Identities=26%  Similarity=0.086  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.++++|+.||||||++..+.+
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHh
Confidence            34689999999999999998865

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.45  E-value=0.002  Score=45.50  Aligned_cols=23  Identities=22%  Similarity=0.197  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...++++|++|+|||++++.+.+
T Consensus        45 ~~~vll~G~~GtGKT~la~~la~   67 (257)
T 1lv7_A           45 PKGVLMVGPPGTGKTLLAKAIAG   67 (257)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHH
Confidence            34699999999999999998865

>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=96.45  E-value=0.0018  Score=44.32  Aligned_cols=21  Identities=24%  Similarity=0.110  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -++++|++|+|||||+..+..
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            479999999999999999976

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=96.43  E-value=0.0023  Score=44.74  Aligned_cols=25  Identities=12%  Similarity=0.200  Sum_probs=20.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.-+++.++|.|||||||+..+|..
T Consensus         6 ~~~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            6 HHHMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             ---CEEEEECCTTSCHHHHHHHHHH
T ss_pred             ccccceeeECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998864

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.42  E-value=0.0022  Score=43.48  Aligned_cols=22  Identities=27%  Similarity=0.241  Sum_probs=19.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..+++.|++|+|||+|+..+..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~   76 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIAN   76 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988765

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.41  E-value=0.0018  Score=45.91  Aligned_cols=22  Identities=23%  Similarity=0.054  Sum_probs=19.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.|+++|.+||||||+.+.+..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998854

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.41  E-value=0.0019  Score=50.19  Aligned_cols=23  Identities=26%  Similarity=0.206  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.++|+|..|||||||++.+.+
T Consensus       293 GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          293 PFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCcccHHHHHHHHHH
Confidence            44689999999999999998864

>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=96.40  E-value=0.0021  Score=44.74  Aligned_cols=22  Identities=18%  Similarity=0.105  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|++|+|||||+..+...
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            4789999999999999999874

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.38  E-value=0.0027  Score=46.63  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|+++|++||||||+...|..
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            4699999999999999998865

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.36  E-value=0.002  Score=49.07  Aligned_cols=22  Identities=18%  Similarity=0.194  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+++.
T Consensus       169 ii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHhh
Confidence            4899999999999999998763

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.34  E-value=0.0029  Score=46.82  Aligned_cols=22  Identities=36%  Similarity=0.317  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-|+++|++|||||||..+|..
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            4689999999999999998865

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.34  E-value=0.0018  Score=46.80  Aligned_cols=22  Identities=9%  Similarity=0.134  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|++|+|||||+..+.+.
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4789999999999999987653

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.31  E-value=0.0015  Score=48.57  Aligned_cols=22  Identities=27%  Similarity=0.252  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCccHHHHHHHHHcC
Confidence            4789999999999999998774

>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=96.30  E-value=0.0024  Score=43.92  Aligned_cols=21  Identities=24%  Similarity=0.282  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+++.|++|+|||+++..+..
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            589999999999999998864

>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=96.29  E-value=0.0024  Score=48.60  Aligned_cols=23  Identities=22%  Similarity=0.091  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..-|+++|.+||||||+.+++..
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999999865

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.29  E-value=0.0021  Score=48.52  Aligned_cols=22  Identities=18%  Similarity=0.327  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            4799999999999999988763

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=96.28  E-value=0.0026  Score=43.23  Aligned_cols=21  Identities=24%  Similarity=0.294  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+++.|++|+|||+++..+..
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~   60 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALAR   60 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            499999999999999998865

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.28  E-value=0.0019  Score=44.32  Aligned_cols=21  Identities=19%  Similarity=0.286  Sum_probs=18.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+++.|+||+|||+++..+.+
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            599999999999999887765

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.27  E-value=0.0021  Score=50.24  Aligned_cols=22  Identities=32%  Similarity=0.362  Sum_probs=20.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.||||||+++.+.+-
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~  283 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMF  283 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4899999999999999998874

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.22  E-value=0.0041  Score=44.91  Aligned_cols=23  Identities=22%  Similarity=0.232  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.++++|++|+|||+++..+..
T Consensus        47 ~~~~ll~G~~GtGKt~la~~la~   69 (311)
T 4fcw_A           47 IGSFLFLGPTGVGKTELAKTLAA   69 (311)
T ss_dssp             SEEEEEESCSSSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCcCHHHHHHHHHH
Confidence            34799999999999999998765

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=96.21  E-value=0.0021  Score=45.63  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=20.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +...|++.|.+||||||+++.|..
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999987764

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.21  E-value=0.003  Score=45.62  Aligned_cols=24  Identities=17%  Similarity=0.236  Sum_probs=19.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ....+++.|++|+|||+++..+..
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            445799999999999999975543

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.20  E-value=0.003  Score=45.11  Aligned_cols=24  Identities=17%  Similarity=0.124  Sum_probs=20.8

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...+++.|++|+|||++++.+...
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            456999999999999999998753

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.18  E-value=0.0027  Score=45.95  Aligned_cols=24  Identities=13%  Similarity=-0.111  Sum_probs=20.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ....+++.|+||+|||+++..+..
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345678889999999999998865

>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=96.18  E-value=0.0029  Score=47.48  Aligned_cols=22  Identities=18%  Similarity=0.070  Sum_probs=19.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.++++|++|+|||||++.+.+
T Consensus       170 ~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          170 RYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3689999999999999998875

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.17  E-value=0.0032  Score=45.32  Aligned_cols=24  Identities=17%  Similarity=0.121  Sum_probs=21.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...+++.|++|+|||++++.+...
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            457999999999999999988763

>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=96.16  E-value=0.0035  Score=44.12  Aligned_cols=23  Identities=17%  Similarity=0.182  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+++.|++|+|||+++..+..
T Consensus        39 ~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           39 PKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999998865

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.16  E-value=0.0017  Score=46.95  Aligned_cols=23  Identities=9%  Similarity=0.161  Sum_probs=17.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+.|.+.|++||||||+.+.|..
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999998764

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.15  E-value=0.0037  Score=43.61  Aligned_cols=24  Identities=17%  Similarity=0.224  Sum_probs=21.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +...|.++|.+||||||+...|..
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            456799999999999999998864

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=96.15  E-value=0.0015  Score=48.70  Aligned_cols=22  Identities=18%  Similarity=0.255  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4689999999999999988774

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=96.14  E-value=0.0026  Score=46.58  Aligned_cols=24  Identities=21%  Similarity=0.162  Sum_probs=21.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ..-++++|..|||||||++.+.+.
T Consensus         4 i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            4 IAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             ccEEEEEecCCCCHHHHHHHHHhh
Confidence            446789999999999999999965

>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=96.14  E-value=0.0041  Score=42.48  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=21.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...|+++|++|+|||+|...|...
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            346899999999999999999765

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.10  E-value=0.0039  Score=40.11  Aligned_cols=24  Identities=13%  Similarity=-0.043  Sum_probs=20.7

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...|++.|++|+|||+++..+...
T Consensus        24 ~~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           24 DIAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             CSCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHh
Confidence            456999999999999999988654

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.10  E-value=0.0024  Score=49.22  Aligned_cols=23  Identities=30%  Similarity=0.345  Sum_probs=20.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -.++++|+.|||||||++.+.+-
T Consensus       139 e~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          139 PRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCc
Confidence            46899999999999999988764

>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=96.08  E-value=0.0056  Score=43.54  Aligned_cols=25  Identities=16%  Similarity=0.231  Sum_probs=21.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ....+++.|++|+|||+++..+...
T Consensus        63 ~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4567999999999999999988763

>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=96.06  E-value=0.0044  Score=41.97  Aligned_cols=21  Identities=19%  Similarity=0.159  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|.+.|.+||||||+.+.|..
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            689999999999999998854

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.05  E-value=0.0033  Score=46.65  Aligned_cols=22  Identities=18%  Similarity=0.229  Sum_probs=20.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ++.++|+.|+|||||++.+.+.
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6899999999999999999886

>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=96.05  E-value=0.0036  Score=45.69  Aligned_cols=22  Identities=23%  Similarity=0.187  Sum_probs=19.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.+++.|++|+|||+|++.+.+
T Consensus        38 ~~lll~G~~GtGKT~la~~i~~   59 (324)
T 1l8q_A           38 NPIFIYGSVGTGKTHLLQAAGN   59 (324)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4689999999999999998865

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=96.04  E-value=0.019  Score=44.04  Aligned_cols=24  Identities=13%  Similarity=0.158  Sum_probs=20.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHh
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~   29 (168)
                      .+..-|.|+|..++|||+|+|.++
T Consensus        65 ~~v~vvsv~G~~~~gks~l~N~ll   88 (457)
T 4ido_A           65 KEVVAVSVAGAFRKGKSFLMDFML   88 (457)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHH
T ss_pred             CceEEEEEECCCCCchhHHHHHHH
Confidence            456778899999999999999554

>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=96.04  E-value=0.004  Score=45.44  Aligned_cols=23  Identities=22%  Similarity=0.094  Sum_probs=19.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.++++|++|+||||++..+.+
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            34689999999999999998764

>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=96.00  E-value=0.0044  Score=44.92  Aligned_cols=24  Identities=17%  Similarity=0.138  Sum_probs=20.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-.+++.|++|+|||++++.+.+.
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            346999999999999999988763

>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=96.00  E-value=0.0033  Score=44.98  Aligned_cols=21  Identities=19%  Similarity=0.311  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -++++|++|+|||||+..+..
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999998875

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.99  E-value=0.0037  Score=43.46  Aligned_cols=21  Identities=19%  Similarity=0.165  Sum_probs=18.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -+++.|++|+|||||+.++..
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999887754

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=95.94  E-value=0.0046  Score=44.52  Aligned_cols=23  Identities=22%  Similarity=0.197  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+++.|++|+|||+++..+..
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999998865

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.93  E-value=0.0037  Score=45.36  Aligned_cols=22  Identities=27%  Similarity=0.197  Sum_probs=19.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHh
Q 030961            8 FIKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~   29 (168)
                      .-.++++|++|+||||++..+.
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            3468999999999999999875

>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=95.91  E-value=0.0049  Score=48.86  Aligned_cols=22  Identities=23%  Similarity=0.314  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|+|||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6899999999999999988764

>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=95.90  E-value=0.0065  Score=44.36  Aligned_cols=23  Identities=26%  Similarity=0.226  Sum_probs=19.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-|+++|++|||||+|..++...
T Consensus        11 ~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCccCHHHHHHHHHHh
Confidence            45789999999999999998753

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.90  E-value=0.0046  Score=45.51  Aligned_cols=22  Identities=18%  Similarity=0.333  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ++++.|++|+||||++..+.+.
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            4899999999999999988764

>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=95.88  E-value=0.0047  Score=41.07  Aligned_cols=21  Identities=19%  Similarity=0.079  Sum_probs=18.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.+++|+.|+|||||+..+..
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            468999999999999998754

>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=95.88  E-value=0.0039  Score=45.95  Aligned_cols=21  Identities=14%  Similarity=0.215  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++++.|++|+||||+++.+.+
T Consensus        38 ~~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           38 HLLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             CEEEECSTTSSHHHHHHTHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            399999999999999998876

>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=95.87  E-value=0.0042  Score=49.25  Aligned_cols=22  Identities=23%  Similarity=0.241  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhc
Confidence            6899999999999999988764

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=95.87  E-value=0.004  Score=46.10  Aligned_cols=23  Identities=22%  Similarity=0.098  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.+++.|++|+|||||++.+.+
T Consensus        45 ~~~vli~G~~G~GKTtl~~~l~~   67 (386)
T 2qby_A           45 PNNIFIYGLTGTGKTAVVKFVLS   67 (386)
T ss_dssp             CCCEEEEECTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999998875

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.86  E-value=0.0069  Score=42.11  Aligned_cols=26  Identities=15%  Similarity=-0.006  Sum_probs=21.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..+..-|++.|.+||||||+++.+..
T Consensus        18 ~~~~~~i~~~G~~g~GKst~~~~l~~   43 (223)
T 3ld9_A           18 GPGSMFITFEGIDGSGKTTQSHLLAE   43 (223)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34566799999999999999998764

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=95.85  E-value=0.0056  Score=45.50  Aligned_cols=22  Identities=23%  Similarity=0.200  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+++.|++|+|||++++.+.+.
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            6999999999999999988754

>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=95.85  E-value=0.005  Score=47.68  Aligned_cols=21  Identities=14%  Similarity=0.319  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .++++|+.|||||||++.+.+
T Consensus        31 ~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999998875

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.85  E-value=0.0045  Score=47.42  Aligned_cols=22  Identities=18%  Similarity=0.209  Sum_probs=20.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ++.++|+.|+|||||++.+.+.
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            6899999999999999998875

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.82  E-value=0.0059  Score=42.64  Aligned_cols=22  Identities=27%  Similarity=0.283  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|++-|.+||||||+++.|..
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~   24 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999998875

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.79  E-value=0.0051  Score=42.89  Aligned_cols=24  Identities=25%  Similarity=0.128  Sum_probs=17.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +..-|++-|.+||||||+++++..
T Consensus        24 ~g~~I~~eG~~GsGKsT~~~~l~~   47 (227)
T 3v9p_A           24 RGKFITFEGIDGAGKTTHLQWFCD   47 (227)
T ss_dssp             CCCEEEEECCC---CHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            356699999999999999998764

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.78  E-value=0.0065  Score=47.77  Aligned_cols=22  Identities=18%  Similarity=0.229  Sum_probs=20.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|+|||||++.+.+.
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998874

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.78  E-value=0.0078  Score=44.76  Aligned_cols=24  Identities=17%  Similarity=0.163  Sum_probs=20.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+|+++|++|+||||+...+..
T Consensus        23 ~~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A           23 YRVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHH
Confidence            356799999999999999986643

>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=95.77  E-value=0.0067  Score=41.83  Aligned_cols=23  Identities=13%  Similarity=-0.002  Sum_probs=19.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..-|++-|.+||||||+++.+..
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            45689999999999999998854

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.77  E-value=0.0082  Score=41.80  Aligned_cols=24  Identities=25%  Similarity=0.198  Sum_probs=20.0

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHH
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICY   28 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l   28 (168)
                      ....++|++.|.+|+||||+.-.+
T Consensus         3 ~~g~l~I~~~~kgGvGKTt~a~~l   26 (228)
T 2r8r_A            3 ARGRLKVFLGAAPGVGKTYAMLQA   26 (228)
T ss_dssp             CCCCEEEEEESSTTSSHHHHHHHH
T ss_pred             CCceEEEEEECCCCCcHHHHHHHH
Confidence            455799999999999999995544

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.76  E-value=0.0061  Score=44.65  Aligned_cols=24  Identities=13%  Similarity=0.239  Sum_probs=20.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-.+++.|+||+|||+|+..+...
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            357999999999999999988763

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=95.74  E-value=0.0066  Score=44.39  Aligned_cols=24  Identities=13%  Similarity=0.151  Sum_probs=20.8

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...+++.|+||+|||+++..+...
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            457999999999999999988653

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.74  E-value=0.0049  Score=49.04  Aligned_cols=22  Identities=27%  Similarity=0.268  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRF  404 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            6899999999999999988764

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=95.74  E-value=0.0064  Score=40.83  Aligned_cols=21  Identities=14%  Similarity=0.203  Sum_probs=19.1

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      ++|+|.++||||++..++...
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            689999999999999999854

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.72  E-value=0.0062  Score=41.74  Aligned_cols=23  Identities=26%  Similarity=0.229  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+.|++.|.+||||||+...|..
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999988764

>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=95.70  E-value=0.0063  Score=44.69  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+++.|++|+|||++++.+.+.
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            4999999999999999988653

>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=95.69  E-value=0.0072  Score=44.22  Aligned_cols=23  Identities=30%  Similarity=0.281  Sum_probs=19.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-|+++|++|||||+|..++...
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            35789999999999999999754

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=95.66  E-value=0.0054  Score=45.55  Aligned_cols=22  Identities=18%  Similarity=0.084  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.++|++|+|||||+..+...
T Consensus       133 i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          133 ITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998864

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.66  E-value=0.0075  Score=46.11  Aligned_cols=24  Identities=17%  Similarity=0.152  Sum_probs=20.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-.|++.|+||+|||+|+..+.+.
T Consensus       215 prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          215 PKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCeeEEECcCCCCHHHHHHHHHHH
Confidence            457999999999999999988763

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.66  E-value=0.0098  Score=43.91  Aligned_cols=23  Identities=22%  Similarity=0.251  Sum_probs=20.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-|+|+|++|||||+|...|...
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999998753

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.63  E-value=0.0079  Score=43.84  Aligned_cols=23  Identities=22%  Similarity=0.264  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.+++.|++|+|||+|+..+..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999988764

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=95.62  E-value=0.0071  Score=45.79  Aligned_cols=23  Identities=17%  Similarity=0.300  Sum_probs=20.9

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHH
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICY   28 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l   28 (168)
                      .+.+|++++|...|||||++.++
T Consensus        38 ~~~~klLLLG~geSGKSTi~KQm   60 (402)
T 1azs_C           38 RATHRLLLLGAGESGKSTIVKQM   60 (402)
T ss_dssp             TTEEEEEEEESTTSSHHHHHHHH
T ss_pred             hccceEEEecCCCCchhhHHHHH
Confidence            45899999999999999999975

>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=95.62  E-value=0.0081  Score=38.92  Aligned_cols=19  Identities=21%  Similarity=0.401  Sum_probs=17.0

Q ss_pred             EEEECCCCCCHHHHHHHHh
Q 030961           11 CVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~   29 (168)
                      .+++|+.|+||||++..+.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5899999999999999864

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.62  E-value=0.0079  Score=45.89  Aligned_cols=23  Identities=17%  Similarity=0.171  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.+++.|+||+|||+++..+.+
T Consensus       206 prGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          206 PRGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CCEEEEESCTTTTHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999998865

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.61  E-value=0.0043  Score=49.15  Aligned_cols=22  Identities=18%  Similarity=0.166  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            6799999999999999877653

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.59  E-value=0.008  Score=40.14  Aligned_cols=24  Identities=13%  Similarity=0.371  Sum_probs=20.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      .-+++.|++|+||||+...|....
T Consensus        17 ~gvli~G~SGaGKStlal~L~~rG   40 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDRG   40 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcC
Confidence            468999999999999999998643

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=95.59  E-value=0.0076  Score=44.03  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+++.|++|+|||||++.+...
T Consensus        33 ~v~i~G~~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A           33 LTLLLGIRRVGKSSLLRAFLNE   54 (350)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcCCHHHHHHHHHHH
Confidence            5899999999999999998764

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=95.59  E-value=0.0056  Score=45.39  Aligned_cols=23  Identities=17%  Similarity=0.057  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.+++.|++|+|||++++.+..
T Consensus        44 ~~~vll~G~~G~GKT~l~~~~~~   66 (387)
T 2v1u_A           44 PSNALLYGLTGTGKTAVARLVLR   66 (387)
T ss_dssp             CCCEEECBCTTSSHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHH
Confidence            44689999999999999998875

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.59  E-value=0.0077  Score=48.04  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=20.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+.++|+.|+|||||++.+.+.
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            5799999999999999998874

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.58  E-value=0.0074  Score=47.45  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.++|+.|+|||||++.+.+.
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4789999999999999998874

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.57  E-value=0.0084  Score=45.87  Aligned_cols=24  Identities=17%  Similarity=0.109  Sum_probs=20.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +.-.|++.|+||+|||+|+..+.+
T Consensus       214 ~prGvLL~GPPGtGKTllAkAiA~  237 (437)
T 4b4t_L          214 PPKGVLLYGPPGTGKTLLAKAVAA  237 (437)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHH
Confidence            345799999999999999998865

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.54  E-value=0.0057  Score=48.58  Aligned_cols=22  Identities=14%  Similarity=0.241  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999987663

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=95.54  E-value=0.0033  Score=44.54  Aligned_cols=21  Identities=24%  Similarity=0.292  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+++.|++|+|||+++..+..
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            488999999999999998875

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=95.53  E-value=0.007  Score=44.81  Aligned_cols=22  Identities=18%  Similarity=0.306  Sum_probs=19.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.+++.|+||+|||+++..+..
T Consensus        71 ~~vLl~GppGtGKT~la~~la~   92 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQ   92 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998865

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=95.52  E-value=0.0075  Score=46.53  Aligned_cols=23  Identities=26%  Similarity=0.271  Sum_probs=19.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-+++++|+||+|||+++..+..
T Consensus       201 ~~~~LL~G~pG~GKT~la~~la~  223 (468)
T 3pxg_A          201 KNNPVLIGEPGVGKTAIAEGLAQ  223 (468)
T ss_dssp             SCEEEEESCTTTTTHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999998764

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=95.51  E-value=0.0099  Score=46.55  Aligned_cols=22  Identities=36%  Similarity=0.157  Sum_probs=19.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHh
Q 030961            8 FIKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~   29 (168)
                      ..-|+++|.||+||||+..+|.
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La   56 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLT   56 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4568999999999999999885

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=95.51  E-value=0.0039  Score=40.02  Aligned_cols=23  Identities=4%  Similarity=0.008  Sum_probs=19.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+++.|++|+|||+++..+..
T Consensus        27 ~~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           27 TSPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             SSCEEEEEETTCCHHHHHGGGCC
T ss_pred             CCcEEEECCCCccHHHHHHHHHH
Confidence            34699999999999999977654

>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=95.46  E-value=0.0088  Score=44.63  Aligned_cols=23  Identities=22%  Similarity=0.215  Sum_probs=20.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+++.|++|+|||+++..+..
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~   94 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAK   94 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998865

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.45  E-value=0.0087  Score=47.06  Aligned_cols=22  Identities=18%  Similarity=0.223  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+.++|+.|||||||++.+.+-
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl  317 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGE  317 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999874

>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=95.44  E-value=0.0085  Score=45.88  Aligned_cols=23  Identities=22%  Similarity=0.283  Sum_probs=19.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.+++.|++|+|||+|++.+.+
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~  152 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGN  152 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999998865

>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=95.44  E-value=0.0089  Score=44.42  Aligned_cols=23  Identities=13%  Similarity=0.189  Sum_probs=20.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ..+++.|++|+|||+++..+...
T Consensus        85 ~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Confidence            46999999999999999988753

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.43  E-value=0.0091  Score=43.72  Aligned_cols=24  Identities=17%  Similarity=0.201  Sum_probs=20.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...+++.|++|+|||++++.+...
T Consensus        55 ~~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           55 LDHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            346999999999999999998653

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=95.42  E-value=0.0074  Score=44.16  Aligned_cols=22  Identities=14%  Similarity=0.194  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++|.|++|+|||+|++.+...
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~~~   53 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGINE   53 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHh
Confidence            5889999999999999998753

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.41  E-value=0.0099  Score=47.43  Aligned_cols=22  Identities=23%  Similarity=0.244  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+.++|+.|+|||||++.+.+.
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gl  140 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQ  140 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            5799999999999999998874

>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=95.40  E-value=0.0085  Score=42.01  Aligned_cols=23  Identities=17%  Similarity=0.069  Sum_probs=19.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..-|++.|.+||||||+++++..
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~   49 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVE   49 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999998754

>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=95.39  E-value=0.0098  Score=44.17  Aligned_cols=24  Identities=17%  Similarity=0.156  Sum_probs=20.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ....+++.|+||+|||+++..+..
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            345799999999999999998865

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.37  E-value=0.011  Score=46.43  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=20.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+.++|+.|+|||||++.+.+.
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl  335 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGV  335 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999875

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=95.36  E-value=0.008  Score=44.65  Aligned_cols=22  Identities=18%  Similarity=0.140  Sum_probs=19.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.+++.|++|+|||++++.+..
T Consensus        46 ~~vll~G~~G~GKT~la~~l~~   67 (384)
T 2qby_B           46 FSNLFLGLTGTGKTFVSKYIFN   67 (384)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998875

>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=95.33  E-value=0.01  Score=46.70  Aligned_cols=23  Identities=22%  Similarity=0.112  Sum_probs=19.7

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.++++|++|+|||||++.+.+
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            34689999999999999998764

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=95.33  E-value=0.011  Score=43.90  Aligned_cols=25  Identities=24%  Similarity=0.235  Sum_probs=21.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ....+++.|++|+|||+++..+...
T Consensus       116 ~~~~vLl~GppGtGKT~la~aia~~  140 (357)
T 3d8b_A          116 PPKGILLFGPPGTGKTLIGKCIASQ  140 (357)
T ss_dssp             CCSEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            3457999999999999999988653

---

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	168
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	2e-37
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	7e-37
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	5e-36
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	6e-35
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	4e-34
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	2e-33
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	1e-32
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-32
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	3e-32
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	5e-29
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	6e-29
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	1e-28
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	4e-28
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	4e-28
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	5e-28
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	6e-28
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	8e-28
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	1e-26
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	3e-24
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	7e-24
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	1e-23
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	2e-23
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	5e-23
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	1e-22
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	2e-22
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	4e-22
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	2e-21
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	2e-21
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	5e-21
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	5e-21
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	1e-20
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	3e-20
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	4e-20
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	2e-19
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	9e-19
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	5e-18
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	4e-16
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	7e-16
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	7e-16
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	7e-15
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	2e-14
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	2e-14
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	4e-14
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	9e-14
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	3e-13
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	5e-13
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	1e-11
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	1e-11
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	4e-11
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	5e-11
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-10
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-10
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	5e-09
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	8e-09
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	1e-08
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	3e-05

>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 =  125 bits (314), Expect = 2e-37
 Identities = 86/160 (53%), Positives = 117/160 (73%), Gaps = 2/160 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           IKCV VGDGAVGKTC+LI YT+NKFP++Y+PTVFDN++  V+  G    LGL+DTAGQED
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQED 63

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DVF++ FS+VS +S+ENV +KW+PE+ H+ P  P +LVGT++DLR+D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDP 123

Query: 129 HYLADHPG--LVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             +         P+T    E+L + + A  Y+ECS+ TQ+
Sbjct: 124 STIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQK 163

>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 =  123 bits (309), Expect = 7e-37
 Identities = 85/169 (50%), Positives = 123/169 (72%), Gaps = 3/169 (1%)

Query: 1   MASS-ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLG 59
           MA    +  +KCV VGDGAVGKTC+L+ Y ++ FP +Y+PTVFD+++ +V   G    LG
Sbjct: 1   MAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLG 60

Query: 60  LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVG 119
           L+DTAGQEDY+RLRPLSY   DVF++ FS+V+ AS++NV ++W+PEL+ Y+P VP +L+G
Sbjct: 61  LYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIG 120

Query: 120 TKLDLREDKHYL--ADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           T++DLR+D   L   +     P+   QG++L K+IGA  Y+ECS+ TQ+
Sbjct: 121 TQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQK 169

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  120 bits (302), Expect = 5e-36
 Identities = 47/159 (29%), Positives = 78/159 (49%), Gaps = 13/159 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
           +K + +GD  VGK+C+L+ +  +KF   +I T+  +F    V   G  V L +WDTAGQE
Sbjct: 3   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE 62

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  +    YRGA   +L + +    ++ N+ + +    +H +    ++LVG K D+   
Sbjct: 63  RFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETR 122

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                        T  QGE L K++G   +IE S+K   
Sbjct: 123 VV-----------TADQGEALAKELGIP-FIESSAKNDD 149

>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 =  118 bits (296), Expect = 6e-35
 Identities = 100/164 (60%), Positives = 125/164 (76%), Gaps = 2/164 (1%)

Query: 5   ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTA 64
           + + IKCV VGDGAVGKTC+LI YT+N FP +YIPTVFDN+SANV+ +G  VNLGLWDTA
Sbjct: 2   SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTA 61

Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDL 124
           GQEDY+RLRPLSY   DV ++ FSLVS AS+ENV  KW PE++H+ P  P++LVGTKLDL
Sbjct: 62  GQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDL 121

Query: 125 REDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           R+DK  +       L P+T  QG  + K+IGA  Y+ECS+ TQ+
Sbjct: 122 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR 165

>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 =  116 bits (290), Expect = 4e-34
 Identities = 63/160 (39%), Positives = 94/160 (58%), Gaps = 2/160 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
            K V VGD   GKT +L  +  + FP +Y+PTVF+N++A+   +   + L LWDT+G   
Sbjct: 3   CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPY 62

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+ +RPLSY  +D  ++ F +    + ++VLKKW  E+Q + P   ++LVG K DLR D 
Sbjct: 63  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDV 122

Query: 129 HYLADHP--GLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             L +       PV+  QG  + KQIGA+ YIECS+   +
Sbjct: 123 STLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSE 162

>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 =  114 bits (285), Expect = 2e-33
 Identities = 78/160 (48%), Positives = 108/160 (67%), Gaps = 2/160 (1%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
            K V VGDGA GKTC+LI  + ++FP  Y+PTVF+N+ A++  +G  V L LWDTAG ED
Sbjct: 3   KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGLED 62

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+RLRPLSY   DV ++ FS+ S  S EN+ +KW PE++H+ P VP++LVG K DLR D+
Sbjct: 63  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDE 122

Query: 129 HYLADH--PGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           H   +       PV   +G ++  +IGA  Y+ECS+KT+ 
Sbjct: 123 HTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKD 162

>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 =  113 bits (283), Expect = 1e-32
 Identities = 37/126 (29%), Positives = 67/126 (53%), Gaps = 1/126 (0%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQE 67
            K + +G+  VGK+C+L+ ++ + +  DYI T+  +F    V  +G TV L +WDTAGQE
Sbjct: 7   FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE 66

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  +    YRG+   ++ + +  + S+  V        ++ +  V  +LVG K DL++ 
Sbjct: 67  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 126

Query: 128 KHYLAD 133
           +    D
Sbjct: 127 RVVEYD 132

>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 (279), Expect = 2e-32
 Identities = 46/159 (28%), Positives = 69/159 (43%), Gaps = 12/159 (7%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
            K V +G+  VGKTC++  +T   FP     T+  +F    V   G  V L +WDTAGQE
Sbjct: 6   FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQE 65

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  +    YR A+  +L + +    S+  + +      Q+ S  V  VLVG K+DL E 
Sbjct: 66  RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER 125

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +                  E   +    YY+E S+K   
Sbjct: 126 REVSQQRA-----------EEFSEAQDMYYLETSAKESD 153

>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 =  111 bits (278), Expect = 3e-32
 Identities = 42/159 (26%), Positives = 78/159 (49%), Gaps = 12/159 (7%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQE 67
            K + +GD  VGKTC+L  ++ + F + +I T+  +F    +  +G  + L +WDTAGQE
Sbjct: 7   FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQE 66

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  +    YRGA   +L + + +  S++N+        +H S  V  +++G K D+ + 
Sbjct: 67  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 126

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +            +  +GE+L    G   ++E S+K   
Sbjct: 127 RQV----------SKERGEKLALDYGIK-FMETSAKANI 154

>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 =  103 bits (257), Expect = 5e-29
 Identities = 46/158 (29%), Positives = 73/158 (46%), Gaps = 12/158 (7%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQED 68
           K V +GD  VGK+ +L  +T N+F  +   T+   F+   +  +G T+   +WDTAGQE 
Sbjct: 6   KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQER 65

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y R+    YRGA   +L + +    +YENV +       H    + ++LVG K DLR  +
Sbjct: 66  YRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLR 125

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                        T +     ++   S +IE S+    
Sbjct: 126 AV----------PTDEARAFAEKNNLS-FIETSALDST 152

>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 =  102 bits (255), Expect = 6e-29
 Identities = 41/159 (25%), Positives = 75/159 (47%), Gaps = 12/159 (7%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQE 67
            K + +GD  VGK+C+L  +T  KF  D   T+   F   ++   G  + L +WDTAGQE
Sbjct: 5   FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQE 64

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  +    YRGA   ++ + +  R++Y ++           +P   ++L+G K DL   
Sbjct: 65  RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ 124

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +            T  + ++  ++ G   ++E S+KT +
Sbjct: 125 RDV----------TYEEAKQFAEENGLL-FLEASAKTGE 152

>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 =  102 bits (254), Expect = 1e-28
 Identities = 56/170 (32%), Positives = 74/170 (43%), Gaps = 23/170 (13%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV-----------AEGTTVN 57
           IK + +GD  VGKT  L  YT NKF   +I TV  +F    V            +   V+
Sbjct: 6   IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVH 65

Query: 58  LGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQH-YSPGVPVV 116
           L LWDTAGQE +  L    +R A  F+L F L S+ S+ NV         + Y     +V
Sbjct: 66  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV 125

Query: 117 LVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           L+G K DL + +               Q  EL  + G   Y E S+ T Q
Sbjct: 126 LIGNKADLPDQREV----------NERQARELADKYGIP-YFETSAATGQ 164

>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 =  100 bits (250), Expect = 4e-28
 Identities = 41/159 (25%), Positives = 81/159 (50%), Gaps = 12/159 (7%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
            K V +G G VGK+ + + + +  F   Y PT+ D +   +  + +   L + DTAG E 
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQ 63

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLRED 127
           +  +R L  +    F+L +SLV++ S++++       ++      VPV+LVG K+DL  +
Sbjct: 64  FASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESE 123

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +            ++++G  L ++ G   ++E S+K++ 
Sbjct: 124 REV----------SSSEGRALAEEWGCP-FMETSAKSKT 151

>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 =  101 bits (251), Expect = 4e-28
 Identities = 44/158 (27%), Positives = 77/158 (48%), Gaps = 12/158 (7%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQED 68
           K + +GD  VGK+C+L+ +T  +F   +  T+   F A +V  +G  + L +WDTAGQE 
Sbjct: 5   KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQES 64

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           +  +    YRGA   +L + +  R ++ ++        QH S  + ++L+G K DL   +
Sbjct: 65  FRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR 124

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
               +           GE   ++ G   ++E S+KT  
Sbjct: 125 DVKREE----------GEAFAREHGLI-FMETSAKTAC 151

>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 = 5e-28
 Identities = 47/159 (29%), Positives = 80/159 (50%), Gaps = 13/159 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQE 67
           K + VGD  VGKTC+L+ +    F    +I TV  +F +  +  +G  V L +WDTAGQE
Sbjct: 8   KVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQE 67

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  +    YR A   +L + + ++AS++N+        ++    V ++L+G K+D   +
Sbjct: 68  RFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHE 127

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +           V    GE+L K+ G   ++E S+KT  
Sbjct: 128 R----------VVKREDGEKLAKEYGLP-FMETSAKTGL 155

>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 =  100 bits (248), Expect = 6e-28
 Identities = 42/158 (26%), Positives = 69/158 (43%), Gaps = 12/158 (7%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQED 68
           K V +G+ +VGKT ++  +  + F   Y  T+  D  S  +  E  T+ L LWDTAGQE 
Sbjct: 2   KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQER 61

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           +  L P   R +   V+ + + +  S++   K            V ++LVG K DL + +
Sbjct: 62  FRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKR 121

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
               +            E   K++    +IE S+K   
Sbjct: 122 QVSIEEG----------ERKAKELNVM-FIETSAKAGY 148

>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 =   99 bits (248), Expect = 8e-28
 Identities = 40/158 (25%), Positives = 69/158 (43%), Gaps = 12/158 (7%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQED 68
           K + +G+ +VGKT  L  Y  + F   ++ TV  +F    +      + L +WDTAGQE 
Sbjct: 7   KILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQER 66

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y  +    YRGA  F+L + + +  S+  V         +      V+LVG K D+ +++
Sbjct: 67  YRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDER 126

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
              ++             +L   +G   + E S+K   
Sbjct: 127 VVSSERG----------RQLADHLGFE-FFEASAKDNI 153

>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 = 97.3 bits (241), Expect = 1e-26
 Identities = 40/158 (25%), Positives = 66/158 (41%), Gaps = 12/158 (7%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQED 68
           K + +G+   GK+C+L  +   KF  D   T+   F S  +   G  V L +WDTAGQE 
Sbjct: 7   KFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQER 66

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           +  +    YRGA   +L + + SR +Y  +           S  + ++L G K DL  D+
Sbjct: 67  FRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADR 126

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                                ++     ++E S+ T +
Sbjct: 127 EVTFLEA----------SRFAQENELM-FLETSALTGE 153

>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 = 91.1 bits (225), Expect = 3e-24
 Identities = 36/159 (22%), Positives = 70/159 (44%), Gaps = 12/159 (7%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVF-DNFSANVVAEGTTVNLGLWDTAGQE 67
           +K + +G+  VGK+ +L+ +T + F  +   T+  D     +  +G    L +WDTAGQE
Sbjct: 8   LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 67

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  L P  YRGA   +L + +  R ++  +         + +    V ++      +E+
Sbjct: 68  RFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN 127

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +           V   +G +  ++     +IE S+KT  
Sbjct: 128 R----------EVDRNEGLKFARKHSM-LFIEASAKTCD 155

>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 = 90.0 bits (222), Expect = 7e-24
 Identities = 47/166 (28%), Positives = 77/166 (46%), Gaps = 16/166 (9%)

Query: 6   SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTA 64
           S   K + +GDG VGK+ ++  Y +NKF T    T+   F    +  +G  V + +WDTA
Sbjct: 4   SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTA 63

Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS----PGVPVVLVGT 120
           GQE +  LR   YRG+D  +L FS+    S++N+       + +         P V++G 
Sbjct: 64  GQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGN 123

Query: 121 KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           K+D+ E +            +T + +   +  G   Y E S+K   
Sbjct: 124 KIDISERQV-----------STEEAQAWCRDNGDYPYFETSAKDAT 158

>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 = 88.8 bits (219), Expect = 1e-23
 Identities = 44/159 (27%), Positives = 75/159 (47%), Gaps = 14/159 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + VG G VGK+ + + +  ++F  DY PT  D++   VV +G  V + + DTAGQEDY
Sbjct: 6   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDY 65

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY--SPGVPVVLVGTKLDLRED 127
             +R   +R  + F+  FS ++          +  ++        VP +LVG K DL + 
Sbjct: 66  AAIRDNYFRSGEGFLCVFS-ITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDK 124

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +            +  + +    Q   + Y+E S+KT+ 
Sbjct: 125 RQV----------SVEEAKNRADQWNVN-YVETSAKTRA 152

>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 = 88.5 bits (218), Expect = 2e-23
 Identities = 41/161 (25%), Positives = 77/161 (47%), Gaps = 11/161 (6%)

Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
           R  K V +G G VGK+ + + +    F   Y PT+ D++   V  +     L + DTAG 
Sbjct: 2   REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGT 61

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLR 125
           E +  +R L  +    F L +S+ +++++ ++       L+   +  VP++LVG K DL 
Sbjct: 62  EQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE 121

Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +++               QG+ L +Q     ++E S+K++ 
Sbjct: 122 DERVV----------GKEQGQNLARQWCNCAFLESSAKSKI 152

>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 = 87.8 bits (216), Expect = 5e-23
 Identities = 40/158 (25%), Positives = 68/158 (43%), Gaps = 12/158 (7%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVA-EGTTVNLGLWDTAGQED 68
           K V +G+ AVGK+ +++ +   +F      T+   F    V  + TTV   +WDTAGQE 
Sbjct: 8   KLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQER 67

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           Y+ L P+ YRGA   ++ + + +  S+           +  SP + + L G K DL   +
Sbjct: 68  YHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKR 127

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                          + +          ++E S+KT  
Sbjct: 128 AV----------DFQEAQSYADDNSLL-FMETSAKTSM 154

>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 = 86.6 bits (213), Expect = 1e-22
 Identities = 52/159 (32%), Positives = 83/159 (52%), Gaps = 15/159 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VG G VGK+ + I    N F  +Y PT+ D++   VV +G T  L + DTAGQE+Y
Sbjct: 5   KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY 64

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLRED 127
           + +R    R  + F+  F++ +  S+E++  ++  +++       VP+VLVG K DL   
Sbjct: 65  SAMRDQYMRTGEGFLCVFAINNTKSFEDI-HQYREQIKRVKDSDDVPMVLVGNKCDLAAR 123

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                         + Q ++L +  G   YIE S+KT+Q
Sbjct: 124 TV-----------ESRQAQDLARSYGIP-YIETSAKTRQ 150

>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 = 86.2 bits (212), Expect = 2e-22
 Identities = 45/158 (28%), Positives = 80/158 (50%), Gaps = 12/158 (7%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEGTTVNLGLWDTAGQED 68
           K V +G+G VGKT +++ Y  NKF   +I T+  +F    +   G  VNL +WDTAGQE 
Sbjct: 5   KVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQER 64

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           ++ L P+ YR ++  +L + +    S++ V        +     + + +VG K+DL +++
Sbjct: 65  FHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKER 124

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           H           +  + E   + +GA +Y   S+K  +
Sbjct: 125 HV----------SIQEAESYAESVGAKHY-HTSAKQNK 151

>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 = 85.1 bits (209), Expect = 4e-22
 Identities = 47/162 (29%), Positives = 73/162 (45%), Gaps = 12/162 (7%)

Query: 6   SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG 65
           S   K V VG G VGK+ + I +  + F +DY PT+ D+++     +G    L + DTAG
Sbjct: 4   SETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAG 63

Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDL 124
           QE++  +R    R    F+L F++  R S+  V K +   L+       PVVLVG K DL
Sbjct: 64  QEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADL 123

Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
              +              ++          + Y E S+K + 
Sbjct: 124 ESQRQV----------PRSEASAFGASHHVA-YFEASAKLRL 154

>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 = 83.5 bits (205), Expect = 2e-21
 Identities = 49/164 (29%), Positives = 82/164 (50%), Gaps = 12/164 (7%)

Query: 4   SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDT 63
           S     + V VG G VGK+ + I +  + F TDY PT+ D+++   V +     L + DT
Sbjct: 1   SMQEKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDT 60

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQ-HYSPGVPVVLVGTKL 122
           AGQE++  +R    R  + F+L FS+  R S+E + K     L+       P++L+G K 
Sbjct: 61  AGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKA 120

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           DL   +            T  +G++L +Q+  + Y+E S+K + 
Sbjct: 121 DLDHQRQV----------TQEEGQQLARQLKVT-YMEASAKIRM 153

>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 = 83.1 bits (204), Expect = 2e-21
 Identities = 36/163 (22%), Positives = 67/163 (41%), Gaps = 12/163 (7%)

Query: 5   ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDT 63
           A R +K   +GD  VGK+ ++  +  + F  +  PT+     +  V  +       +WDT
Sbjct: 1   ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDT 60

Query: 64  AGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLD 123
           AG E +  L P+ YRG+   ++ + +    ++  +        QH  P + V + G K D
Sbjct: 61  AGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCD 120

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           L + +                 ++    I A  ++E S+K   
Sbjct: 121 LTDVREV----------MERDAKDYADSIHAI-FVETSAKNAI 152

>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 = 82.4 bits (202), Expect = 5e-21
 Identities = 45/159 (28%), Positives = 77/159 (48%), Gaps = 9/159 (5%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEG-TTVNLGLWDTAGQE 67
           IK V +G+ AVGK+ +++ + SN F  +  PT+   F    V     TV   +WDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
            +  L P+ YR A   ++ + +    S+           +  S  + + LVG K+D+ ++
Sbjct: 64  RFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQE 123

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                       V   +GE+L ++ G  ++ E S+KT +
Sbjct: 124 GGE-------RKVAREEGEKLAEEKGLLFF-ETSAKTGE 154

>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 = 82.4 bits (202), Expect = 5e-21
 Identities = 46/164 (28%), Positives = 75/164 (45%), Gaps = 15/164 (9%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVV--AEGTTVNLGLWDTAGQ 66
           +K + +GD  VGKT ++  Y ++K+   Y  T+  +F    V         + +WDTAGQ
Sbjct: 3   LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQ 62

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS----PGVPVVLVGTKL 122
           E +  L    YRGAD  VL + + + +S+EN+       L H +       P V++G K+
Sbjct: 63  ERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKI 122

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           D  E K  +++            +EL K +G       S+K   
Sbjct: 123 DAEESKKIVSEK---------SAQELAKSLGDIPLFLTSAKNAI 157

>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 = 81.7 bits (200), Expect = 1e-20
 Identities = 44/163 (26%), Positives = 70/163 (42%), Gaps = 16/163 (9%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFD-NFSANVVAEGTTVNLGLWDTAGQE 67
           +K + +GD  VGKT ++  Y + KF   Y  T+     +  V+ +   V + +WDTAGQE
Sbjct: 3   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQE 62

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSP----GVPVVLVGTKLD 123
            +  L    YRGAD  VL F + +  +++ +       L   SP      P V++G K+D
Sbjct: 63  RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKID 122

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           L   +             T + +          Y E S+K   
Sbjct: 123 LENRQV-----------ATKRAQAWCYSKNNIPYFETSAKEAI 154

>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 = 80.5 bits (197), Expect = 3e-20
 Identities = 49/159 (30%), Positives = 80/159 (50%), Gaps = 12/159 (7%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K V VGDG VGK+ + I +    F  DY PT+ D++  +   +     L + DTAGQE++
Sbjct: 6   KLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEF 65

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDK 128
           + +R    R  D F++ +S+  +AS+E+V +     L+       P++LV  K+DL   +
Sbjct: 66  SAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLR 125

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV 167
                      VT  QG+E+  +     YIE S+K   +
Sbjct: 126 K----------VTRDQGKEMATKYNIP-YIETSAKDPPL 153

>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 = 80.0 bits (196), Expect = 4e-20
 Identities = 38/160 (23%), Positives = 71/160 (44%), Gaps = 13/160 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
            +    G G VGK+ +++ +    F   YIPTV D +   +  + +   L + DT G   
Sbjct: 3   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQ 62

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYEN--VLKKWIPELQHYSPGVPVVLVGTKLDLRE 126
           +  ++ LS      F+L +S+ SR S E    + + I E++     +P++LVG K D   
Sbjct: 63  FPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESP 122

Query: 127 DKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            +             +++ E L +    + ++E S+K   
Sbjct: 123 SREV----------QSSEAEALARTWKCA-FMETSAKLNH 151

>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 = 78.1 bits (191), Expect = 2e-19
 Identities = 41/163 (25%), Positives = 67/163 (41%), Gaps = 14/163 (8%)

Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDN-FSANVVAEGTTVNLGLWDTAG 65
           R  K + +GD  VGKTC+   + + +FP     T+  +     V  +G  + + LWDTAG
Sbjct: 1   RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAG 60

Query: 66  QEDYNRL-RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLD 123
           QE + +      YR     V  + + + AS+ ++        QH  +  +P +LVG K D
Sbjct: 61  QERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCD 120

Query: 124 LREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           LR                T   ++         + E S+K   
Sbjct: 121 LRSAIQV----------PTDLAQKFADTHSMPLF-ETSAKNPN 152

>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 = 76.6 bits (187), Expect = 9e-19
 Identities = 43/159 (27%), Positives = 76/159 (47%), Gaps = 13/159 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           +K    G   VGK+ +++ + + +F  +Y PT+   +      +   V++ + DTAGQED
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQED 62

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLRED 127
             + R    R  + FVL + +  R S+E VL       +      V ++LVG K DL   
Sbjct: 63  TIQ-REGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHS 121

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           +            +T +GE+L  ++  ++Y ECS+ T +
Sbjct: 122 RQV----------STEEGEKLATELACAFY-ECSACTGE 149

>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 = 74.3 bits (181), Expect = 5e-18
 Identities = 23/158 (14%), Positives = 47/158 (29%), Gaps = 11/158 (6%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           ++ + VG  A GKT +L      +  T      F+  +         ++  +WD  GQ+ 
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEY----KNISFTVWDVGGQDK 56

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
              L    ++     +       R       ++ +  L        V+LV        + 
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 116

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
              A+      +T   G    +     Y     + +  
Sbjct: 117 MNAAE------ITDKLGLHSLRHRNW-YIQATCATSGD 147

>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 = 69.7 bits (169), Expect = 4e-16
 Identities = 42/158 (26%), Positives = 69/158 (43%), Gaps = 15/158 (9%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQED 68
           K V VGDG  GKT  +  + + +F   Y+ T+               +   +WDTAGQE 
Sbjct: 5   KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEK 64

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK 128
           +  LR   Y  A   ++ F + SR +Y+NV   W  +L      +P+VL G K+D+++ K
Sbjct: 65  FGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDRK 123

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                          + + L+       Y + S+K+  
Sbjct: 124 VKAKSI------VFHRKKNLQ-------YYDISAKSNY 148

>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 = 69.0 bits (167), Expect = 7e-16
 Identities = 41/162 (25%), Positives = 76/162 (46%), Gaps = 12/162 (7%)

Query: 6   SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG 65
           S+  K   +G  +VGK+ + I +   +F   Y PT+ + F+  +   G   +L L DTAG
Sbjct: 2   SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAG 61

Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDL 124
           Q++Y+          + ++L +S+ S  S+E +       L       +P++LVG K DL
Sbjct: 62  QDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDL 121

Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             ++            +  +G+ L +   A+ ++E S+K  Q
Sbjct: 122 HMERVI----------SYEEGKALAESWNAA-FLESSAKENQ 152

>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 = 69.0 bits (167), Expect = 7e-16
 Identities = 49/159 (30%), Positives = 68/159 (42%), Gaps = 13/159 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVVAEGTTVNLGLWDTAGQE 67
           IK V VG+GAVGK+ M+  Y    F  DY  T+  D     +      V L LWDTAGQE
Sbjct: 3   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE 62

Query: 68  DYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED 127
           +++ +    YRGA   VL FS   R S+E +   W  ++      +P  LV         
Sbjct: 63  EFDAITKAYYRGAQACVLVFSTTDRESFEAI-SSWREKVVAEVGDIPTALV--------- 112

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                D      +   + E L K++   +Y   S K   
Sbjct: 113 -QNKIDLLDDSCIKNEEAEGLAKRLKLRFY-RTSVKEDL 149

>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 = 66.5 bits (161), Expect = 7e-15
 Identities = 22/162 (13%), Positives = 46/162 (28%), Gaps = 13/162 (8%)

Query: 6   SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG 65
           ++ ++ + +G  A GKT +L      +  T      F+  +         V   +WD  G
Sbjct: 10  NKEMRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVETVTY----KNVKFNVWDVGG 65

Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDL 124
           Q+    L    Y G    +       R   +   ++    +         +++       
Sbjct: 66  QDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFAN---- 121

Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
              K  L D      +    G    +     Y     + +  
Sbjct: 122 ---KQDLPDAMKPHEIQEKLGLTRIRDRNW-YVQPSCATSGD 159

>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 = 65.4 bits (158), Expect = 2e-14
 Identities = 23/159 (14%), Positives = 47/159 (29%), Gaps = 13/159 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
            K + VG    GKT +L  ++ N+          +     +          +WD  GQE 
Sbjct: 16  HKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVEEIVI----NNTRFLMWDIGGQES 71

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSP-GVPVVLVGTKLDLRED 127
                   Y   +  ++      R       ++    L H       +++   K D++E 
Sbjct: 72  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC 131

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                    +  ++        K     +   C + T +
Sbjct: 132 MT-------VAEISQFLKLTSIKDHQW-HIQACCALTGE 162

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.0 bits (157), Expect = 2e-14
 Identities = 29/161 (18%), Positives = 58/161 (36%), Gaps = 17/161 (10%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           ++   +GD   GK+ ++  + +  +      T  + +   ++ +G T  + + + AG  D
Sbjct: 6   LRLGVLGDARSGKSSLIHRFLTGSYQ-VLEKTESEQYKKEMLVDGQTHLVLIREEAGAPD 64

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENV--LKKWIPELQHYSP-GVPVVLVGTKLDLR 125
                      AD  +  FSL    S++ V  L   +  L+     G+ + LVGT+  + 
Sbjct: 65  AKF-----SGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRIS 119

Query: 126 EDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                         V  A+   L   +    Y E  +    
Sbjct: 120 ASSPR--------VVGDARARALCADMKRCSYYETCATYGL 152

>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 = 64.2 bits (155), Expect = 4e-14
 Identities = 27/167 (16%), Positives = 50/167 (29%), Gaps = 13/167 (7%)

Query: 1   MASSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGL 60
           + S+  + ++ + +G    GKT +L    S           F+  S           L +
Sbjct: 9   LKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIKSVQS----QGFKLNV 64

Query: 61  WDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSP-GVPVVLVG 119
           WD  GQ          +   D+ +       R  +E   ++    L+      VPV++  
Sbjct: 65  WDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFA 124

Query: 120 TKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            K DL               +         +         CS+ T +
Sbjct: 125 NKQDLLTAAP-------ASEIAEGLNLHTIRDRVW-QIQSCSALTGE 163

>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 = 63.2 bits (152), Expect = 9e-14
 Identities = 18/157 (11%), Positives = 40/157 (25%), Gaps = 4/157 (2%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + +G    GKT +L    +++  T   PT               +    +D  G    
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRLAT-LQPTWHPTS---EELAIGNIKFTTFDLGGHIQA 57

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH 129
            RL    +   +  V          ++    +               ++        +  
Sbjct: 58  RRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV 117

Query: 130 YLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
             A+    + +    G +  +         CS   + 
Sbjct: 118 SEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRN 154

>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 = 62.3 bits (150), Expect = 3e-13
 Identities = 24/159 (15%), Positives = 43/159 (27%), Gaps = 13/159 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           ++ + +G    GKT +L      +  T   PT+  N           + L +WD  GQ  
Sbjct: 18  LRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNV---ETLSYKNLKLNVWDLGGQTS 73

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLRED 127
                   Y      +       +       K+    LQ        +++   K D    
Sbjct: 74  IRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQD---- 129

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                       V+        K    S  +  S+   +
Sbjct: 130 ---QPGALSASEVSKELNLVELKDRSWS-IVASSAIKGE 164

>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 = 61.6 bits (148), Expect = 5e-13
 Identities = 28/163 (17%), Positives = 50/163 (30%), Gaps = 9/163 (5%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
            K V +G    GKT +L     ++           +    +      +    +D  G   
Sbjct: 14  GKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPTSEELTI----AGMTFTTFDLGGHIQ 69

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWI-PELQHYSPGVPVVLVGTKLDLRED 127
             R+        +  V               ++            VP++++G K+D  E 
Sbjct: 70  ARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA 129

Query: 128 KHY--LADHPGLVPVTTAQGEELRKQIGAS--YYIECSSKTQQ 166
                L +  GL   TT +G    K++ A       CS   +Q
Sbjct: 130 ISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQ 172

>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 = 57.8 bits (138), Expect = 1e-11
 Identities = 33/159 (20%), Positives = 49/159 (30%), Gaps = 12/159 (7%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           ++   VG    GKT  +    S +F  D IPTV  N           V + LWD  GQ  
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKITK---GNVTIKLWDIGGQPR 59

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSP-GVPVVLVGTKLDLRED 127
           +  +     RG    V       +   E    +    L      G+PV+++G K DL   
Sbjct: 60  FRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA 119

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                       +         +          S K + 
Sbjct: 120 LDE-------KELIEKMNLSAIQDREIC-CYSISCKEKD 150

>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 = 58.0 bits (139), Expect = 1e-11
 Identities = 18/184 (9%), Positives = 41/184 (22%), Gaps = 34/184 (18%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           +K + +G G  GK+ ++            I      F               +D  GQ  
Sbjct: 3   VKLLLLGAGESGKSTIVKQMKIIHEAGTGIVETHFTFKDLHFKM--------FDVGGQRS 54

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENV----------LKKWIPELQHYS-PGVPVVL 117
             +     + G    +   +L                   +K +     +       ++L
Sbjct: 55  ERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIIL 114

Query: 118 VGT-------KLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS--------YYIECSS 162
                     K+          ++ G      A      +    +        Y     +
Sbjct: 115 FLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCA 174

Query: 163 KTQQ 166
              +
Sbjct: 175 TDTK 178

>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 = 56.9 bits (136), Expect = 4e-11
 Identities = 26/184 (14%), Positives = 48/184 (26%), Gaps = 31/184 (16%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           +K + +G G  GK+  +            +PT           +  +V   + D  GQ  
Sbjct: 3   LKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIE---YPFDLQSVIFRMVDVGGQRS 57

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENV----------LKKWIPELQHYS-PGVPVVL 117
             R     +      +   +L                      +   + +       V+L
Sbjct: 58  ERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVIL 117

Query: 118 VGTKLDLREDK-------HYLADHPGLVPVTTAQGEELRKQIGAS--------YYIECSS 162
              K DL E+K        Y  ++ G      A  E + K             Y     +
Sbjct: 118 FLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCA 177

Query: 163 KTQQ 166
              +
Sbjct: 178 TDTE 181

>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 = 55.9 bits (133), Expect = 5e-11
 Identities = 24/164 (14%), Positives = 54/164 (32%), Gaps = 15/164 (9%)

Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKF--PTDYIPTVFDNFSANVVAEGTTVNLGLWDTA 64
            + + V +G+  VGK+ +   +        +D      D +   ++ +G +  + L D  
Sbjct: 2   TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMW 61

Query: 65  GQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPE--LQHYSPGVPVVLVGTKL 122
             +  N              L    ++  +      +   +      +  +P++LVG K 
Sbjct: 62  ENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKS 121

Query: 123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
           DL   +            + ++G           +IE S+  Q 
Sbjct: 122 DLVRCREV----------SVSEGRACAVVFDCK-FIETSAAVQH 154

>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 = 55.1 bits (131), Expect = 1e-10
 Identities = 24/159 (15%), Positives = 45/159 (28%), Gaps = 13/159 (8%)

Query: 9   IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQED 68
           ++ + +G    GKT +L  +      T   PT+  N               +WD  GQ+ 
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGEDVDT-ISPTLGFNIKTLEHRGFKLN---IWDVGGQKS 58

Query: 69  YNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHY-SPGVPVVLVGTKLDLRED 127
                   +   D  +       R   ++  ++    L      G  +++   K DL   
Sbjct: 59  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 118

Query: 128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                             E    +        CS+ T +
Sbjct: 119 LS--------CNAIQEALELDSIRSHHWRIQGCSAVTGE 149

>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 = 53.6 bits (127), Expect = 3e-10
 Identities = 21/162 (12%), Positives = 42/162 (25%), Gaps = 13/162 (8%)

Query: 6   SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAG 65
           +R ++ + +G    GKT +L      +  T    T+              +   +WD  G
Sbjct: 3   TREMRILILGLDGAGKTTILYRLQVGEVVT----TIPTIGFNVETVTYKNLKFQVWDLGG 58

Query: 66  QEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDL 124
                      Y   D  +       R        + +  L+        +V+   K D+
Sbjct: 59  LTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDM 118

Query: 125 REDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
            +                + G    K        + S+    
Sbjct: 119 EQAMTSSEMA-------NSLGLPALKDRKWQ-IFKTSATKGT 152

>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 = 50.5 bits (119), Expect = 5e-09
 Identities = 28/158 (17%), Positives = 58/158 (36%), Gaps = 13/158 (8%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           K + +G   VGK+ +   +   +            +  ++V +G   +L ++D   Q+  
Sbjct: 3   KVLLLGAPGVGKSALARIFGGVED-GPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGG 61

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPG-VPVVLVGTKLDLREDK 128
             L        D +V+ +S+  + S+E   +  +   +      VP++LVG K DL   +
Sbjct: 62  RWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSR 121

Query: 129 HYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ 166
                       +  +G           +IE S+    
Sbjct: 122 EV----------SVDEGRACAVVFDCK-FIETSAALHH 148

>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 = 50.4 bits (119), Expect = 8e-09
 Identities = 19/122 (15%), Positives = 43/122 (35%), Gaps = 6/122 (4%)

Query: 12  VTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR 71
           + VG    GKT + +   + ++  D   ++ D+ +   V      +L L D  G E    
Sbjct: 4   LFVGLCDSGKTLLFVRLLTGQY-RDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRF 62

Query: 72  LRPLSY-RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGV----PVVLVGTKLDLRE 126
                +   A   V      +       + +++ ++   S  +     +++   K D+  
Sbjct: 63  QLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAM 122

Query: 127 DK 128
            K
Sbjct: 123 AK 124

>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 = 50.3 bits (119), Expect = 1e-08
 Identities = 22/163 (13%), Positives = 43/163 (26%), Gaps = 24/163 (14%)

Query: 7   RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ 66
           R +K + +G G  GK+  L      +      PT   +       E   V   + D  GQ
Sbjct: 1   RLVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHE---YDFEIKNVPFKMVDVGGQ 54

Query: 67  EDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS-----------PGVPV 115
               +     +      +   S           ++     +  +             V +
Sbjct: 55  RSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSI 114

Query: 116 VLVGT-------KLDLREDKHYLADHPGLVPVTTAQGEELRKQ 151
           +L          K+ +   K Y  +  G         + L + 
Sbjct: 115 ILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVEC 157

>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 = 40.5 bits (94), Expect = 3e-05
 Identities = 19/130 (14%), Positives = 38/130 (29%), Gaps = 18/130 (13%)

Query: 10  KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY 69
           + + +G G  GK+ ++            + T           +   VN  ++D  GQ D 
Sbjct: 8   RLLLLGAGESGKSTIVKQMRILHV----VLTSGIFE---TKFQVDKVNFHMFDVGGQRDE 60

Query: 70  NRLRPLSYRGADVFVLAFSLVSRASYENVLKK----------WIPELQHYSP-GVPVVLV 118
            R     +      +   +  S         +          +     +     + V+L 
Sbjct: 61  RRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILF 120

Query: 119 GTKLDLREDK 128
             K DL  +K
Sbjct: 121 LNKQDLLAEK 130

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	168
d2atxa1	185	RhoQ {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
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	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
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.97
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.96
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.96
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.96
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.95
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.93
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.92
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.92
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.91
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.91
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.91
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.9
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.9
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.89
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.89
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.88
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.87
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.86
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.86
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.85
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.85
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.84
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.83
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.81
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.81
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.81
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.79
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.78
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.77
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.77
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.75
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.75
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.66
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.65
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.64
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.62
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.57
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.53
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.51
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.5
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.42
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.25
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.16
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.06
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	98.99
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.96
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.87
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.86
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.7
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.63
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.41
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.12
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.11
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.1
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.06
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.02
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.95
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.93
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	97.9
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.88
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.86
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.86
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.79
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.75
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.74
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.73
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.72
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.72
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.7
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.7
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.65
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.63
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.6
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.58
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.57
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.55
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.51
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.51
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.51
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.5
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.46
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.39
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.39
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.37
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.36
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.31
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.3
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.3
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.3
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.29
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.28
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.28
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.26
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.22
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.21
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.21
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.19
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.16
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.14
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.14
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.13
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.11
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.11
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.1
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.06
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.05
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.05
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.04
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.03
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.03
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.0
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.99
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.98
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.97
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.94
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.93
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.9
d1okkd2	207	GTPase domain of the signal recognition particle r	96.89
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.88
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.88
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.87
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.84
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.84
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.83
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.81
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.81
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.8
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.77
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.77
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.75
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.74
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.7
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.69
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.69
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.64
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.63
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.63
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.63
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.61
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.59
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.58
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.58
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.57
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.56
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.53
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.51
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.46
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.41
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.4
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.38
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.36
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.19
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.18
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.17
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.14
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	96.1
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	96.02
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.0
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.0
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.98
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.97
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.94
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.94
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.87
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.86
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.83
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.82
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.81
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.74
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.73
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.69
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.59
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.58
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.54
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	95.51
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	95.46
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.45
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.41
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.31
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.28
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.15
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.15
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.13
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.11
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	94.95
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.84
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.79
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.78
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.63
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.62
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.58
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.5
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.39
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.29
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	94.21
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	94.11
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.09
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	93.87
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.76
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	93.01
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	92.96
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	92.93
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.84
d1zpda1	175	Pyruvate decarboxylase {Zymomonas mobilis [TaxId:	92.8
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	92.51
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	92.5
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	92.17
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	91.52
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	90.73
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	90.04
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	89.76
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	89.74
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	89.46
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	89.32
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	89.27
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	89.0
d1mlda1	144	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	88.88
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	88.85
d1t2da1	150	Lactate dehydrogenase {Malaria parasite (Plasmodiu	88.04
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	87.88
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	87.78
d1ez4a1	146	Lactate dehydrogenase {Lactobacillus pentosus [Tax	87.55
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	87.15
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.1
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	86.62
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	86.59
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	85.79
d1p3da1	96	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	85.78
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	85.76
d1a5za1	140	Lactate dehydrogenase {Thermotoga maritima [TaxId:	85.52
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	85.27
d1j8yf2	211	GTPase domain of the signal sequence recognition p	84.39
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	83.54
d1ovma1	161	Indole-3-pyruvate decarboxylase {Enterobacter cloa	82.99
d1ldna1	148	Lactate dehydrogenase {Bacillus stearothermophilus	82.81
d1pvda1	179	Pyruvate decarboxylase {Baker's yeast (Saccharomyc	82.12
d1hyha1	146	L-2-hydroxyisocapronate dehydrogenase, L-HICDH {La	82.11
d5mdha1	154	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	82.11
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	81.23
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	81.18
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	80.92
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	80.52
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	80.39
d1y7ta1	154	Malate dehydrogenase {Thermus thermophilus [TaxId:	80.14

>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=8.2e-39  Score=218.28  Aligned_cols=168  Identities=51%  Similarity=0.957  Sum_probs=148.0

Q ss_pred             CC-CCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccC
Q 030961            1 MA-SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRG   79 (168)
Q Consensus         1 m~-~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   79 (168)
                      |+ ++....+||+++|++|||||||++||+++.|...+.+|++..+.+.+.+.+..+.+.+||++|++.+..++..++++
T Consensus         1 m~~~~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~   80 (185)
T d2atxa1           1 MAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPM   80 (185)
T ss_dssp             CSSCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTT
T ss_pred             CCCCCCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceeeeeeEEEeeCCceEEeecccccccchhhhhhhhcccc
Confidence            65 45678899999999999999999999999999999999987777788889999999999999999999999999999


Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc--CCCCCcccHHHHHHHHHHhCCcEE
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYY  157 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~  157 (168)
                      +|++++|||+++++||++....|...+....++.|+++|+||+|+.........  ....+.++.++++++++.++..+|
T Consensus        81 a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~  160 (185)
T d2atxa1          81 TDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCY  160 (185)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCE
T ss_pred             cceeeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEE
Confidence            999999999999999998867888888877789999999999999875432221  234456899999999999997699


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +||||++|+||
T Consensus       161 ~E~SAk~~~gv  171 (185)
T d2atxa1         161 VECSALTQKGL  171 (185)
T ss_dssp             EECCTTTCTTH
T ss_pred             EEecCCCCcCH
Confidence            99999999986

>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=4.7e-38  Score=211.17  Aligned_cols=151  Identities=28%  Similarity=0.452  Sum_probs=139.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|++|||||||+++|+++.+...+.+|.+..+.+.+.+++..+.+.+||++|.+.+..+...+++++|++++
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYIL   81 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEE
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceecccceEEecCcEEEEeeecccccccccccccchhhhhhhhhhh
Confidence            46789999999999999999999999999888999998888888999999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||++++++|..+ ..|+..+.+..  +++|+++++||+|+...+.          ++.++++++++++++ +|+||||+
T Consensus        82 v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~----------v~~~~~~~~a~~~~~-~~~e~Sak  149 (167)
T d1xtqa1          82 VYSVTSIKSFEVI-KVIHGKLLDMVGKVQIPIMLVGNKKDLHMERV----------ISYEEGKALAESWNA-AFLESSAK  149 (167)
T ss_dssp             EEETTCHHHHHHH-HHHHHHHHHHHCSSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEECCTT
T ss_pred             hcccchhhhhhhh-hhhhhhhhhcccccccceeeeccccccccccc----------hhHHHHHHHHHHcCC-EEEEEecC
Confidence            9999999999998 88888876653  5799999999999987765          889999999999998 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       150 ~~~~v  154 (167)
T d1xtqa1         150 ENQTA  154 (167)
T ss_dssp             CHHHH
T ss_pred             CCCCH
Confidence            99885

>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=8.3e-38  Score=211.80  Aligned_cols=161  Identities=48%  Similarity=0.887  Sum_probs=143.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      ..||+++|++|||||||+++|.++.+...+.+|.+..+.+...+++..+.+.+||++|++.+..+++.++++++++++||
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~   81 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCF   81 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeeccccccccccceeeeccccCccchhcccchhhcccchhhhhhc
Confidence            57999999999999999999999999999999998877788889999999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhc--CCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLAD--HPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |+++++||+.+...|...+.+..++.|++|++||+|+...+.....  ....+.+..++++.+++.++..+|+||||++|
T Consensus        82 d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt~  161 (177)
T d1kmqa_          82 SIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTK  161 (177)
T ss_dssp             ETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTC
T ss_pred             ccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCCC
Confidence            9999999999867788888877789999999999999865432221  23345688999999999999889999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +||
T Consensus       162 ~gi  164 (177)
T d1kmqa_         162 DGV  164 (177)
T ss_dssp             TTH
T ss_pred             cCH
Confidence            986

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.1e-37  Score=208.71  Aligned_cols=149  Identities=34%  Similarity=0.565  Sum_probs=138.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      .+||+++|++|||||||++||.++.+...+.+|.+.++ ......++..+.+.+||++|++.+..+++.++++++++++|
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v   81 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLV   81 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEE
Confidence            48999999999999999999999999999999988665 56788899999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      ||++++++++.+ ..|+..+.+..++.|+++|+||+|+...+.          +..++++++++.+++ +|+++||++|.
T Consensus        82 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~iilVgnK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sak~g~  149 (164)
T d1z2aa1          82 FSTTDRESFEAI-SSWREKVVAEVGDIPTALVQNKIDLLDDSC----------IKNEEAEGLAKRLKL-RFYRTSVKEDL  149 (164)
T ss_dssp             EETTCHHHHHTH-HHHHHHHHHHHCSCCEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-EEEECBTTTTB
T ss_pred             Eeccchhhhhhc-ccccccccccCCCceEEEeeccCCccccee----------eeehhhHHHHHHcCC-EEEEeccCCCc
Confidence            999999999998 899999988778999999999999987766          888999999999998 89999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       150 ~v  151 (164)
T d1z2aa1         150 NV  151 (164)
T ss_dssp             SS
T ss_pred             CH
Confidence            97

>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=1.3e-37  Score=210.08  Aligned_cols=153  Identities=31%  Similarity=0.510  Sum_probs=139.7

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ++.+.+||+++|++|||||||+++|.++.+...+.++..+.+.+.+.+++..+.+.+||++|++.+..++..++++++++
T Consensus         2 ~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~   81 (173)
T d2fn4a1           2 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGF   81 (173)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEE
T ss_pred             CCCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEeccCCeeeeeeccccccccccccccchhhccceee
Confidence            45678999999999999999999999999988888888777778888999999999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ++|||++++.||..+ ..|+..+.+..  .+.|++||+||+|+...+.          +..++++.++..+++ +|++||
T Consensus        82 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~S  149 (173)
T d2fn4a1          82 LLVFAINDRQSFNEV-GKLFTQILRVKDRDDFPVVLVGNKADLESQRQ----------VPRSEASAFGASHHV-AYFEAS  149 (173)
T ss_dssp             EEEEETTCHHHHHHH-HHHHHHHHHHHTSSCCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECB
T ss_pred             eeecccccccccchh-hhhhHHHHHHhccCCCceEEEEEeechhhccc----------cchhhhhHHHHhcCC-EEEEEe
Confidence            999999999999998 78888876643  6889999999999987765          788999999999998 899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|+||
T Consensus       150 ak~g~gv  156 (173)
T d2fn4a1         150 AKLRLNV  156 (173)
T ss_dssp             TTTTBSH
T ss_pred             CCCCcCH
Confidence            9999986

>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=8e-38  Score=210.28  Aligned_cols=150  Identities=31%  Similarity=0.554  Sum_probs=136.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|++|||||||+++|++++|...+.+|.+..+.+.+.+++..+.+.+||++|++.+..+++.++++++++++|
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv   82 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCV   82 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCccccccccccccccccccccccccccccchhhhhhhcccccceeEEE
Confidence            57899999999999999999999999999999999988888888999999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||++++.++..+ ..|++.+.+..  ++.|+++|+||+|+...+.          +..++++.++..+++ +|+|+||++
T Consensus        83 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sak~  150 (168)
T d1u8za_          83 FSITEMESFAAT-ADFREQILRVKEDENVPFLLVGNKSDLEDKRQ----------VSVEEAKNRADQWNV-NYVETSAKT  150 (168)
T ss_dssp             EETTCHHHHHHH-HHHHHHHHHHHCCTTSCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTC-EEEECCTTT
T ss_pred             eeccchhhhhhH-HHHHHHHHHhhCCCCCcEEEEecccccccccc----------ccHHHHHHHHHHcCC-eEEEEcCCC
Confidence            999999999998 88998887754  6789999999999987665          889999999999998 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       151 g~gv  154 (168)
T d1u8za_         151 RANV  154 (168)
T ss_dssp             CTTH
T ss_pred             CcCH
Confidence            9986

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.2e-37  Score=208.11  Aligned_cols=148  Identities=20%  Similarity=0.326  Sum_probs=120.7

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      ++||+++|++|||||||+++|.+..+. .+.++....+.+.+.+++..+.+.+||++|++.+..++..+++++|++++||
T Consensus         1 ifKi~lvG~~~vGKTsLi~~~~~~~~~-~~~~~~~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~   79 (168)
T d2gjsa1           1 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVY   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHTC----------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEE
T ss_pred             CeEEEEECCCCcCHHHHHHHHhCCccC-CcCCeeeeeecceeeccccccceeeeecccccccceecccchhhhhhhceec
Confidence            489999999999999999999987653 3456666667778889999999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |++++.+++.+ ..|+..+....  .++|+++|+||+|+...+.          +..++++.++..+++ +|+||||++|
T Consensus        80 d~t~~~s~~~~-~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sak~~  147 (168)
T d2gjsa1          80 SVTDKGSFEKA-SELRVQLRRARQTDDVPIILVGNKSDLVRSRE----------VSVDEGRACAVVFDC-KFIETSAALH  147 (168)
T ss_dssp             ETTCHHHHHHH-HHHHHHHHHHCC--CCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTS-EEEECBTTTT
T ss_pred             ccccccccccc-ccccchhhcccccccceEEEeecccchhhhcc----------hhHHHHHHHHHhcCC-EEEEEeCCCC
Confidence            99999999998 78988887765  5689999999999987765          889999999999998 9999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .||
T Consensus       148 ~~v  150 (168)
T d2gjsa1         148 HNV  150 (168)
T ss_dssp             BSH
T ss_pred             cCH
Confidence            985

>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=2.5e-37  Score=208.05  Aligned_cols=150  Identities=32%  Similarity=0.510  Sum_probs=138.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|++++|||||+++|.++.+...+.++.+..+.+.+..++..+.+.+||++|++.+..+++.++++++++++|
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv   82 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIV   82 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeeccccccccccccccccccccccccccccchhhhhhhccEEEEe
Confidence            57999999999999999999999999998999999888888888999999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||+++++||..+ +.|+..+.+..  .+.|+++++||+|+...+.          ++.++++++++++++ +|+|+||++
T Consensus        83 ~d~~d~~Sf~~~-~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~----------v~~e~~~~~~~~~~~-~~~e~Sak~  150 (169)
T d1x1ra1          83 YSVTDKASFEHV-DRFHQLILRVKDRESFPMILVANKVDLMHLRK----------VTRDQGKEMATKYNI-PYIETSAKD  150 (169)
T ss_dssp             EETTCHHHHHTH-HHHHHHHHHHHTSSCCCEEEEEECTTCSTTCC----------SCHHHHHHHHHHHTC-CEEEEBCSS
T ss_pred             cccccchhhhcc-chhhHHHHhhccccCccEEEEecccchhhhce----------eehhhHHHHHHHcCC-EEEEEcCCC
Confidence            999999999998 88988877664  5799999999999988766          889999999999998 899999998


Q ss_pred             cc-CC
Q 030961          165 QQ-VC  168 (168)
Q Consensus       165 ~~-~i  168 (168)
                      |+ ||
T Consensus       151 ~~~nV  155 (169)
T d1x1ra1         151 PPLNV  155 (169)
T ss_dssp             SCBSH
T ss_pred             CCcCH
Confidence            75 75

>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=4.8e-37  Score=206.21  Aligned_cols=150  Identities=33%  Similarity=0.614  Sum_probs=129.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      +.+||+++|++|||||||++||.++.+...+.++.+..+ .+....++..+.+.+||++|++.+..+++.++++++++++
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   81 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAIL   81 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEE
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEE
Confidence            578999999999999999999999999999999888776 4577788899999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |||+++++||+.+ ..|+..+.... ...|++|++||+|+...+.          +..++++++++++++ +|+||||++
T Consensus        82 v~d~~~~~Sf~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~----------v~~~e~~~~a~~~~~-~~~e~Sak~  149 (167)
T d1z08a1          82 VYDITDEDSFQKV-KNWVKELRKMLGNEICLCIVGNKIDLEKERH----------VSIQEAESYAESVGA-KHYHTSAKQ  149 (167)
T ss_dssp             EEETTCHHHHHHH-HHHHHHHHHHHGGGSEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEEEBTTT
T ss_pred             EEeCCchhHHHhh-hhhhhhcccccccccceeeeccccccccccc----------cchHHHHHHHHHcCC-eEEEEecCC
Confidence            9999999999998 77877766554 6789999999999988766          889999999999998 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       150 ~~~v  153 (167)
T d1z08a1         150 NKGI  153 (167)
T ss_dssp             TBSH
T ss_pred             CcCH
Confidence            9986

>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=1.7e-37  Score=209.11  Aligned_cols=149  Identities=26%  Similarity=0.481  Sum_probs=135.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .+||+++|.+|||||||+++|+++.+...+.+|.+..+.....+++..+.+.+||++|++.+...+..++++++++++||
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~   81 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVY   81 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeeccccceeeccccceeccccccccccccccccccccceeEEEEEe
Confidence            58999999999999999999999999989999999888888889999999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC---CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           88 SLVSRASYENVLKKWIPELQHYS---PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |+++++++..+ ..|...+.+..   .++|+++||||+|+...+.          +..++++++++.+++ +|+||||++
T Consensus        82 d~~~~~s~~~~-~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~----------v~~~e~~~~~~~~~~-~~~e~Sak~  149 (171)
T d2erxa1          82 SITSRQSLEEL-KPIYEQICEIKGDVESIPIMLVGNKCDESPSRE----------VQSSEAEALARTWKC-AFMETSAKL  149 (171)
T ss_dssp             ETTCHHHHHTT-HHHHHHHHHHHC---CCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTC-EEEECBTTT
T ss_pred             ecccccchhcc-cchhhhhhhhhccCCCCcEEEEeeccccccccc----------ccHHHHHHHHHHcCC-eEEEEcCCC
Confidence            99999999998 77777665532   6789999999999987765          888999999999998 999999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+||
T Consensus       150 ~~~v  153 (171)
T d2erxa1         150 NHNV  153 (171)
T ss_dssp             TBSH
T ss_pred             CcCH
Confidence            9986

>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=1.2e-36  Score=208.37  Aligned_cols=162  Identities=53%  Similarity=0.958  Sum_probs=143.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|++|||||||++||+++.|...+.+|.+..+.....+++..+.+.+||++|++.+..+++.+++++|++++|
T Consensus         2 ~~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   81 (191)
T d2ngra_           2 QTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   81 (191)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             CceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecc
Confidence            36899999999999999999999999999999999988888888999999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||+++++||+.+...|...+....++.|+++++||+|+........  .......+..+++++++..++..+|+||||++
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            9999999999996667777777778999999999999986643222  13345568999999999998766899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       162 ~~~V  165 (191)
T d2ngra_         162 QKGL  165 (191)
T ss_dssp             CTTH
T ss_pred             CcCH
Confidence            9986

>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=1.2e-36  Score=207.13  Aligned_cols=163  Identities=61%  Similarity=1.042  Sum_probs=144.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|++|||||||+++|+++.|...+.+|++..+.+.+..++..+.+.+||++|++.+..+++.++++++++++
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   82 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLI   82 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEE
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceeeceeeeeeccCcceEEEeecccccccchhhhhhcccccceeee
Confidence            46799999999999999999999999999999999988778888899999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||+++++||+.+...|...+.+...+.|++||+||+|+...+....  ...........++..+++.++..+|+||||+
T Consensus        83 v~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~SAk  162 (183)
T d1mh1a_          83 CFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL  162 (183)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTT
T ss_pred             eeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcCCC
Confidence            99999999999986678888887778899999999999976644222  1234556778899999999997799999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       163 ~~~~V  167 (183)
T d1mh1a_         163 TQRGL  167 (183)
T ss_dssp             TCTTH
T ss_pred             CCcCH
Confidence            99986

>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=9.7e-37  Score=205.44  Aligned_cols=151  Identities=32%  Similarity=0.618  Sum_probs=136.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +..+||+++|++|||||||+++|.++.+...+.++.+.++ .+.+.+++..+++.+|||+|++.+..+++.+++++++++
T Consensus         3 ~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i   82 (171)
T d2ew1a1           3 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALI   82 (171)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEE
Confidence            3578999999999999999999999999888888887666 567888999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||.+++.++... ..|...+.+.. ...|+++++||+|+...+.          +..++++.+++.+++ +|++|||+
T Consensus        83 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~----------v~~~~~~~~~~~~~~-~~~~~SAk  150 (171)
T d2ew1a1          83 LTYDITCEESFRCL-PEWLREIEQYASNKVITVLVGNKIDLAERRE----------VSQQRAEEFSEAQDM-YYLETSAK  150 (171)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-CEEECCTT
T ss_pred             Eeeecccchhhhhh-hhhhhhhcccccccccEEEEEeecccccccc----------hhhhHHHHHHHhCCC-EEEEEccC
Confidence            99999999999998 67777776655 6789999999999987665          888999999999998 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       151 tg~gV  155 (171)
T d2ew1a1         151 ESDNV  155 (171)
T ss_dssp             TCTTH
T ss_pred             CCCCH
Confidence            99986

>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=3.7e-36  Score=201.84  Aligned_cols=150  Identities=26%  Similarity=0.536  Sum_probs=136.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      +.+||+++|.+|||||||++||.++++...+.+|....+. .....++....+.+||++|++.+..++..++++++++++
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            5899999999999999999999999999988888877764 466778888999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |||++++++|..+ +.|...+.+.. ++.|+++|+||+|+...+.          +..+++++++..+++ +|+||||++
T Consensus        83 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~SAk~  150 (167)
T d1z0ja1          83 VYDITKEETFSTL-KNWVRELRQHGPPSIVVAIAGNKCDLTDVRE----------VMERDAKDYADSIHA-IFVETSAKN  150 (167)
T ss_dssp             EEETTCHHHHHHH-HHHHHHHHHHSCTTSEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECBTTT
T ss_pred             EeeechhhhhhhH-HHhhhhhhhccCCcceEEEecccchhccccc----------hhHHHHHHHHHHcCC-EEEEEecCC
Confidence            9999999999998 78887777666 7899999999999987766          889999999999998 999999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+||
T Consensus       151 ~~nV  154 (167)
T d1z0ja1         151 AINI  154 (167)
T ss_dssp             TBSH
T ss_pred             CCCH
Confidence            9986

>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=9.3e-37  Score=205.02  Aligned_cols=147  Identities=29%  Similarity=0.487  Sum_probs=131.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .+||+++|++|||||||++||+++.|...+.||++..+......++..+.+.+||++|++.+. ....++++++++++||
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv~   80 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLVY   80 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccccccccccccceEEEEeecccccccc-cchhhhcccccceeec
Confidence            589999999999999999999999999999999998888888889999999999999998764 4556788999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |+++++++..+ ..|........  ++.|+++|+||+|+...+.          ++.+++++++.++++ +|+||||++|
T Consensus        81 d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~----------V~~~e~~~~a~~~~~-~~~e~Saktg  148 (168)
T d2atva1          81 DITDRGSFEEV-LPLKNILDEIKKPKNVTLILVGNKADLDHSRQ----------VSTEEGEKLATELAC-AFYECSACTG  148 (168)
T ss_dssp             ETTCHHHHHTH-HHHHHHHHHHHTTSCCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTS-EEEECCTTTC
T ss_pred             ccCCccchhhh-hhhcccccccccccCcceeeeccchhhhhhcc----------CcHHHHHHHHHHhCC-eEEEEccccC
Confidence            99999999998 67766554432  6899999999999987765          899999999999998 9999999999


Q ss_pred             cC
Q 030961          166 QV  167 (168)
Q Consensus       166 ~~  167 (168)
                      +|
T Consensus       149 ~g  150 (168)
T d2atva1         149 EG  150 (168)
T ss_dssp             TT
T ss_pred             Cc
Confidence            84

>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=7.7e-37  Score=205.18  Aligned_cols=150  Identities=29%  Similarity=0.574  Sum_probs=137.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|++|||||||++||+++.+...+.++.+..+.....+++..+.+.+||++|++.+..+...++++++++++|
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv   81 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILV   81 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeeeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceeee
Confidence            57999999999999999999999999999989999887788888999999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||++++.++..+ ..|...+....  ++.|++|||||+|+...+.          +..++++.++..+++ +|+||||++
T Consensus        82 ~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sak~  149 (167)
T d1kaoa_          82 YSLVNQQSFQDI-KPMRDQIIRVKRYEKVPVILVGNKVDLESERE----------VSSSEGRALAEEWGC-PFMETSAKS  149 (167)
T ss_dssp             EETTCHHHHHHH-HHHHHHHHHHTTTSCCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTS-CEEEECTTC
T ss_pred             eeecchhhhhhh-hchhhhhhhhccCCCCCEEEEEEccchhhccc----------chHHHHHHHHHHcCC-eEEEECCCC
Confidence            999999999998 78887776644  6799999999999987766          788999999999998 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+||
T Consensus       150 g~~i  153 (167)
T d1kaoa_         150 KTMV  153 (167)
T ss_dssp             HHHH
T ss_pred             CcCH
Confidence            9885

>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=2.5e-36  Score=203.12  Aligned_cols=151  Identities=30%  Similarity=0.619  Sum_probs=135.2

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ++.+||+++|++|||||||+++|.++.+...+.++.+.+. .+.+...+..+.+.+|||||++.+..+++.+++++|+++
T Consensus         3 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~i   82 (169)
T d3raba_           3 DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFI   82 (169)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEE
T ss_pred             CeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            3578999999999999999999999999888888887665 557778888999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||+++++++... ..|...+.+.. ++.|+++++||+|+...+.          +..++++.+++..++ +|++|||+
T Consensus        83 lv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sak  150 (169)
T d3raba_          83 LMYDITNEESFNAV-QDWSTQIKTYSWDNAQVLLVGNKCDMEDERV----------VSSERGRQLADHLGF-EFFEASAK  150 (169)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHCCSCCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEECBTT
T ss_pred             EEEECccchhhhhh-hhhhhhhhcccCCcceEEEEEeecccccccc----------cchhhhHHHHHHcCC-EEEEecCC
Confidence            99999999999998 67777666655 6789999999999987765          888999999999998 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       151 ~g~gv  155 (169)
T d3raba_         151 DNINV  155 (169)
T ss_dssp             TTBSH
T ss_pred             CCcCH
Confidence            99986

>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=1e-36  Score=204.58  Aligned_cols=151  Identities=27%  Similarity=0.511  Sum_probs=137.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|++|||||||++||..+.|...+.++.+..+...+.+++..+.+.+||++|++.+..+++.++++++++++|
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv   81 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALV   81 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccccceeEEeeeeEEEeccccccCcccccccccccccccceeEEe
Confidence            47899999999999999999999999999999999988888888999999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||+++++||+.+ ..|+..+.+..  ++.|+++|+||+|+...+.          +..+++..++.+++..+|+||||++
T Consensus        82 ~d~~~~~sf~~~-~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~e~Sak~  150 (167)
T d1c1ya_          82 YSITAQSTFNDL-QDLREQILRVKDTEDVPMILVGNKCDLEDERV----------VGKEQGQNLARQWCNCAFLESSAKS  150 (167)
T ss_dssp             EETTCHHHHHTH-HHHHHHHHHHHCCSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTSCEEEECBTTT
T ss_pred             eeccchhhhHhH-HHHHHHHHHhcCCCCCeEEEEEEecCcccccc----------cchhHHHHHHHHhCCCEEEEEcCCC
Confidence            999999999998 78888776643  6799999999999987765          7888999999886555999999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+||
T Consensus       151 g~gv  154 (167)
T d1c1ya_         151 KINV  154 (167)
T ss_dssp             TBSH
T ss_pred             CcCH
Confidence            9986

>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=2.9e-36  Score=202.21  Aligned_cols=151  Identities=29%  Similarity=0.601  Sum_probs=136.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ++.+||+++|++|+|||||+++|.++.+...+.++.+..+ .....+++..+.+.+||++|++.+..++..+++++|+++
T Consensus         2 ~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~i   81 (166)
T d1z0fa1           2 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL   81 (166)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEE
Confidence            3578999999999999999999999999888888777666 557788999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||+++++|+..+ ..|...+.+.. +..|+++++||+|+.....          +..++++.+++.+++ +|++|||+
T Consensus        82 lv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sak  149 (166)
T d1z0fa1          82 MVYDITRRSTYNHL-SSWLTDARNLTNPNTVIILIGNKADLEAQRD----------VTYEEAKQFAEENGL-LFLEASAK  149 (166)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECCTT
T ss_pred             EEeccCchHHHHHH-HHHHHHHHhhccccceEEEEcccccchhhcc----------cHHHHHHHHHHHcCC-EEEEEeCC
Confidence            99999999999998 77888887766 6889999999999987765          788899999999998 99999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       150 tg~~v  154 (166)
T d1z0fa1         150 TGENV  154 (166)
T ss_dssp             TCTTH
T ss_pred             CCCCH
Confidence            99986

>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=9.1e-36  Score=202.09  Aligned_cols=160  Identities=39%  Similarity=0.733  Sum_probs=140.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .+||+++|.+|||||||++||+.+.|...+.+|....+.+...+++..+.+.+||++|++.+..+++.++++++++++||
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~   81 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICF   81 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeecccccccccceEEeeccccccccccccccccchhhhhhhhheee
Confidence            57999999999999999999999999999999988877888888999999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhh--cCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLA--DHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |+++++||+.+...|...+....++.|+++||||+|+........  ......+++.+++..++++.+..+|+||||++|
T Consensus        82 d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~~  161 (179)
T d1m7ba_          82 DISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQS  161 (179)
T ss_dssp             ETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTB
T ss_pred             ecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCCC
Confidence            999999999986677777777778999999999999976533221  123345688999999999998779999999999


Q ss_pred             cC
Q 030961          166 QV  167 (168)
Q Consensus       166 ~~  167 (168)
                      +|
T Consensus       162 ~n  163 (179)
T d1m7ba_         162 EN  163 (179)
T ss_dssp             HH
T ss_pred             Cc
Confidence            74

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.7e-36  Score=203.25  Aligned_cols=149  Identities=32%  Similarity=0.586  Sum_probs=133.0

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      .+||+++|++|||||||+++|.++.+...+.++.+..+.+.+.+++..+.+.+||++|.+.+....+.+++.++++++||
T Consensus         5 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~   84 (171)
T d2erya1           5 KYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVF   84 (171)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCEEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccccceeeeeeecccccccccccccccccccccccccccccceEEEee
Confidence            48999999999999999999999999888899988888888899999999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |.+++.|+..+ ..|...+.+..  .+.|+++|+||+|+...+.          +..++++++++.+++ +|++|||++|
T Consensus        85 d~~~~~s~~~~-~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sak~~  152 (171)
T d2erya1          85 SVTDRGSFEEI-YKFQRQILRVKDRDEFPMILIGNKADLDHQRQ----------VTQEEGQQLARQLKV-TYMEASAKIR  152 (171)
T ss_dssp             ETTCHHHHHTH-HHHHHHHHHHHTSSCCSEEEEEECTTCTTSCS----------SCHHHHHHHHHHTTC-EEEECBTTTT
T ss_pred             ccccccchhhH-HHHhHHHHhhcccCCCCEEEEEeccchhhhcc----------chHHHHHHHHHHcCC-EEEEEcCCCC
Confidence            99999999998 77887666543  5789999999999987766          889999999999998 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .||
T Consensus       153 ~~i  155 (171)
T d2erya1         153 MNV  155 (171)
T ss_dssp             BSH
T ss_pred             cCH
Confidence            986

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.9e-36  Score=200.65  Aligned_cols=148  Identities=31%  Similarity=0.551  Sum_probs=133.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEE
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   87 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   87 (168)
                      +||+++|.+|||||||++||.++++...+.++.+... ......++..+.+.+||++|++.+...++.++++++++++||
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~   80 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVY   80 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEee
Confidence            6999999999999999999999999888888887665 456677888999999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCcc
Q 030961           88 SLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQ  166 (168)
Q Consensus        88 d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (168)
                      |++++.++..+ ..|+..+.+.. ++.|+++|+||+|+...+.          +..+++..+++.+++ +|+||||++|+
T Consensus        81 d~~~~~s~~~i-~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~SAk~g~  148 (164)
T d1yzqa1          81 DITNVNSFQQT-TKWIDDVRTERGSDVIIMLVGNKTDLADKRQ----------VSIEEGERKAKELNV-MFIETSAKAGY  148 (164)
T ss_dssp             ETTCHHHHHTH-HHHHHHHHHHHTTSSEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCT
T ss_pred             ccccccchhhh-HhhHHHHHHhcCCCceEEEEecccchhhhhh----------hhHHHHHHHHHHcCC-EEEEecCCCCc
Confidence            99999999998 77777777655 7899999999999987665          788999999999998 89999999999


Q ss_pred             CC
Q 030961          167 VC  168 (168)
Q Consensus       167 ~i  168 (168)
                      ||
T Consensus       149 ~v  150 (164)
T d1yzqa1         149 NV  150 (164)
T ss_dssp             TH
T ss_pred             CH
Confidence            86

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.1e-37  Score=207.77  Aligned_cols=148  Identities=28%  Similarity=0.488  Sum_probs=127.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      -++||+++|++|||||||+++|.++.+...+.+|++.++ .+.+..++..+.+.+||++|++.+..+++.++++++++++
T Consensus         2 ~~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1i2ma_           2 VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAII   81 (170)
T ss_dssp             EEEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhh
Confidence            478999999999999999999999999888888887666 5677788999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      |||+++++||+.+ ..|+..+.+..+++|+++|+||+|+...+.            .+++..++...++ +|+|+||++|
T Consensus        82 v~d~~~~~Sf~~~-~~~~~~~~~~~~~~piilvgnK~Dl~~~~~------------~~~~~~~~~~~~~-~~~e~Sak~~  147 (170)
T d1i2ma_          82 MFDVTSRVTYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDRKV------------KAKSIVFHRKKNL-QYYDISAKSN  147 (170)
T ss_dssp             EEETTSGGGGTTH-HHHHHHHHHHHCSCCEEEEEECCCCSCSCC------------TTTSHHHHSSCSS-EEEEEBTTTT
T ss_pred             ccccccccccchh-HHHHHHHhhccCCCceeeecchhhhhhhhh------------hhHHHHHHHHcCC-EEEEEeCCCC
Confidence            9999999999998 789888887778999999999999976642            2345678888888 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +||
T Consensus       148 ~~v  150 (170)
T d1i2ma_         148 YNF  150 (170)
T ss_dssp             BTT
T ss_pred             CCH
Confidence            997

>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=2.1e-35  Score=198.67  Aligned_cols=152  Identities=30%  Similarity=0.546  Sum_probs=137.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      +...+||+++|.+|||||||+++|.++.+...+.++.+..+ .......+..+.+.+||++|++.+..+++.++++++++
T Consensus         3 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~   82 (170)
T d1r2qa_           3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAA   82 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEE
T ss_pred             ceeEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceE
Confidence            45678999999999999999999999999888888888776 45677788899999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ++|||.++++++..+ ..|...+.+.. ++.|+++++||+|+...+.          ++.++++.++...++ +|+|+||
T Consensus        83 ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~----------v~~e~~~~~~~~~~~-~~~e~SA  150 (170)
T d1r2qa_          83 IVVYDITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLANKRA----------VDFQEAQSYADDNSL-LFMETSA  150 (170)
T ss_dssp             EEEEETTCHHHHHHH-HHHHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCT
T ss_pred             EEEeccchhhHHHHH-HHHhhhhhhccCCCceEEeeccccccccccc----------ccHHHHHHHHHhcCC-EEEEeeC
Confidence            999999999999998 67777776655 7899999999999987766          889999999999998 8999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|+||
T Consensus       151 k~g~~V  156 (170)
T d1r2qa_         151 KTSMNV  156 (170)
T ss_dssp             TTCTTH
T ss_pred             CCCCCH
Confidence            999986

>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=2.3e-35  Score=199.02  Aligned_cols=150  Identities=29%  Similarity=0.581  Sum_probs=130.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      +.+||+|+|++|||||||+++|.++++...+.++..... .......+..+.+.+||++|++.+..+++.+++.+|++++
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALL   81 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEE
Confidence            568999999999999999999999999888887776665 4566678889999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      |||++++++|..+ ..|+..+.+.. +++|++||+||+|+...+.          +..+++..+++.+++ +|+++||++
T Consensus        82 v~d~~~~~sf~~~-~~~~~~~~~~~~~~~piilv~nK~D~~~~~~----------~~~~~~~~~a~~~~~-~~~e~Sa~t  149 (173)
T d2a5ja1          82 VYDITRRETFNHL-TSWLEDARQHSSSNMVIMLIGNKSDLESRRD----------VKREEGEAFAREHGL-IFMETSAKT  149 (173)
T ss_dssp             EEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEEECTTT
T ss_pred             EEeecChHHHHhH-HHHHHHHHHhCCCCCeEEEEecCCchhhhhh----------hHHHHHHHHHHHcCC-EEEEecCCC
Confidence            9999999999998 77777777765 6899999999999987765          788999999999998 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |.||
T Consensus       150 g~~V  153 (173)
T d2a5ja1         150 ACNV  153 (173)
T ss_dssp             CTTH
T ss_pred             CCCH
Confidence            9986

>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=6.8e-35  Score=200.08  Aligned_cols=153  Identities=29%  Similarity=0.589  Sum_probs=138.0

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      .-+..+||+|+|++|||||||+++|.++.+...+.++.+..+ .+.+.+++..+.+.+|||+|++.+..+++.+++++++
T Consensus         2 ~~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~   81 (194)
T d2bcgy1           2 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHG   81 (194)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCE
Confidence            346789999999999999999999999999998899888776 4578889999999999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      +++|||+++++++..+ ..|...+.+.. .+.|+++++||+|+.....          +..+++..++...++ +|+++|
T Consensus        82 ~i~v~d~t~~~s~~~~-~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~e~S  149 (194)
T d2bcgy1          82 IIIVYDVTDQESFNGV-KMWLQEIDRYATSTVLKLLVGNKCDLKDKRV----------VEYDVAKEFADANKM-PFLETS  149 (194)
T ss_dssp             EEEEEETTCHHHHHHH-HHHHHHHHHHSCTTCEEEEEEECTTCTTTCC----------SCHHHHHHHHHHTTC-CEEECC
T ss_pred             EEEEEeCcchhhhhhH-hhhhhhhhhcccCCceEEEEEeccccccccc----------hhHHHHhhhhhccCc-ceEEEe
Confidence            9999999999999998 66766666544 7899999999999987766          888999999999998 899999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|.||
T Consensus       150 Ak~g~gi  156 (194)
T d2bcgy1         150 ALDSTNV  156 (194)
T ss_dssp             TTTCTTH
T ss_pred             cCcCccH
Confidence            9999985

>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=6.2e-35  Score=197.24  Aligned_cols=151  Identities=32%  Similarity=0.567  Sum_probs=132.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ++.+||+++|++|||||||+++|.++.+...+.++.+... ...+.+++..+.+.+||++|++.+..++..+++++++++
T Consensus         2 ~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i   81 (175)
T d2f9la1           2 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   81 (175)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEE
Confidence            3578999999999999999999999998888777776554 557788999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||.++++|+..+ ..|+..+.+.. +++|+++|+||+|+.+.+.          ...+.+..+....+. +|+++||+
T Consensus        82 ~v~d~~~~~S~~~~-~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sa~  149 (175)
T d2f9la1          82 LVYDIAKHLTYENV-ERWLKELRDHADSNIVIMLVGNKSDLRHLRA----------VPTDEARAFAEKNNL-SFIETSAL  149 (175)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECCTT
T ss_pred             EEEECCCcccchhH-HHHHHHHHHhcCCCCcEEEEEeeeccccccc----------chHHHHHHhhcccCc-eEEEEecC
Confidence            99999999999998 78888887776 6799999999999987655          667778888888887 99999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       150 ~g~~i  154 (175)
T d2f9la1         150 DSTNV  154 (175)
T ss_dssp             TCTTH
T ss_pred             CCcCH
Confidence            99985

>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=2.1e-35  Score=197.92  Aligned_cols=149  Identities=36%  Similarity=0.578  Sum_probs=137.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|+++||||||+++|+++.+...+.++.+..+...+...+..+.+.+||++|++.+...++.+++.++++++|
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv   81 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeeccceeeeceeeeeeeeeccCccccccchhhhhhccccccee
Confidence            46999999999999999999999999999889999988888888899999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||++++.+++.+ ..|+..+.+..  +++|+++++||+|+....           +..++++.++..+++ +|+++||++
T Consensus        82 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~-~~~e~Sak~  148 (166)
T d1ctqa_          82 FAINNTKSFEDI-HQYREQIKRVKDSDDVPMVLVGNKCDLAART-----------VESRQAQDLARSYGI-PYIETSAKT  148 (166)
T ss_dssp             EETTCHHHHHTH-HHHHHHHHHHHTCSSCCEEEEEECTTCSCCC-----------SCHHHHHHHHHHHTC-CEEECCTTT
T ss_pred             ecccccccHHHH-HHHHHHHHHhcCCCCCeEEEEeccccccccc-----------ccHHHHHHHHHHhCC-eEEEEcCCC
Confidence            999999999998 89999888765  578999999999986543           678899999999998 899999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+||
T Consensus       149 g~gi  152 (166)
T d1ctqa_         149 RQGV  152 (166)
T ss_dssp             CTTH
T ss_pred             CcCH
Confidence            9986

>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=6e-35  Score=197.07  Aligned_cols=151  Identities=28%  Similarity=0.525  Sum_probs=135.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      +..+||+++|++|||||||+++|.++.+...+.++.+... ...+..++....+.+||++|++.+..+++.+++.+++++
T Consensus         3 ~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i   82 (174)
T d2bmea1           3 DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGAL   82 (174)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEE
Confidence            3568999999999999999999999999888888887775 456777889999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||.++++++..+ ..|...+.+.. ++.|+++++||+|+.....          ...+.+..++..+++ +|+++||+
T Consensus        83 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sak  150 (174)
T d2bmea1          83 LVYDITSRETYNAL-TNWLTDARMLASQNIVIILCGNKKDLDADRE----------VTFLEASRFAQENEL-MFLETSAL  150 (174)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCTT
T ss_pred             EEEecccchhHHHH-hhhhcccccccCCceEEEEEEecccccchhc----------hhhhHHHHHHHhCCC-EEEEeeCC
Confidence            99999999999998 77888777765 6899999999999977665          788889999999998 99999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       151 ~~~gi  155 (174)
T d2bmea1         151 TGENV  155 (174)
T ss_dssp             TCTTH
T ss_pred             CCcCH
Confidence            99985

>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=2.9e-35  Score=198.57  Aligned_cols=151  Identities=28%  Similarity=0.623  Sum_probs=107.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ++.+||+++|.++||||||+++|.++.+...+.++.+.++ .+.+.+++..+.+.+||+||++.+..+++.+++++++++
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i   83 (173)
T d2fu5c1           4 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIM   83 (173)
T ss_dssp             SEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEE
Confidence            5679999999999999999999999988888788887666 567888999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||++++.|+..+ ..|...+.... .+.|+++++||.|+...+.          ...+++..++...++ +|++|||+
T Consensus        84 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sa~  151 (173)
T d2fu5c1          84 LVYDITNEKSFDNI-RNWIRNIEEHASADVEKMILGNKCDVNDKRQ----------VSKERGEKLALDYGI-KFMETSAK  151 (173)
T ss_dssp             EEEETTCHHHHHHH-HHHHHHHHHHSCTTCEEEEEEEC--CCSCCC----------SCHHHHHHHHHHHTC-EEEECCC-
T ss_pred             EEEECCChhhHHHH-HHHHHHhhhhccCCceEEEEEecccchhhcc----------cHHHHHHHHHHhcCC-EEEEEeCC
Confidence            99999999999998 77777776555 7899999999999988765          777889999999998 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       152 ~g~gv  156 (173)
T d2fu5c1         152 ANINV  156 (173)
T ss_dssp             --CCH
T ss_pred             CCCCH
Confidence            99986

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.4e-34  Score=194.56  Aligned_cols=152  Identities=31%  Similarity=0.579  Sum_probs=135.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      .+||+++|++|||||||+++|.++.+...+.++.+..+ .+.+..++..+.+.+||++|++.+..+++.++++++++++|
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVV   82 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEE
Confidence            68999999999999999999999999999899988776 56788899999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      ||.+++.++..+ ..|...+.... ...|+++++||+|+.....       .+.+..++++++++..++ +|+|+||++|
T Consensus        83 ~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~-------~~~v~~~~~~~~~~~~~~-~~~e~Sak~g  153 (170)
T d1ek0a_          83 YDVTKPQSFIKA-RHWVKELHEQASKDIIIALVGNKIDMLQEGG-------ERKVAREEGEKLAEEKGL-LFFETSAKTG  153 (170)
T ss_dssp             EETTCHHHHHHH-HHHHHHHHHHSCTTCEEEEEEECGGGGGSSC-------CCCSCHHHHHHHHHHHTC-EEEECCTTTC
T ss_pred             EeCCcccchhhh-hhhhhhhccccccccceeeeecccccccccc-------hhhhhHHHHHHHHHHcCC-EEEEecCCCC
Confidence            999999999998 77777666655 6789999999999865422       334888999999999999 9999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      .||
T Consensus       154 ~gV  156 (170)
T d1ek0a_         154 ENV  156 (170)
T ss_dssp             TTH
T ss_pred             cCH
Confidence            986

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.5e-35  Score=200.22  Aligned_cols=151  Identities=40%  Similarity=0.617  Sum_probs=131.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEEC----------CeEEEEEEEeCCCCcccccccc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAE----------GTTVNLGLWDTAGQEDYNRLRP   74 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~----------~~~~~~~i~D~~g~~~~~~~~~   74 (168)
                      +..+||+++|++|||||||+++|+++.+...+.++.+..+ .+.+.++          ...+.+.+||++|++.+..+++
T Consensus         3 d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~   82 (186)
T d2f7sa1           3 DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTT   82 (186)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHH
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHH
Confidence            3568999999999999999999999999888777776665 3344433          2357899999999999999999


Q ss_pred             ccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh
Q 030961           75 LSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI  152 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (168)
                      .++++++++++|||++++.+++.+ ..|+..+.+..  +..|++||+||+|+...+.          +..++++++++.+
T Consensus        83 ~~~~~~~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~----------v~~~e~~~~~~~~  151 (186)
T d2f7sa1          83 AFFRDAMGFLLMFDLTSQQSFLNV-RNWMSQLQANAYCENPDIVLIGNKADLPDQRE----------VNERQARELADKY  151 (186)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHHH-HHHHHTCCCCCTTTCCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHT
T ss_pred             HHHhcCCEEEEEEeccccccceee-eeccchhhhhccCCCceEEEEeeeccchhhhc----------chHHHHHHHHHHc
Confidence            999999999999999999999998 78888877654  5789999999999987766          8899999999999


Q ss_pred             CCcEEEEecccCccCC
Q 030961          153 GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ~~~~~~~~Sa~~~~~i  168 (168)
                      ++ +|+++||++|+||
T Consensus       152 ~~-~~~e~Sak~~~~i  166 (186)
T d2f7sa1         152 GI-PYFETSAATGQNV  166 (186)
T ss_dssp             TC-CEEEEBTTTTBTH
T ss_pred             CC-EEEEEeCCCCCCH
Confidence            98 8999999999985

>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=1.1e-33  Score=190.17  Aligned_cols=150  Identities=33%  Similarity=0.647  Sum_probs=122.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCC-CCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTD-YIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~-~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+||+++|+++||||||+++|+++.+... +.++.+.++ ...+..++..+++.+|||+|++.+..+++.+++++|+++
T Consensus         5 ~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i   84 (170)
T d2g6ba1           5 VAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALL   84 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCceeE
Confidence            468999999999999999999999887544 345555555 456788999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|||.++++++..+ ..|...+.+.. ...|+++++||+|+.....          +..+++..++..+++ +|+++||+
T Consensus        85 ~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sak  152 (170)
T d2g6ba1          85 LLYDVTNKASFDNI-QAWLTEIHEYAQHDVALMLLGNKVDSAHERV----------VKREDGEKLAKEYGL-PFMETSAK  152 (170)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECCSTTSCCC----------SCHHHHHHHHHHHTC-CEEECCTT
T ss_pred             EEecCCcccchhhh-hhhhhhhhhccCCCceEEEEEeeechhhccc----------ccHHHHHHHHHHcCC-EEEEEeCC
Confidence            99999999999998 56666555544 6789999999999988766          889999999999998 89999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       153 ~g~gi  157 (170)
T d2g6ba1         153 TGLNV  157 (170)
T ss_dssp             TCTTH
T ss_pred             CCcCH
Confidence            99986

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.8e-34  Score=191.00  Aligned_cols=148  Identities=30%  Similarity=0.560  Sum_probs=131.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccc-cccccccCCcEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR-LRPLSYRGADVFV   84 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~~~~~~i   84 (168)
                      +.+||+++|++|||||||+++|.++++...+.++.+..+ .+...+......+.+||++|...+.. .++.+++++|+++
T Consensus         1 r~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i   80 (165)
T d1z06a1           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (165)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceE
Confidence            468999999999999999999999999888888887776 56778889999999999999877654 4667899999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      +|||++++++|+.+ ..|+..+.+..  ++.|++|||||+|+...+.          +..++++++++.+++ +|+|+||
T Consensus        81 lv~d~~~~~s~~~~-~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~SA  148 (165)
T d1z06a1          81 FVYDMTNMASFHSL-PAWIEECKQHLLANDIPRILVGNKCDLRSAIQ----------VPTDLAQKFADTHSM-PLFETSA  148 (165)
T ss_dssp             EEEETTCHHHHHTH-HHHHHHHHHHCCCSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-CEEECCS
T ss_pred             EEEEeehhhhhhhh-hhhhHHHHhhccCCCCeEEEEeccccchhccc----------hhHHHHHHHHHHCCC-EEEEEec
Confidence            99999999999998 88888887764  5799999999999988766          899999999999998 8999999


Q ss_pred             cCcc
Q 030961          163 KTQQ  166 (168)
Q Consensus       163 ~~~~  166 (168)
                      ++|.
T Consensus       149 kt~~  152 (165)
T d1z06a1         149 KNPN  152 (165)
T ss_dssp             SSGG
T ss_pred             ccCC
Confidence            9865

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.3e-34  Score=191.22  Aligned_cols=152  Identities=34%  Similarity=0.621  Sum_probs=130.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      +.+.+||+++|+++||||||+++|.++.+...+.++.+..+ .+....++..+.+.+||++|.......++..+..++++
T Consensus         3 ~~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~   82 (174)
T d1wmsa_           3 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCC   82 (174)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceE
Confidence            56789999999999999999999999999888888887776 55677889999999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      +++||.+++.|++.+ ..|+..+.+..     .+.|+++|+||+|+.+. .          +..++++++++.++..+|+
T Consensus        83 i~~~d~~~~~s~~~~-~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~~-~----------v~~~~~~~~~~~~~~~~~~  150 (174)
T d1wmsa_          83 LLTFSVDDSQSFQNL-SNWKKEFIYYADVKEPESFPFVILGNKIDISER-Q----------VSTEEAQAWCRDNGDYPYF  150 (174)
T ss_dssp             EEEEETTCHHHHHTH-HHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSC-S----------SCHHHHHHHHHHTTCCCEE
T ss_pred             EEEEeeecccccchh-hhHHHHHHHHhccccCCCceEEEeccccchhhc-c----------CcHHHHHHHHHHcCCCeEE
Confidence            999999999999998 78887776542     46899999999998643 3          7889999999988755899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ||||++|.||
T Consensus       151 e~Sak~~~gI  160 (174)
T d1wmsa_         151 ETSAKDATNV  160 (174)
T ss_dssp             ECCTTTCTTH
T ss_pred             EEcCCCCcCH
Confidence            9999999986

>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=8.9e-34  Score=189.92  Aligned_cols=148  Identities=33%  Similarity=0.646  Sum_probs=127.3

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      .+||+++|.+|+|||||+++|+.+++...+.++.+.++ ...+.+++..+.+.+|||||++.+..+++.++++++++++|
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEE
Confidence            58999999999999999999999999999899998777 46788899999999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      ||.+++.+++.+ +.|........ ...|++++++|.|+....           ...++++.++..+++ +|++|||++|
T Consensus        82 ~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~i~~~~k~d~~~~~-----------~~~~~~~~~~~~~~~-~~~~~Sa~~~  148 (166)
T d1g16a_          82 YDITDERTFTNI-KQWFKTVNEHANDEAQLLLVGNKSDMETRV-----------VTADQGEALAKELGI-PFIESSAKND  148 (166)
T ss_dssp             EETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCTTCC-----------SCHHHHHHHHHHHTC-CEEECBTTTT
T ss_pred             EECCCccCHHHH-HhhhhhhhccccCcceeeeecchhhhhhhh-----------hhHHHHHHHHHhcCC-eEEEECCCCC
Confidence            999999999998 67766666665 678899999999987654           678899999999998 9999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +||
T Consensus       149 ~~v  151 (166)
T d1g16a_         149 DNV  151 (166)
T ss_dssp             BSH
T ss_pred             CCH
Confidence            986

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.6e-33  Score=188.79  Aligned_cols=149  Identities=29%  Similarity=0.601  Sum_probs=133.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      +.+||+++|++|+|||||+++|.++.+...+.++.+..+ .+.+.+++..+.+.+|||+|++.+..+++.++++++++++
T Consensus         6 ~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~   85 (177)
T d1x3sa1           6 TTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVIL   85 (177)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEEE
Confidence            578999999999999999999999999888788776665 4567889999999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      |||++++.++..+ ..|+..+.+..  ...|+++++||.|.....           +..++++.+++.+++ +|+++||+
T Consensus        86 v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~-----------v~~~~~~~~~~~~~~-~~~e~Sa~  152 (177)
T d1x3sa1          86 VYDVTRRDTFVKL-DNWLNELETYCTRNDIVNMLVGNKIDKENRE-----------VDRNEGLKFARKHSM-LFIEASAK  152 (177)
T ss_dssp             EEETTCHHHHHTH-HHHHHHHTTCCSCSCCEEEEEEECTTSSSCC-----------SCHHHHHHHHHHTTC-EEEECCTT
T ss_pred             EEECCCccccccc-hhhhhhhcccccccceeeEEEeecccccccc-----------ccHHHHHHHHHHCCC-EEEEEeCC
Confidence            9999999999998 78888887755  468999999999976542           788999999999998 99999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       153 tg~gv  157 (177)
T d1x3sa1         153 TCDGV  157 (177)
T ss_dssp             TCTTH
T ss_pred             CCCCH
Confidence            99986

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.6e-33  Score=189.85  Aligned_cols=148  Identities=20%  Similarity=0.393  Sum_probs=123.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCC-CCCceee-ceeEEEEECCeEEEEEEEeCCC---CccccccccccccCCc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTD-YIPTVFD-NFSANVVAEGTTVNLGLWDTAG---QEDYNRLRPLSYRGAD   81 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~i~D~~g---~~~~~~~~~~~~~~~~   81 (168)
                      ..+||+++|++|+|||||+++|.+..+... ..++.+. .+.+.+.+++..+.+.+||+++   ++++  ++..+++++|
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~   79 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGD   79 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCS
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccc
Confidence            368999999999999999999998765432 3334443 4567888999999999999775   4444  5667889999


Q ss_pred             EEEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEE
Q 030961           82 VFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIE  159 (168)
Q Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (168)
                      ++++|||++++.++..+ ..|...+.+..  +++|+++|+||+|+...+.          +..+++++++..+++ +|++
T Consensus        80 ~~ilvfd~t~~~s~~~~-~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~----------v~~~~~~~~a~~~~~-~~~e  147 (172)
T d2g3ya1          80 AYLIVYSITDRASFEKA-SELRIQLRRARQTEDIPIILVGNKSDLVRCRE----------VSVSEGRACAVVFDC-KFIE  147 (172)
T ss_dssp             EEEEEEETTCHHHHHHH-HHHHHHHHTSGGGTTSCEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEE
T ss_pred             eeeeeecccccchhhhh-hhhhhhhhhccccCCceEEEEecccccccccc----------ccHHHHHHHHHHcCC-eEEE
Confidence            99999999999999998 78888777654  6899999999999987765          888999999999998 9999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|+||
T Consensus       148 ~Sak~g~~i  156 (172)
T d2g3ya1         148 TSAAVQHNV  156 (172)
T ss_dssp             CBTTTTBSH
T ss_pred             EeCCCCcCH
Confidence            999999986

>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=2.7e-33  Score=189.01  Aligned_cols=151  Identities=32%  Similarity=0.564  Sum_probs=116.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEE-CCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVA-EGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+||+++|++|||||||+++|.++++...+.++.+..... .... +.....+.+||++|++.+..++..+++.++++++
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            5899999999999999999999999988888877666533 3333 4456788999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      |||++++.||..+ ..|+.++....     .++|+++++||+|+...+.         .+..+++++++..++..+|++|
T Consensus        82 v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~---------~v~~~~~~~~~~~~~~~~~~e~  151 (175)
T d1ky3a_          82 VYDVTNASSFENI-KSWRDEFLVHANVNSPETFPFVILGNKIDAEESKK---------IVSEKSAQELAKSLGDIPLFLT  151 (175)
T ss_dssp             EEETTCHHHHHTH-HHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGC---------CSCHHHHHHHHHHTTSCCEEEE
T ss_pred             Eeecccccccchh-hhcchhhhhhhhhcccccCcEEEEecccchhhhhc---------chhHHHHHHHHHHcCCCeEEEE
Confidence            9999999999997 78888876532     4789999999999975432         2677899999999986689999


Q ss_pred             cccCccCC
Q 030961          161 SSKTQQVC  168 (168)
Q Consensus       161 Sa~~~~~i  168 (168)
                      ||++|.||
T Consensus       152 SA~~g~gv  159 (175)
T d1ky3a_         152 SAKNAINV  159 (175)
T ss_dssp             BTTTTBSH
T ss_pred             eCCCCcCH
Confidence            99999986

>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=100.00  E-value=1.4e-32  Score=185.57  Aligned_cols=147  Identities=19%  Similarity=0.273  Sum_probs=123.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|+++||||||+++|+++.+.. +.++....+.+.+.+++..+.+.+||++|++.+     .+++++|++++|
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilV   77 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFV   77 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCEEEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccceeEEEEeecCceEEEEEEeeccccccc-----ccccccceeEEE
Confidence            58999999999999999999999998854 466777777778889999999999999998764     367899999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSS  162 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  162 (168)
                      ||+++++||+.+ ..|+..+....    ++.|+++|+||.|+.....        +.+..++++.++......+|+||||
T Consensus        78 fd~~~~~Sf~~~-~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~--------~~v~~~~~~~~~~~~~~~~~~e~SA  148 (175)
T d2bmja1          78 FSLEDENSFQAV-SRLHGQLSSLRGEGRGGLALALVGTQDRISASSP--------RVVGDARARALCADMKRCSYYETCA  148 (175)
T ss_dssp             EETTCHHHHHHH-HHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSC--------CCSCHHHHHHHHHTSTTEEEEEEBT
T ss_pred             eecccchhhhhh-HHHHHHHHHHhhcccCCccEEEEeeecCcchhhh--------cchhHHHHHHHHHHhCCCeEEEeCC
Confidence            999999999998 78888876543    4679999999999864432        3378889999976655459999999


Q ss_pred             cCccCC
Q 030961          163 KTQQVC  168 (168)
Q Consensus       163 ~~~~~i  168 (168)
                      ++|.||
T Consensus       149 k~~~~v  154 (175)
T d2bmja1         149 TYGLNV  154 (175)
T ss_dssp             TTTBTH
T ss_pred             CCCcCH
Confidence            999985

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=1.7e-32  Score=186.50  Aligned_cols=149  Identities=30%  Similarity=0.559  Sum_probs=129.8

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      .+||+++|.+|||||||+++|+++++...+.+|.+.++ .+.....+..+.+.+||++|...+...++..+..++++++|
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   81 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLV   81 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEe
Confidence            47999999999999999999999999998899887665 55777888899999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-----CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-----PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ||.+++.++..+ ..|+..+....     .++|+++|+||+|+.+..           +..++...++...+..+|++||
T Consensus        82 ~d~~~~~~~~~~-~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~~~~~e~S  149 (184)
T d1vg8a_          82 FDVTAPNTFKTL-DSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQ-----------VATKRAQAWCYSKNNIPYFETS  149 (184)
T ss_dssp             EETTCHHHHHTH-HHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCC-----------SCHHHHHHHHHHTTSCCEEECB
T ss_pred             ecccchhhhhcc-hhhHHHHHHHhccccccCCCEEEEEEeecccccc-----------hhHHHHHHHHHHhcCCeEEEEc
Confidence            999999999998 78887775542     368999999999986643           6677777787666545999999


Q ss_pred             ccCccCC
Q 030961          162 SKTQQVC  168 (168)
Q Consensus       162 a~~~~~i  168 (168)
                      |++|.||
T Consensus       150 ak~~~gI  156 (184)
T d1vg8a_         150 AKEAINV  156 (184)
T ss_dssp             TTTTBSH
T ss_pred             CCCCcCH
Confidence            9999986

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.97  E-value=3.6e-32  Score=181.74  Aligned_cols=150  Identities=23%  Similarity=0.296  Sum_probs=115.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      .++||+++|+++||||||+++|.++.+...+.+|.+..+. .+..+  .+.+.+||+||++.+...+..++..++++++|
T Consensus         1 ~e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   77 (164)
T d1zd9a1           1 EEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR-KITKG--NVTIKLWDIGGQPRFRSMWERYCRGVSAIVYM   77 (164)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE-EEEET--TEEEEEEEECCSHHHHTTHHHHHTTCSEEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeee-eeeee--eEEEEEeeccccccccccccccccccchhhcc
Confidence            3689999999999999999999999998888888776543 23333  46788899999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHH-chhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccC
Q 030961           87 FSLVSRASYENVLKKWIPEL-QHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKT  164 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l-~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  164 (168)
                      ||+++++++... ..|+..+ .... +++|++|++||.|+......       ..+....+...+...++ +++++||++
T Consensus        78 ~d~~~~~~~~~~-~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~~-------~~i~~~~~~~~~~~~~~-~~~e~Sa~~  148 (164)
T d1zd9a1          78 VDAADQEKIEAS-KNELHNLLDKPQLQGIPVLVLGNKRDLPGALDE-------KELIEKMNLSAIQDREI-CCYSISCKE  148 (164)
T ss_dssp             EETTCGGGHHHH-HHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCH-------HHHHHHTTGGGCCSSCE-EEEECCTTT
T ss_pred             cccccccccchh-hhhhhhhhhhhcccCCcEEEEEeccccchhhhH-------HHHHHHHHHHHHHhCCC-EEEEEeCcC
Confidence            999999999998 4455444 4433 78999999999998754220       00111112222334454 889999999


Q ss_pred             ccCC
Q 030961          165 QQVC  168 (168)
Q Consensus       165 ~~~i  168 (168)
                      |+||
T Consensus       149 g~gv  152 (164)
T d1zd9a1         149 KDNI  152 (164)
T ss_dssp             CTTH
T ss_pred             CcCH
Confidence            9985

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.97  E-value=2e-30  Score=173.16  Aligned_cols=145  Identities=18%  Similarity=0.233  Sum_probs=110.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|++|||||||+++|.+..+. .+.+|.+...   ..++...+.+.+||++|++.++..++.+++.++++++|
T Consensus         1 k~~ki~ivG~~~~GKTsLi~~l~~~~~~-~~~~t~~~~~---~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   76 (165)
T d1ksha_           1 RELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGFNI---KTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWV   76 (165)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCCCS-SCCCCSSEEE---EEEEETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHcCCCCC-cccceEeeee---eeccccccceeeeecCcchhhhhHHHhhhhhhhcceee
Confidence            4689999999999999999999987663 4455554332   22334457788899999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH-----HHhCCcEEEEe
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR-----KQIGASYYIEC  160 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~  160 (168)
                      ||+++..++......|...+.... .+.|++||+||+|+.+...            .++.....     ...++ ++++|
T Consensus        77 ~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~------------~~~~~~~~~~~~~~~~~~-~~~~~  143 (165)
T d1ksha_          77 VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALS------------CNAIQEALELDSIRSHHW-RIQGC  143 (165)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC------------HHHHHHHTTGGGCCSSCE-EEEEC
T ss_pred             eecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccC------------HHHHHHHHHhhhhhcCCC-EEEEE
Confidence            999999999988566666655443 7899999999999976532            22222221     12233 78999


Q ss_pred             cccCccCC
Q 030961          161 SSKTQQVC  168 (168)
Q Consensus       161 Sa~~~~~i  168 (168)
                      ||++|+||
T Consensus       144 Sa~~g~gv  151 (165)
T d1ksha_         144 SAVTGEDL  151 (165)
T ss_dssp             CTTTCTTH
T ss_pred             ECCCCCCH
Confidence            99999985

>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=6.9e-31  Score=177.15  Aligned_cols=148  Identities=21%  Similarity=0.278  Sum_probs=110.3

Q ss_pred             CCcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcE
Q 030961            3 SSASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADV   82 (168)
Q Consensus         3 ~~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   82 (168)
                      .++++.+||+++|++|||||||+++|.++.+... .++.+.. ...+  +...+.+.+||++|++.++..+..+++.+++
T Consensus        11 ~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~-~~~~~~~-~~~i--~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~   86 (176)
T d1fzqa_          11 SAPDQEVRILLLGLDNAGKTTLLKQLASEDISHI-TPTQGFN-IKSV--QSQGFKLNVWDIGGQRKIRPYWRSYFENTDI   86 (176)
T ss_dssp             SCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEEE-EEETTEE-EEEE--EETTEEEEEEECSSCGGGHHHHHHHHTTCSE
T ss_pred             CCCCCEEEEEEECCCCCCHHHHHHHHhcCCCCcc-eeeeeee-EEEe--ccCCeeEeEeeccccccchhHHHHHhhccce
Confidence            4567889999999999999999999998876322 2222221 1222  3334778889999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHhHHHHHchh-C-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH-----HHHHhCCc
Q 030961           83 FVLAFSLVSRASYENVLKKWIPELQHY-S-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE-----LRKQIGAS  155 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~l~~~-~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~  155 (168)
                      +++|||++++.++..+ ..|...+... . .++|++|++||+|+.....            .++..+     .+...++ 
T Consensus        87 ii~v~d~~d~~s~~~~-~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~------------~~~~~~~~~~~~~~~~~~-  152 (176)
T d1fzqa_          87 LIYVIDSADRKRFEET-GQELTELLEEEKLSCVPVLIFANKQDLLTAAP------------ASEIAEGLNLHTIRDRVW-  152 (176)
T ss_dssp             EEEEEETTCGGGHHHH-HHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC------------HHHHHHHTTGGGCCSSCE-
T ss_pred             eEEeeccccccchhhh-hhhhhhhhhhhccCCCeEEEEEEecccccccc------------HHHHHHHHHHHHHHhcCC-
Confidence            9999999999999998 4555444443 3 5799999999999976532            222211     1222343 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      ++++|||++|+||
T Consensus       153 ~~~~~SA~tg~gv  165 (176)
T d1fzqa_         153 QIQSCSALTGEGV  165 (176)
T ss_dssp             EEEECCTTTCTTH
T ss_pred             EEEEEeCCCCCCH
Confidence            7999999999985

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.96  E-value=7.5e-31  Score=176.67  Aligned_cols=152  Identities=16%  Similarity=0.212  Sum_probs=109.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+.+||+++|+++||||||+++|.++.+... .+|.+.   .........+.+.+||+||++.++..+..+++.+++++
T Consensus         9 ~~k~~kIvlvG~~~vGKTSli~rl~~~~~~~~-~~t~~~---~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii   84 (173)
T d1e0sa_           9 GNKEMRILMLGLDAAGKTTILYKLKLGQSVTT-IPTVGF---NVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLI   84 (173)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHTTCCCCEEE-EEETTE---EEEEEEETTEEEEEEEESCCGGGHHHHGGGTTTCCEEE
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHhcCCCCCc-cceeee---eEEEeeccceeeEEecCCCcchhhhHHHhhhcccceEE
Confidence            35689999999999999999999998765322 222221   12223334477888999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEeccc
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSK  163 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  163 (168)
                      +|+|+++.+++..+...|...+.... .+.|+++++||+|+.+.....       .+..+.+...+...++ ++++|||+
T Consensus        85 ~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~-------~i~~~~~~~~~~~~~~-~~~e~SA~  156 (173)
T d1e0sa_          85 FVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPH-------EIQEKLGLTRIRDRNW-YVQPSCAT  156 (173)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHH-------HHHHHTTGGGCCSSCE-EEEECBTT
T ss_pred             EEEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccccccHH-------HHHHHHHHHHHHhCCC-EEEEeeCC
Confidence            99999999999998554555555433 689999999999997652200       0111112222333455 78999999


Q ss_pred             CccCC
Q 030961          164 TQQVC  168 (168)
Q Consensus       164 ~~~~i  168 (168)
                      +|+||
T Consensus       157 tg~gv  161 (173)
T d1e0sa_         157 SGDGL  161 (173)
T ss_dssp             TTBTH
T ss_pred             CCcCH
Confidence            99986

>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=99.96  E-value=3.3e-30  Score=174.81  Aligned_cols=148  Identities=15%  Similarity=0.171  Sum_probs=105.8

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEE
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~   83 (168)
                      ...+.+||+++|++|||||||+++|.+..+.. ..+|.+...   ..+....+.+.+||++|++.++.++..++..++++
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~~---~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~i   88 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNV---ETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAV   88 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTCCE---EEEEETTEEEEEEEEC----CCTTGGGTTTTEEEE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceEE---EEEeeCCEEEEEEecccccccchhHHhhhccceeE
Confidence            35678999999999999999999998776532 233333222   12233346788899999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHH-----HHHHhCCcEE
Q 030961           84 VLAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEE-----LRKQIGASYY  157 (168)
Q Consensus        84 i~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~  157 (168)
                      ++|+|++++.++......|...+.... .+.|++|++||+|+...            ...++...     .+...++ +|
T Consensus        89 i~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~  155 (182)
T d1moza_          89 IFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA------------LSASEVSKELNLVELKDRSW-SI  155 (182)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC------------CCHHHHHHHTTTTTCCSSCE-EE
T ss_pred             EEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccc------------cCHHHHHHHHHHHHHhhCCC-EE
Confidence            999999999999988444444444433 57999999999999654            22222222     2233344 79


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      ++|||++|+||
T Consensus       156 ~e~SA~~g~gv  166 (182)
T d1moza_         156 VASSAIKGEGI  166 (182)
T ss_dssp             EEEBGGGTBTH
T ss_pred             EEEECCCCCCH
Confidence            99999999986

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.95  E-value=8.2e-29  Score=163.97  Aligned_cols=148  Identities=15%  Similarity=0.186  Sum_probs=111.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEe
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFS   88 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d   88 (168)
                      +||+++|++|||||||+++|.++.+...+..+.    ......+...+.+.+||++|...+...+..+++.++++++++|
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d   76 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIG----FNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVD   76 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSS----CCEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcccccee----eEEEEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEEE
Confidence            589999999999999999999988755433322    2223445667888999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961           89 LVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                      ..++.++..+...+.+.+.... ...|+++++||.|+......       ..+..+....++...++ +++++||++|+|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~-------~~i~~~~~~~~~~~~~~-~~~~~SAktg~g  148 (160)
T d1r8sa_          77 SNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNA-------AEITDKLGLHSLRHRNW-YIQATCATSGDG  148 (160)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH-------HHHHHHTTGGGCSSCCE-EEEECBTTTTBT
T ss_pred             ecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccH-------HHHHHHHHHHHHhhCCC-EEEEeECCCCCC
Confidence            9999999998444444444433 67899999999998765320       01222223334445565 899999999999


Q ss_pred             C
Q 030961          168 C  168 (168)
Q Consensus       168 i  168 (168)
                      |
T Consensus       149 i  149 (160)
T d1r8sa_         149 L  149 (160)
T ss_dssp             H
T ss_pred             H
Confidence            6

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.93  E-value=4.5e-26  Score=153.72  Aligned_cols=145  Identities=17%  Similarity=0.096  Sum_probs=101.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeece-eEEEEECCeEEEEEEEeCCCCccccccc--------ccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRLR--------PLS   76 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~--------~~~   76 (168)
                      +.-.|+++|.+|||||||+++|++.+... ...+..+... .......+  ..+.+|||||........        ...
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~~~~~   81 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEA   81 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeee--eeeeecccccccccccccchhcccccccc
Confidence            34479999999999999999999876432 1122222222 22333344  466779999976543322        234


Q ss_pred             ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcE
Q 030961           77 YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASY  156 (168)
Q Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (168)
                      ++++|++++|+|++++.+...  ..|.+.+.+...+.|+++|+||+|+....             .+..+.+.+.++...
T Consensus        82 ~~~ad~il~v~D~~~~~~~~~--~~i~~~l~~~~~~~piilv~NK~Dl~~~~-------------~~~~~~~~~~~~~~~  146 (178)
T d1wf3a1          82 LADVNAVVWVVDLRHPPTPED--ELVARALKPLVGKVPILLVGNKLDAAKYP-------------EEAMKAYHELLPEAE  146 (178)
T ss_dssp             TSSCSEEEEEEETTSCCCHHH--HHHHHHHGGGTTTSCEEEEEECGGGCSSH-------------HHHHHHHHHTSTTSE
T ss_pred             cccccceeeeechhhhhcccc--cchhhheeccccchhhhhhhcccccccCH-------------HHHHHHHHhhcccCc
Confidence            678999999999988765443  56777777766789999999999996542             234456666677668


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      ++++||++|+||
T Consensus       147 ~~~iSA~~~~gi  158 (178)
T d1wf3a1         147 PRMLSALDERQV  158 (178)
T ss_dssp             EEECCTTCHHHH
T ss_pred             eEEEecCCCCCH
Confidence            999999999875

>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=2.5e-25  Score=149.52  Aligned_cols=146  Identities=18%  Similarity=0.237  Sum_probs=102.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL   85 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   85 (168)
                      .+.+||+++|.+|||||||++|+.+.++... .++... ........  ..++.+||+++.+..+..+...+..++++++
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~-~~~~~~-~~~~~~~~--~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~   88 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIGS-NVEEIVIN--NTRFLMWDIGGQESLRSSWNTYYTNTEFVIV   88 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEE-ECCSCS-SCEEEEET--TEEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCcc-ccccce-eEEEEeec--ceEEEEeccccccccccchhhhhccceeeee
Confidence            4679999999999999999999999876432 122211 12222333  3677789999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHH-----HHHhCCcEEEE
Q 030961           86 AFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL-----RKQIGASYYIE  159 (168)
Q Consensus        86 v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~  159 (168)
                      ++|.++..++......+........ ...|+++|+||+|+.....            .++....     +...++ ++++
T Consensus        89 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~------------~~~i~~~~~~~~~~~~~~-~~~~  155 (177)
T d1zj6a1          89 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT------------VAEISQFLKLTSIKDHQW-HIQA  155 (177)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC------------HHHHHHHHTGGGCCSSCE-EEEE
T ss_pred             ecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCc------------HHHHHHHHHHHhhHhcCC-EEEE
Confidence            9999999998887333333333332 6899999999999876532            2222221     223343 8999


Q ss_pred             ecccCccCC
Q 030961          160 CSSKTQQVC  168 (168)
Q Consensus       160 ~Sa~~~~~i  168 (168)
                      +||++|+||
T Consensus       156 ~Sa~tg~Gi  164 (177)
T d1zj6a1         156 CCALTGEGL  164 (177)
T ss_dssp             CBTTTTBTH
T ss_pred             EeCCCCCCH
Confidence            999999996

>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=99.92  E-value=7.7e-25  Score=145.63  Aligned_cols=150  Identities=15%  Similarity=0.164  Sum_probs=109.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|.+|||||||+++|.++.+... .++.+.   .........+.+.+||.+|.+.+...+...+..+++++++
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~-~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIGF---NVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYV   79 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSSE---EEEEEEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCcce-ecccce---eeeeeccCceEEEEeeccccccccccchhhhhhhhhhhhh
Confidence            358999999999999999999999887543 233322   1222223346777899999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCc
Q 030961           87 FSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQ  165 (168)
Q Consensus        87 ~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  165 (168)
                      +|+.+..++......+...+.... ...|+++++||.|+......       ..+..+.+..++...++ +|+++||++|
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~-------~~i~~~~~~~~~~~~~~-~~~~~SA~~g  151 (169)
T d1upta_          80 VDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTS-------SEMANSLGLPALKDRKW-QIFKTSATKG  151 (169)
T ss_dssp             EETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH-------HHHHHHHTGGGCTTSCE-EEEECCTTTC
T ss_pred             hhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccH-------HHHHHHHHHHHHhcCCC-EEEEEeCCCC
Confidence            999988888877455555554443 67899999999999865320       00222222334444555 8999999999


Q ss_pred             cCC
Q 030961          166 QVC  168 (168)
Q Consensus       166 ~~i  168 (168)
                      +||
T Consensus       152 ~gv  154 (169)
T d1upta_         152 TGL  154 (169)
T ss_dssp             TTH
T ss_pred             CCH
Confidence            986

>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=99.91  E-value=7.4e-25  Score=149.68  Aligned_cols=156  Identities=15%  Similarity=0.058  Sum_probs=113.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +++||+++|++|||||||++||..+.+  .+.||++..+.   .+....+.+++||++|++.++..|..+++.+++++++
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~~---~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   75 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEY---PFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFL   75 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEEE---EEECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEEE---EEeccceeeeeccccccccccccccccccccceeeEe
Confidence            479999999999999999999998876  35688876542   3444557788899999999999999999999999999


Q ss_pred             EeCCChh----------HHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhh------cCCCCCcccHHHHHHHH
Q 030961           87 FSLVSRA----------SYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLA------DHPGLVPVTTAQGEELR  149 (168)
Q Consensus        87 ~d~~~~~----------s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~------~~~~~~~~~~~~~~~~~  149 (168)
                      ||.++..          .+.+..+.|...+.... .+.|+++++||.|+...+....      ............+..+.
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  155 (200)
T d2bcjq2          76 VALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFI  155 (200)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHH
T ss_pred             eeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHH
Confidence            9987754          23333478888887665 7899999999999875532111      01111222333333332


Q ss_pred             H----------HhCCcEEEEecccCccCC
Q 030961          150 K----------QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       150 ~----------~~~~~~~~~~Sa~~~~~i  168 (168)
                      .          ... ..+++|||++|+||
T Consensus       156 ~~~f~~~~~~~~~~-~~~~~tSAk~~~ni  183 (200)
T d2bcjq2         156 LKMFVDLNPDSDKI-IYSHFTCATDTENI  183 (200)
T ss_dssp             HHHHHTTCSCTTSC-EEEEECCTTCHHHH
T ss_pred             HHHHHHhcccCCCc-eEEEEeEEEcCHhH
Confidence            1          112 35789999999875

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.91  E-value=1e-24  Score=148.45  Aligned_cols=113  Identities=16%  Similarity=0.187  Sum_probs=89.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|+.|||||||++||....+++.+.        ....++.....+++||++|++.++.++..+++.++++++|
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~t~~~--------~~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v   72 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEAGTGI--------VETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFC   72 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSCCCSE--------EEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCCccE--------EEEEEEeeeeeeeeeccccccccccchhhcccCCceeeeE
Confidence            47899999999999999999998876643321        1223444456788899999999999999999999999999


Q ss_pred             EeCCChhHHH----------HHHHhHHHHHchhC-CCCcEEEEeeCCccccc
Q 030961           87 FSLVSRASYE----------NVLKKWIPELQHYS-PGVPVVLVGTKLDLRED  127 (168)
Q Consensus        87 ~d~~~~~s~~----------~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~  127 (168)
                      +|.++..++.          +....|...+.... ...|+++++||+|+...
T Consensus        73 ~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~  124 (195)
T d1svsa1          73 VALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEE  124 (195)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHH
T ss_pred             EeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhh
Confidence            9998877652          22355666666554 67899999999997654

>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=99.91  E-value=3.8e-23  Score=136.63  Aligned_cols=142  Identities=16%  Similarity=0.175  Sum_probs=104.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEEEeC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSL   89 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   89 (168)
                      ||+++|++|||||||+++|.++.+. .+.++.+...   ...........+||++|...+...++..+..++++++++|.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~   77 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTS---EELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDA   77 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEE---EEECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEET
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeE---EEeccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccc
Confidence            7999999999999999999998874 3345443322   22333345577799999999999999999999999999999


Q ss_pred             CChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH------------HHhCCcE
Q 030961           90 VSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR------------KQIGASY  156 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~  156 (168)
                      ++..++......+........ .+.|+++++||.|+....            ...+.....            ...+ .+
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~------------~~~~i~~~~~~~~~~~~~~~~~~~~-~~  144 (166)
T d2qtvb1          78 ADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV------------SEAELRSALGLLNTTGSQRIEGQRP-VE  144 (166)
T ss_dssp             TCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCC------------CHHHHHHHHTCSSCCC---CCSSCC-EE
T ss_pred             cchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccC------------CHHHHHHHhhhhhhhHHHhhcccCC-CE
Confidence            999998887444444333333 578999999999997642            222221111            1222 37


Q ss_pred             EEEecccCccCC
Q 030961          157 YIECSSKTQQVC  168 (168)
Q Consensus       157 ~~~~Sa~~~~~i  168 (168)
                      +++|||++|+||
T Consensus       145 ~~~~SA~tg~Gv  156 (166)
T d2qtvb1         145 VFMCSVVMRNGY  156 (166)
T ss_dssp             EEEEBTTTTBSH
T ss_pred             EEEeeCCCCCCH
Confidence            999999999996

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.90  E-value=1.3e-23  Score=143.70  Aligned_cols=156  Identities=16%  Similarity=0.110  Sum_probs=98.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      +.+||+++|++|||||||++||.   +...+.||++....   .++.....+++||++|++.++..+..+++++++++++
T Consensus         1 r~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~~~---~~~~~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~   74 (200)
T d1zcba2           1 RLVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHEY---DFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFL   74 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEEEE---EEEETTEEEEEEEECC-------CTTSCTTCCEEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeEEE---EEeeeeeeeeeecccceeeecccccccccccceeEEE
Confidence            46899999999999999999993   44566788775432   2333456778899999999999999999999999999


Q ss_pred             EeCCChhH----------HHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhc------CCCCCcccHHHHHHHH
Q 030961           87 FSLVSRAS----------YENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLAD------HPGLVPVTTAQGEELR  149 (168)
Q Consensus        87 ~d~~~~~s----------~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~------~~~~~~~~~~~~~~~~  149 (168)
                      |+.++..+          +......|...+.... .+.|+++++||+|+........+      .....+-..+.+.++.
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            99987533          3444233344444433 68999999999998754321110      1111122334444433


Q ss_pred             HH-h---------CCcEEEEecccCccCC
Q 030961          150 KQ-I---------GASYYIECSSKTQQVC  168 (168)
Q Consensus       150 ~~-~---------~~~~~~~~Sa~~~~~i  168 (168)
                      .. +         ....+++|||++++||
T Consensus       155 ~~~f~~~~~~~~~~~iy~~~TsA~d~~ni  183 (200)
T d1zcba2         155 VECFRGKRRDQQQRPLYHHFTTAINTENI  183 (200)
T ss_dssp             HHHHHTTCSSCC--CCEEEECCTTCHHHH
T ss_pred             HHHHHHhccCCCCCceEEEEeeeeCcHHH
Confidence            21 1         1125678999999875

>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=99.90  E-value=1.4e-23  Score=141.58  Aligned_cols=145  Identities=17%  Similarity=0.103  Sum_probs=94.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccc----cccc---ccccCCcE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYN----RLRP---LSYRGADV   82 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~----~~~~---~~~~~~~~   82 (168)
                      .|+++|.+|||||||+|+|++........+..+...............+.+|||||.....    .+..   ..+..+++
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~   82 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRV   82 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeeecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhh
Confidence            5899999999999999999887643332233333333333344444567789999954321    1211   23568999


Q ss_pred             EEEEEeCCChh--HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           83 FVLAFSLVSRA--SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        83 ~i~v~d~~~~~--s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      +++++|.....  +.... ..++........+.|+++|+||+|+...+.            .++..+.....+. ++|++
T Consensus        83 ~~~~~d~~~~~~~~~~~~-~~~~~~~~~~~~~~p~iiv~NK~D~~~~~~------------~~~~~~~~~~~~~-~~~~i  148 (180)
T d1udxa2          83 LLYVLDAADEPLKTLETL-RKEVGAYDPALLRRPSLVALNKVDLLEEEA------------VKALADALAREGL-AVLPV  148 (180)
T ss_dssp             EEEEEETTSCHHHHHHHH-HHHHHHHCHHHHHSCEEEEEECCTTSCHHH------------HHHHHHHHHTTTS-CEEEC
T ss_pred             hhhhcccccccccchhhh-hhhhhccccccchhhhhhhhhhhhhhhHHH------------HHHHHHHHHhcCC-eEEEE
Confidence            99999986542  33333 334443333334689999999999976542            3344445555565 89999


Q ss_pred             cccCccCC
Q 030961          161 SSKTQQVC  168 (168)
Q Consensus       161 Sa~~~~~i  168 (168)
                      ||++|+||
T Consensus       149 SA~tg~gi  156 (180)
T d1udxa2         149 SALTGAGL  156 (180)
T ss_dssp             CTTTCTTH
T ss_pred             EcCCCCCH
Confidence            99999985

>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=5.9e-24  Score=140.81  Aligned_cols=139  Identities=17%  Similarity=0.255  Sum_probs=98.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeec-eeEEEEECCeEEEEEEEeCCCCcccccc--------cccccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDN-FSANVVAEGTTVNLGLWDTAGQEDYNRL--------RPLSYR   78 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~~   78 (168)
                      +||+++|.+|||||||+|+|++.... ....+..... ........+  ..+.+||++|.......        ....+.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   79 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEIE   79 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC--ceeeeccccccccccccchhHHHHHHHHHHH
Confidence            79999999999999999999987653 2222322222 233344444  45667999996544321        223467


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                      .+|++++++|..+..++... ..|...+.....+.|+++|+||+|+.......                  .+.+..+++
T Consensus        80 ~~d~~i~~~d~~~~~~~~~~-~~~~~~~~~~~~~~~iilv~NK~Dl~~~~~~~------------------~~~~~~~~~  140 (161)
T d2gj8a1          80 QADRVLFMVDGTTTDAVDPA-EIWPEFIARLPAKLPITVVRNKADITGETLGM------------------SEVNGHALI  140 (161)
T ss_dssp             TCSEEEEEEETTTCCCCSHH-HHCHHHHHHSCTTCCEEEEEECHHHHCCCCEE------------------EEETTEEEE
T ss_pred             hccccceeeccccccchhhh-hhhhhhhhhcccccceeeccchhhhhhhHHHH------------------HHhCCCcEE
Confidence            89999999999988887776 66666666666789999999999987653210                  112334899


Q ss_pred             EecccCccCC
Q 030961          159 ECSSKTQQVC  168 (168)
Q Consensus       159 ~~Sa~~~~~i  168 (168)
                      ++||++|+||
T Consensus       141 ~iSAk~~~gi  150 (161)
T d2gj8a1         141 RLSARTGEGV  150 (161)
T ss_dssp             ECCTTTCTTH
T ss_pred             EEECCCCCCH
Confidence            9999999985

>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=99.89  E-value=1.3e-22  Score=136.61  Aligned_cols=147  Identities=16%  Similarity=0.212  Sum_probs=102.1

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFV   84 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i   84 (168)
                      ..+..||+++|.+|||||||+++|.++.+... .++.+... ..+..++.  .+..||+.+...+...+.......++++
T Consensus        10 ~~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (186)
T d1f6ba_          10 YKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTS-EELTIAGM--TFTTFDLGGHIQARRVWKNYLPAINGIV   85 (186)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC-EEEEETTE--EEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCCCcce-ecccccce-eEEEeccc--ccccccccchhhhhhHHhhhhcccceee
Confidence            46789999999999999999999999876543 33333222 23444544  4567999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH-------------
Q 030961           85 LAFSLVSRASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK-------------  150 (168)
Q Consensus        85 ~v~d~~~~~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------  150 (168)
                      +++|.++...+......+........ .+.|+++++||.|+...            ....+......             
T Consensus        86 ~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~------------~~~~~i~~~~~~~~~~~~~~~~~~  153 (186)
T d1f6ba_          86 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA------------ISEERLREMFGLYGQTTGKGSVSL  153 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTC------------CCHHHHHHHHTCTTTCCCSSCCCT
T ss_pred             eeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCcccc------------CCHHHHHHHHhhcccchhhhhhhH
Confidence            99999999998887555555554443 68999999999998764            22333222221             


Q ss_pred             ----HhCCcEEEEecccCccCC
Q 030961          151 ----QIGASYYIECSSKTQQVC  168 (168)
Q Consensus       151 ----~~~~~~~~~~Sa~~~~~i  168 (168)
                          ..+ .++++|||++|+||
T Consensus       154 ~~~~~~~-~~~~~~SA~tg~Gi  174 (186)
T d1f6ba_         154 KELNARP-LEVFMCSVLKRQGY  174 (186)
T ss_dssp             TTCCSCC-EEEEECBTTTTBSH
T ss_pred             HHhhcCC-CEEEEEeCCCCCCH
Confidence                122 37999999999996

>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=99.88  E-value=4.2e-22  Score=137.00  Aligned_cols=117  Identities=16%  Similarity=0.159  Sum_probs=87.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccc-ccccccccCCcEEEEEEe
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYN-RLRPLSYRGADVFVLAFS   88 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~~~~~i~v~d   88 (168)
                      +|+++|++|||||||+++|.++.+... .++.+..+......+...+.+.+||++|++.++ ..+..++..++++++|+|
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D   80 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVD   80 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEEEEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEEEEEEeeeeeeeeeeeeccccccccchhhhhhhhhccccceEEE
Confidence            689999999999999999999887543 455555544333335567788899999998875 467778899999999999


Q ss_pred             CCChhHH-HHHHHhHHHHHchh---CCCCcEEEEeeCCccccc
Q 030961           89 LVSRASY-ENVLKKWIPELQHY---SPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        89 ~~~~~s~-~~~~~~~~~~l~~~---~~~~p~ivv~nK~D~~~~  127 (168)
                      +++..++ ....+.+...+...   ..++|++|++||+|+...
T Consensus        81 ~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a  123 (207)
T d2fh5b1          81 SAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA  123 (207)
T ss_dssp             TTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             cccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCC
Confidence            9997764 44423344443322   246899999999999764

>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=5.4e-23  Score=137.54  Aligned_cols=142  Identities=18%  Similarity=0.101  Sum_probs=87.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccc---------cccccccCC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNR---------LRPLSYRGA   80 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~---------~~~~~~~~~   80 (168)
                      .|+++|.+|||||||+++|++............+.......+......+.+||++|......         .....+..+
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~a   81 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREA   81 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccccccccccccccceeeeeccccccccccccccccccC
Confidence            58999999999999999999865432111111111112223334445677799999533221         222335689


Q ss_pred             cEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           81 DVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        81 ~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      |+++++.+.++......  ..+...+...  +.|+++|+||+|+..+.            ..+...++. +.+..+++++
T Consensus        82 d~i~~~~~~~~~~~~~~--~~~~~~l~~~--~~pviiv~NK~Dl~~~~------------~~~~~~~~~-~~~~~~~i~i  144 (171)
T d1mkya1          82 DLVLFVVDGKRGITKED--ESLADFLRKS--TVDTILVANKAENLREF------------EREVKPELY-SLGFGEPIPV  144 (171)
T ss_dssp             SEEEEEEETTTCCCHHH--HHHHHHHHHH--TCCEEEEEESCCSHHHH------------HHHTHHHHG-GGSSCSCEEC
T ss_pred             cEEEEeecccccccccc--cccccccccc--cccccccchhhhhhhhh------------hhHHHHHHH-hcCCCCeEEE
Confidence            99999999877665543  5666666653  58999999999996542            122222333 3344478999


Q ss_pred             cccCccCC
Q 030961          161 SSKTQQVC  168 (168)
Q Consensus       161 Sa~~~~~i  168 (168)
                      ||++|.||
T Consensus       145 SAk~g~gi  152 (171)
T d1mkya1         145 SAEHNINL  152 (171)
T ss_dssp             BTTTTBSH
T ss_pred             ecCCCCCH
Confidence            99999985

>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=99.86  E-value=1.3e-22  Score=134.14  Aligned_cols=138  Identities=20%  Similarity=0.227  Sum_probs=89.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCcee-eceeEEEEECCeEEEEEEEeCCCCccccc-c--------ccccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVF-DNFSANVVAEGTTVNLGLWDTAGQEDYNR-L--------RPLSY   77 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-~--------~~~~~   77 (168)
                      +||+++|.+|+|||||+|+|++.+... ...+..+ ..........+  ..+.+|||||...... .        ....+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~   78 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEI   78 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC--eeEEeccccccccCCccHHHHHHHHHHHHHH
Confidence            699999999999999999999865322 2122222 22233445555  4566799999532211 1        11125


Q ss_pred             cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEE
Q 030961           78 RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYY  157 (168)
Q Consensus        78 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (168)
                      ..+|++++|+|++++......  .+...+    ...++++++||+|+....            ..++..... ..+ .++
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~~--~~~~~~----~~~~~i~~~~k~d~~~~~------------~~~~~~~~~-~~~-~~~  138 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEEDR--KILERI----KNKRYLVVINKVDVVEKI------------NEEEIKNKL-GTD-RHM  138 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHHH--HHHHHH----TTSSEEEEEEECSSCCCC------------CHHHHHHHH-TCS-TTE
T ss_pred             HhCCEEEEEEeCCCCcchhhh--hhhhhc----ccccceeeeeeccccchh------------hhHHHHHHh-CCC-CcE
Confidence            679999999999988766543  233333    357899999999997653            233332222 123 378


Q ss_pred             EEecccCccCC
Q 030961          158 IECSSKTQQVC  168 (168)
Q Consensus       158 ~~~Sa~~~~~i  168 (168)
                      +++||++|+||
T Consensus       139 ~~vSA~~g~gi  149 (160)
T d1xzpa2         139 VKISALKGEGL  149 (160)
T ss_dssp             EEEEGGGTCCH
T ss_pred             EEEECCCCCCH
Confidence            99999999985

>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=99.86  E-value=9e-22  Score=132.54  Aligned_cols=148  Identities=18%  Similarity=0.087  Sum_probs=94.2

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-e-------EEEEECCeEEEEEEEeCCCCcccccccccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-S-------ANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYR   78 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~-------~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~   78 (168)
                      +.++|+++|.+++|||||+|+|++.........+..... .       .....+  ...+.++|++|+..|.......+.
T Consensus         4 k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~--~~~~~~~d~~g~~~~~~~~~~~l~   81 (179)
T d1wb1a4           4 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLE--NYRITLVDAPGHADLIRAVVSAAD   81 (179)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEET--TEEEEECCCSSHHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccC--Cccccccccccccccccchhhhhh
Confidence            467999999999999999999997543222111111110 0       111223  345667999999988887788889


Q ss_pred             CCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHH---hCCc
Q 030961           79 GADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQ---IGAS  155 (168)
Q Consensus        79 ~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~  155 (168)
                      .+|++++++|+.++...+.  .+....+..  .++|+++|+||+|+.......        ...+..+.+...   ....
T Consensus        82 ~~d~~ilv~d~~~g~~~~~--~~~~~~~~~--~~~p~iiv~NKiD~~~~~~~~--------~~~~~~~~~~~~~~~~~~~  149 (179)
T d1wb1a4          82 IIDLALIVVDAKEGPKTQT--GEHMLILDH--FNIPIIVVITKSDNAGTEEIK--------RTEMIMKSILQSTHNLKNS  149 (179)
T ss_dssp             SCCEEEEEEETTTCSCHHH--HHHHHHHHH--TTCCBCEEEECTTSSCHHHHH--------HHHHHHHHHHHHSSSGGGC
T ss_pred             hccccccccccccccchhh--hhhhhhhhh--cCCcceeccccccccCHHHHH--------HHHHHHHHHHHHhhcCCCC
Confidence            9999999999988654433  233344444  468999999999997654200        011112222221   2224


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|+||
T Consensus       150 ~iv~iSA~~g~gi  162 (179)
T d1wb1a4         150 SIIPISAKTGFGV  162 (179)
T ss_dssp             CEEECCTTTCTTH
T ss_pred             eEEEEEccCCcCH
Confidence            7899999999985

>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=99.85  E-value=1.9e-21  Score=135.03  Aligned_cols=115  Identities=17%  Similarity=0.192  Sum_probs=89.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccccccccccccCCcEEEEE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   86 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   86 (168)
                      ..+||+++|++|||||||+++|..+.+    .||++... ..+.+++  +.+++||++|++.++..|..++.++++++++
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~~~-~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v   77 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGIFE-TKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFV   77 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSCEE-EEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEEEEE
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCeEE-EEEEECc--EEEEEEecCccceeccchhhhcccccceEEE
Confidence            468999999999999999999986654    46666432 2344444  6677899999999999999999999999999


Q ss_pred             EeCCCh----------hHHHHHHHhHHHHHchhC-CCCcEEEEeeCCcccccc
Q 030961           87 FSLVSR----------ASYENVLKKWIPELQHYS-PGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        87 ~d~~~~----------~s~~~~~~~~~~~l~~~~-~~~p~ivv~nK~D~~~~~  128 (168)
                      +|.++.          ....+....|...+.... .++|++|++||+|+...+
T Consensus        78 ~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k  130 (221)
T d1azta2          78 VASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEK  130 (221)
T ss_dssp             EETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHH
T ss_pred             EEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhh
Confidence            998753          234444355666665544 689999999999997654

>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=99.85  E-value=9.5e-22  Score=132.95  Aligned_cols=146  Identities=22%  Similarity=0.177  Sum_probs=91.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccc------------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRL------------   72 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~------------   72 (168)
                      ..+||+++|.+|+|||||+|+|++....  .....+...........++.  .+.++|+||.......            
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~~~d~~g~~~~~~~~~~~~~~~~~~~   84 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNYR   84 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCCc--eeeeeccCCccccccccccccccchhHH
Confidence            4689999999999999999999986542  22222222222233445554  4566899996543222            


Q ss_pred             ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH---
Q 030961           73 RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR---  149 (168)
Q Consensus        73 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~---  149 (168)
                      ....++.+|++++|+|++.+..-..  ..+...+.+  .+.|+++++||+|+.....          ....+..+..   
T Consensus        85 ~~~~~~~~dvii~v~d~~~~~~~~~--~~~~~~~~~--~~~~~i~v~nK~D~~~~~~----------~~~~~~~~~~~~~  150 (186)
T d1mkya2          85 VVDSIEKADVVVIVLDATQGITRQD--QRMAGLMER--RGRASVVVFNKWDLVVHRE----------KRYDEFTKLFREK  150 (186)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHH--HHHHHHHHH--TTCEEEEEEECGGGSTTGG----------GCHHHHHHHHHHH
T ss_pred             HHHHHhcCCEEEEeecccccchhhH--HHHHHHHHH--cCCceeeeccchhhhcchh----------hhhhhHHHHHHHH
Confidence            2223467999999999987655443  455555555  4689999999999876543          2222222222   


Q ss_pred             -HHhCCcEEEEecccCccCC
Q 030961          150 -KQIGASYYIECSSKTQQVC  168 (168)
Q Consensus       150 -~~~~~~~~~~~Sa~~~~~i  168 (168)
                       ...+..+++++||++|.||
T Consensus       151 ~~~~~~~~i~~vSa~~g~gv  170 (186)
T d1mkya2         151 LYFIDYSPLIFTSADKGWNI  170 (186)
T ss_dssp             CGGGTTSCEEECBTTTTBSH
T ss_pred             hcccCCCeEEEEeCCCCCCH
Confidence             2344557899999999985

>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=99.84  E-value=2e-21  Score=135.48  Aligned_cols=116  Identities=18%  Similarity=0.162  Sum_probs=80.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-e----------------EEEEECCeEEEEEEEeCCCCccccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-S----------------ANVVAEGTTVNLGLWDTAGQEDYNR   71 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~----------------~~~~~~~~~~~~~i~D~~g~~~~~~   71 (168)
                      +.|+++|++++|||||+++|++........+..+... .                ....+......+.++||||+..|..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~   85 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTT   85 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTT
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccc
Confidence            3499999999999999999987432111111111100 0                0011233445677899999999988


Q ss_pred             cccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccc
Q 030961           72 LRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDK  128 (168)
Q Consensus        72 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~  128 (168)
                      .....+..+|++++|+|+.++.....  +..+..+..  .++|+++++||+|+....
T Consensus        86 ~~~~~~~~~D~~ilVvda~~g~~~~~--~~~~~~~~~--~~~p~iivlNK~D~~~~~  138 (227)
T d1g7sa4          86 LRKRGGALADLAILIVDINEGFKPQT--QEALNILRM--YRTPFVVAANKIDRIHGW  138 (227)
T ss_dssp             SBCSSSBSCSEEEEEEETTTCCCHHH--HHHHHHHHH--TTCCEEEEEECGGGSTTC
T ss_pred             cchhcccccceEEEEEecccCcccch--hHHHHHhhc--CCCeEEEEEECccCCCch
Confidence            88888999999999999988665554  455555555  368999999999987653

>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=99.83  E-value=2.2e-20  Score=125.81  Aligned_cols=139  Identities=17%  Similarity=0.145  Sum_probs=85.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccc---------------cccc
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYN---------------RLRP   74 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~---------------~~~~   74 (168)
                      .|+++|.||||||||+|+|++.+......+..+.. ...+...    .+.+|||||.....               ....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~-~~~~~~~----~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~   76 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRK-IIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIE   76 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTS-CEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeec-ccccccc----cceecccCCceeccccccccccccchhhhhhhh
Confidence            58999999999999999999877644333322222 1122222    24679999953221               1123


Q ss_pred             ccccCCcEEEEEEeCCChhHHHHH---------HHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHH
Q 030961           75 LSYRGADVFVLAFSLVSRASYENV---------LKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQG  145 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~~s~~~~---------~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  145 (168)
                      ..++.+|++++|+|+.++......         ...+++.+..  .++|+++|+||+|+.....             +..
T Consensus        77 ~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~--~~~p~iiv~NK~D~~~~~~-------------~~~  141 (184)
T d2cxxa1          77 DNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE--LDIPTIVAVNKLDKIKNVQ-------------EVI  141 (184)
T ss_dssp             HHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH--TTCCEEEEEECGGGCSCHH-------------HHH
T ss_pred             hcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH--cCCCEEEEEeeeehhhhHH-------------HHH
Confidence            345679999999998765433221         0123333433  4689999999999875532             122


Q ss_pred             HHHHHHhCC------cEEEEecccCccCC
Q 030961          146 EELRKQIGA------SYYIECSSKTQQVC  168 (168)
Q Consensus       146 ~~~~~~~~~------~~~~~~Sa~~~~~i  168 (168)
                      ..+...++.      ..++++||++|+||
T Consensus       142 ~~~~~~~~~~~~~~~~~~~~vSA~~g~gi  170 (184)
T d2cxxa1         142 NFLAEKFEVPLSEIDKVFIPISAKFGDNI  170 (184)
T ss_dssp             HHHHHHHTCCGGGHHHHEEECCTTTCTTH
T ss_pred             HHHHHHhcccccccCCeEEEEECCCCCCH
Confidence            222222222      24789999999985

>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=99.81  E-value=7e-21  Score=128.60  Aligned_cols=144  Identities=16%  Similarity=0.113  Sum_probs=82.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc----cccccc---cccCCcE
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY----NRLRPL---SYRGADV   82 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~~~~~~---~~~~~~~   82 (168)
                      .|+++|.+|||||||+|+|.+.+......+..+...............+.+|||||....    ..+...   .+..++.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~   82 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRV   82 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCE
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCCcEEEEecCCCcccCchHHHHHHHHHHHHHHHhhh
Confidence            689999999999999999988764322222222222222222122234667999995322    112222   2346788


Q ss_pred             EEEEEeCCChhHHHH-----HHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh--CCc
Q 030961           83 FVLAFSLVSRASYEN-----VLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI--GAS  155 (168)
Q Consensus        83 ~i~v~d~~~~~s~~~-----~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~  155 (168)
                      ++++++....+....     ....+.........++|+++|+||+|+....              +..+.+.+.+  +. 
T Consensus        83 i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~--------------~~~~~~~~~~~~~~-  147 (185)
T d1lnza2          83 IVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA--------------ENLEAFKEKLTDDY-  147 (185)
T ss_dssp             EEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH--------------HHHHHHHHHCCSCC-
T ss_pred             hhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHH--------------HHHHHHHHHhccCC-
Confidence            888887654322111     1011111111112468999999999996542              2233344433  33 


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|+||
T Consensus       148 ~v~~iSA~~g~Gi  160 (185)
T d1lnza2         148 PVFPISAVTREGL  160 (185)
T ss_dssp             CBCCCSSCCSSTT
T ss_pred             cEEEEECCCCCCH
Confidence            7899999999996

>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=4.7e-20  Score=125.51  Aligned_cols=144  Identities=16%  Similarity=0.116  Sum_probs=83.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeecee-EEEEECCeEEEEEEEeCCCCccccc-------------c
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVVAEGTTVNLGLWDTAGQEDYNR-------------L   72 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~-------------~   72 (168)
                      ...+|+++|.+|||||||+|+|++.+.........+.... .......   .+.+.|++|......             .
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~d~~~~~~~~~~~~~~~~~~~~~~~   98 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIET   98 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccccc---cceEEEEEeeccccccccccchhhhHHhh
Confidence            3458999999999999999999986532222222211111 1122221   233466665322111             1


Q ss_pred             ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh
Q 030961           73 RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI  152 (168)
Q Consensus        73 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (168)
                      .......++++++++|++++..-..  .++++.+..  .++|+++|+||+|+.+...           ..+..+.+.+.+
T Consensus        99 ~~~~~~~~~~vi~viD~~~~~~~~~--~~~~~~l~~--~~~piivv~NK~D~~~~~~-----------~~~~~~~~~~~l  163 (195)
T d1svia_          99 YITTREELKAVVQIVDLRHAPSNDD--VQMYEFLKY--YGIPVIVIATKADKIPKGK-----------WDKHAKVVRQTL  163 (195)
T ss_dssp             HHHHCTTEEEEEEEEETTSCCCHHH--HHHHHHHHH--TTCCEEEEEECGGGSCGGG-----------HHHHHHHHHHHH
T ss_pred             hhccccchhhhhhhhhccccccccc--ccccccccc--ccCcceechhhccccCHHH-----------HHHHHHHHHHHh
Confidence            1223456789999999977654332  456666665  3689999999999875532           122333333332


Q ss_pred             ---CCcEEEEecccCccCC
Q 030961          153 ---GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 ---~~~~~~~~Sa~~~~~i  168 (168)
                         ...+++++||++|+||
T Consensus       164 ~~~~~~~~~~~SA~~~~gi  182 (195)
T d1svia_         164 NIDPEDELILFSSETKKGK  182 (195)
T ss_dssp             TCCTTSEEEECCTTTCTTH
T ss_pred             cccCCCCEEEEeCCCCCCH
Confidence               3347999999999985

>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=99.81  E-value=2.8e-20  Score=126.78  Aligned_cols=154  Identities=15%  Similarity=0.054  Sum_probs=97.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCC---CC--ceeece---eEE-----------------EEECCeEEEEE
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDY---IP--TVFDNF---SAN-----------------VVAEGTTVNLG   59 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~---~~--~~~~~~---~~~-----------------~~~~~~~~~~~   59 (168)
                      +++.++|+++|+.++|||||+++|.+.......   ..  +....+   ...                 .........+.
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            567889999999999999999999864221100   00  000000   000                 00122346688


Q ss_pred             EEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCc
Q 030961           60 LWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVP  139 (168)
Q Consensus        60 i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~  139 (168)
                      ++||||+..|.......+..+|++++|+|+.++...... .+.+..+... ...+++++.||+|+.+.....        
T Consensus        82 ~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t-~e~~~~~~~~-~~~~iiv~inK~D~~d~~~~~--------  151 (195)
T d1kk1a3          82 FIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQT-REHLMALQII-GQKNIIIAQNKIELVDKEKAL--------  151 (195)
T ss_dssp             EEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHH-HHHHHHHHHH-TCCCEEEEEECGGGSCHHHHH--------
T ss_pred             eeccchhhhhhHHhhcccccccccccccchhhhhhhhhh-HHHHHHHHHh-cCccceeeeecccchhhHHHH--------
Confidence            899999999988888888899999999999876432222 3334444443 234678899999998654200        


Q ss_pred             ccHHHHHHHHHHhC--CcEEEEecccCccCC
Q 030961          140 VTTAQGEELRKQIG--ASYYIECSSKTQQVC  168 (168)
Q Consensus       140 ~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~i  168 (168)
                      ...+...++...++  .++++++||++|+||
T Consensus       152 ~~~~~~~~~~~~~~~~~~~iIpiSA~~G~ni  182 (195)
T d1kk1a3         152 ENYRQIKEFIEGTVAENAPIIPISALHGANI  182 (195)
T ss_dssp             HHHHHHHHHHTTSTTTTCCEEECBTTTTBSH
T ss_pred             HHHHHHHHHhccccCCCCeEEEEECCCCCCH
Confidence            11223334443332  247999999999985

>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=99.79  E-value=1.5e-18  Score=120.05  Aligned_cols=154  Identities=14%  Similarity=0.112  Sum_probs=99.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--CCCCC----------CCCce-------------------eece-eEEEEEC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--KFPTD----------YIPTV-------------------FDNF-SANVVAE   52 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--~~~~~----------~~~~~-------------------~~~~-~~~~~~~   52 (168)
                      ++..++|+++|+.++|||||+.+|+..  .+...          ...+.                   +... .......
T Consensus         6 ~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~~   85 (222)
T d1zunb3           6 RKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS   85 (222)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE
T ss_pred             cCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEEe
Confidence            457899999999999999999999642  11000          00000                   0000 0111122


Q ss_pred             CeEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhh
Q 030961           53 GTTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYL  131 (168)
Q Consensus        53 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~  131 (168)
                      .....+.++|+||+..|.......+..+|++++|+|+.+...-+.  .+.+..+..  .+++ ++++.||+|+.+.....
T Consensus        86 ~~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt--~e~~~~~~~--~gv~~iiv~vNK~D~~~~~~~~  161 (222)
T d1zunb3          86 TAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQT--RRHSYIASL--LGIKHIVVAINKMDLNGFDERV  161 (222)
T ss_dssp             CSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHH--HHHHHHHHH--TTCCEEEEEEECTTTTTSCHHH
T ss_pred             ccceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccch--HHHHHHHHH--cCCCEEEEEEEcccccccccee
Confidence            234567789999999998877778899999999999987654443  333344443  2444 78999999998654311


Q ss_pred             hcCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          132 ADHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      .+      ...++...+....+.    ++|+++||.+|+||
T Consensus       162 ~~------~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni  196 (222)
T d1zunb3         162 FE------SIKADYLKFAEGIAFKPTTMAFVPMSALKGDNV  196 (222)
T ss_dssp             HH------HHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTT
T ss_pred             hh------hhHHHHhhhhHhhccCCCceEEEEEEcccCccC
Confidence            11      233445566665544    47899999999986

>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=99.78  E-value=1.1e-18  Score=116.88  Aligned_cols=145  Identities=16%  Similarity=0.082  Sum_probs=93.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCC-CCceeece-eEEEEECCeEEEEEEEeCCCCcc---------ccccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDY-IPTVFDNF-SANVVAEGTTVNLGLWDTAGQED---------YNRLRPL   75 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~   75 (168)
                      +.-.|+++|.+|||||||+|+|++.+..... .+...... ......+..  .+..||++|...         .......
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAY--QAIYVDTPGLHMEEKRAINRLMNKAASS   81 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETTE--EEEEESSSSCCHHHHHHHHHHHTCCTTS
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCCc--eeEeecCCCceecchhhhhhhhhhcccc
Confidence            3446899999999999999999987643221 22222222 222233333  344588887432         1223333


Q ss_pred             cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCc
Q 030961           76 SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGAS  155 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (168)
                      ....+++++++.|..+.....   ..+...+.+  ...|.++++||+|......          ......+.+...++..
T Consensus        82 ~~~~~~~~l~~~d~~~~~~~~---~~~~~~l~~--~~~~~i~v~~k~d~~~~~~----------~~~~~~~~~~~~~~~~  146 (179)
T d1egaa1          82 SIGDVELVIFVVEGTRWTPDD---EMVLNKLRE--GKAPVILAVNKVDNVQEKA----------DLLPHLQFLASQMNFL  146 (179)
T ss_dssp             CCCCEEEEEEEEETTCCCHHH---HHHHHHHHS--SSSCEEEEEESTTTCCCHH----------HHHHHHHHHHTTSCCS
T ss_pred             chhhcceeEEEEecCccchhH---HHHHHHhhh--ccCceeeeeeeeeccchhh----------hhhhHhhhhhhhcCCC
Confidence            445688888899976544332   223333333  3578999999999887654          4456667777788877


Q ss_pred             EEEEecccCccCC
Q 030961          156 YYIECSSKTQQVC  168 (168)
Q Consensus       156 ~~~~~Sa~~~~~i  168 (168)
                      +++++||++|+||
T Consensus       147 ~~~~vSA~~g~gi  159 (179)
T d1egaa1         147 DIVPISAETGLNV  159 (179)
T ss_dssp             EEEECCTTTTTTH
T ss_pred             CEEEEeCcCCCCH
Confidence            9999999999985

>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=99.77  E-value=4e-19  Score=121.87  Aligned_cols=153  Identities=14%  Similarity=0.042  Sum_probs=93.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCC---CCCCceeec--e-eEEEE------------------------ECCeE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPT---DYIPTVFDN--F-SANVV------------------------AEGTT   55 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~---~~~~~~~~~--~-~~~~~------------------------~~~~~   55 (168)
                      ++.++|+++|+.++|||||+++|++..-..   .........  . .....                        .....
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFL   85 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEE
T ss_pred             CCCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccce
Confidence            455899999999999999999998632110   000000000  0 00000                        01123


Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCC
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHP  135 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  135 (168)
                      ..+.++|+||+..|.......+..+|++++|+|+.+...-... ++.+..+... .-.|++|+.||+|+.......    
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t-~e~~~~~~~~-~i~~iIV~vNK~Dl~~~~~~~----  159 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQT-REHFVALGII-GVKNLIIVQNKVDVVSKEEAL----  159 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHH-HHHHHHHHHT-TCCCEEEEEECGGGSCHHHHH----
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhH-HHHHHHHHHc-CCceeeeccccCCCccchHHH----
Confidence            5688999999999987777778899999999999876422222 3344444432 235889999999997664311    


Q ss_pred             CCCcccHHHHHHHHHHhC--CcEEEEecccCccCC
Q 030961          136 GLVPVTTAQGEELRKQIG--ASYYIECSSKTQQVC  168 (168)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~i  168 (168)
                          ........+.....  ..+++++||++|.||
T Consensus       160 ----~~~~~~~~~l~~~~~~~~p~ipiSA~~g~nI  190 (205)
T d2qn6a3         160 ----SQYRQIKQFTKGTWAENVPIIPVSALHKINI  190 (205)
T ss_dssp             ----HHHHHHHHHHTTSTTTTCCEEECBTTTTBSH
T ss_pred             ----HHHHHHHHHhccccCCCCeEEEEeCCCCCCh
Confidence                11222233332222  247999999999985

>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=99.77  E-value=3.6e-19  Score=121.03  Aligned_cols=148  Identities=18%  Similarity=0.141  Sum_probs=97.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC-----C--C---------CCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN-----K--F---------PTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYN   70 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~-----~--~---------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   70 (168)
                      +-++|+++|+.++|||||+++|++.     .  .         .......++.+ ............+.++||||+..|.
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~-~~~~~~~~~~~~~~~iDtPGh~~f~   80 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITIN-AAHVEYSTAARHYAHTDCPGHADYV   80 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEE-CEEEEEECSSCEEEEEECSSHHHHH
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCC-cceEEEEeceeeEEeecCcchHHHH
Confidence            4589999999999999999999741     0  0         00000111111 1122334445667789999999988


Q ss_pred             ccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHH
Q 030961           71 RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRK  150 (168)
Q Consensus        71 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (168)
                      ......+..+|++++|+|+.++..-+.  .+.+..+... .-.|++|+.||+|+..+... .      .....+.+.+..
T Consensus        81 ~~~~~~~~~aD~allVVda~~G~~~QT--~~~~~~a~~~-~~~~iIv~iNK~D~~~~~~~-~------~~i~~~i~~~l~  150 (196)
T d1d2ea3          81 KNMITGTAPLDGCILVVAANDGPMPQT--REHLLLARQI-GVEHVVVYVNKADAVQDSEM-V------ELVELEIRELLT  150 (196)
T ss_dssp             HHHHHTSSCCSEEEEEEETTTCSCHHH--HHHHHHHHHT-TCCCEEEEEECGGGCSCHHH-H------HHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCeEEEEEEcCCCCchhH--HHHHHHHHHh-cCCcEEEEEecccccccHHH-H------HHHHHHHHHHHH
Confidence            877788899999999999988765433  3444444443 23588999999999754320 0      023345566666


Q ss_pred             HhCC----cEEEEecccCc
Q 030961          151 QIGA----SYYIECSSKTQ  165 (168)
Q Consensus       151 ~~~~----~~~~~~Sa~~~  165 (168)
                      .++.    .+++++||++|
T Consensus       151 ~~~~~~~~~pii~iSa~~g  169 (196)
T d1d2ea3         151 EFGYKGEETPIIVGSALCA  169 (196)
T ss_dssp             HTTSCTTTSCEEECCHHHH
T ss_pred             HhCCCcccCEEEEEEcccc
Confidence            5654    57999999987

>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=99.75  E-value=1.8e-18  Score=118.41  Aligned_cols=115  Identities=13%  Similarity=0.111  Sum_probs=78.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCcccccccccc----ccCCcE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRPLS----YRGADV   82 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~----~~~~~~   82 (168)
                      +++.|+++|+||||||||+|+|++..+..    +.+... ....++.....+.+||+||++.+...+..+    ...++.
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~~----~tt~~~-~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~   76 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVRP----TVVSQE-PLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKG   76 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCC----BCCCSS-CEEETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCC----eEEecc-eEEEEEeCCeEEEEEecccccchhhHHHHHHHHHhhhccc
Confidence            56799999999999999999999987532    222111 122334444556789999998876655444    345688


Q ss_pred             EEEEEeCCC-hhHHHHHHHhHH----HHHchhC-CCCcEEEEeeCCccccc
Q 030961           83 FVLAFSLVS-RASYENVLKKWI----PELQHYS-PGVPVVLVGTKLDLRED  127 (168)
Q Consensus        83 ~i~v~d~~~-~~s~~~~~~~~~----~~l~~~~-~~~p~ivv~nK~D~~~~  127 (168)
                      +++++|+.+ ..++... ..|+    ..+.... .++|+++++||+|+...
T Consensus        77 ~i~~vd~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~  126 (209)
T d1nrjb_          77 LIFMVDSTVDPKKLTTT-AEFLVDILSITESSCENGIDILIACNKSELFTA  126 (209)
T ss_dssp             EEEEEETTSCTTCCHHH-HHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             cceEEEEecccccHHHH-HHHHHHHHHHHHHHHhccCCeEEEEEeeccccc
Confidence            888888764 4455554 3333    3333333 57999999999999765

>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=99.75  E-value=2.5e-18  Score=117.66  Aligned_cols=148  Identities=20%  Similarity=0.171  Sum_probs=95.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC-----CCCC-C------CCCce---eece-eEEEEECCeEEEEEEEeCCCCcccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN-----KFPT-D------YIPTV---FDNF-SANVVAEGTTVNLGLWDTAGQEDYN   70 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~-----~~~~-~------~~~~~---~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~   70 (168)
                      +.++|+++|+.++|||||+++|+..     .... .      ..+..   +... .....+.....++.++||||+..|.
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~   81 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYI   81 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGH
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhH
Confidence            4689999999999999999999632     0000 0      00000   1111 1222333344566779999999998


Q ss_pred             ccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH
Q 030961           71 RLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR  149 (168)
Q Consensus        71 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (168)
                      ......++.+|++++|+|+.++...+.  .+.+..+...  ++| ++++.||+|+.+.....       ....++.+.+.
T Consensus        82 ~~~~~~~~~aD~avlVvda~~Gv~~qt--~~~~~~~~~~--gi~~iiv~iNK~D~~~~~~~~-------~~~~~~i~~~l  150 (204)
T d2c78a3          82 KNMITGAAQMDGAILVVSAADGPMPQT--REHILLARQV--GVPYIVVFMNKVDMVDDPELL-------DLVEMEVRDLL  150 (204)
T ss_dssp             HHHHHHHTTCSSEEEEEETTTCCCHHH--HHHHHHHHHT--TCCCEEEEEECGGGCCCHHHH-------HHHHHHHHHHH
T ss_pred             HHHHHHHHHCCEEEEEEECCCCCcHHH--HHHHHHHHHc--CCCeEEEEEEecccCCCHHHH-------HHHHHHHHHHH
Confidence            888888999999999999998877665  3444444442  565 77889999986543200       02234455555


Q ss_pred             HHhCC----cEEEEecccCc
Q 030961          150 KQIGA----SYYIECSSKTQ  165 (168)
Q Consensus       150 ~~~~~----~~~~~~Sa~~~  165 (168)
                      ..++.    .++++.|+..+
T Consensus       151 ~~~~~~~~~i~~i~~sa~~~  170 (204)
T d2c78a3         151 NQYEFPGDEVPVIRGSALLA  170 (204)
T ss_dssp             HHTTSCTTTSCEEECCHHHH
T ss_pred             HhcCCCcccceeeeeechhh
Confidence            54443    46888888655

>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=99.66  E-value=1.3e-16  Score=111.43  Aligned_cols=154  Identities=12%  Similarity=0.050  Sum_probs=97.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcC--CCC----------------CC-------------CCCceeeceeEEEEECC
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTSN--KFP----------------TD-------------YIPTVFDNFSANVVAEG   53 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~~--~~~----------------~~-------------~~~~~~~~~~~~~~~~~   53 (168)
                      +++.++|+++|+.++|||||+-+|+..  ...                ..             ....++.... ...+..
T Consensus         3 ~k~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~-~~~~~~   81 (239)
T d1f60a3           3 EKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIA-LWKFET   81 (239)
T ss_dssp             CCEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCS-CEEEEC
T ss_pred             CCCccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccc-eeEecc
Confidence            345689999999999999999998631  110                00             0001111111 111222


Q ss_pred             eEEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHH------HHHHHhHHHHHchhCCCCc-EEEEeeCCcccc
Q 030961           54 TTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASY------ENVLKKWIPELQHYSPGVP-VVLVGTKLDLRE  126 (168)
Q Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~------~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~~  126 (168)
                      ...++.+.|+||+..|...+...+..+|++++|+|+....--      ... .+.+.....  -++| ++++.||+|+.+
T Consensus        82 ~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT-~eh~~~~~~--~gv~~iiv~iNKmD~~~  158 (239)
T d1f60a3          82 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQT-REHALLAFT--LGVRQLIVAVNKMDSVK  158 (239)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHH-HHHHHHHHH--TTCCEEEEEEECGGGGT
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhH-HHHHHHHHH--cCCCeEEEEEECCCCCC
Confidence            346788899999999988888889999999999999865321      012 222233333  2455 788999999876


Q ss_pred             cchhhhcCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          127 DKHYLADHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      .+....      ....++...+....+.    ++|+++|+..|+|+
T Consensus       159 ~d~~~~------~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni  198 (239)
T d1f60a3         159 WDESRF------QEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNM  198 (239)
T ss_dssp             TCHHHH------HHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTT
T ss_pred             CCHHHH------HHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCcc
Confidence            543110      0233455566655554    47899999999985

>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=99.65  E-value=4.1e-17  Score=109.51  Aligned_cols=153  Identities=14%  Similarity=-0.020  Sum_probs=76.6

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeece-eEEEEECCeEEEEEEEeCCCCcccccc----------
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVVAEGTTVNLGLWDTAGQEDYNRL----------   72 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~----------   72 (168)
                      +++..++|+++|.+|||||||+|++.+.+.........+... ............+..++.++.......          
T Consensus        12 p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (188)
T d1puia_          12 PSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRALGE   91 (188)
T ss_dssp             SCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHHHHH
T ss_pred             CCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeeecccccchhhhhhhhhhhhhhh
Confidence            356789999999999999999999998765433222222222 112222222222222222222111111          


Q ss_pred             ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHh
Q 030961           73 RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQI  152 (168)
Q Consensus        73 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (168)
                      ..........++.+.+.........  ..++..+..  ...++++++||+|+.......        ...++.++....+
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~--~~~~~~~v~~k~D~~~~~~~~--------~~~~~~~~~l~~~  159 (188)
T d1puia_          92 YLEKRQSLQGLVVLMDIRHPLKDLD--QQMIEWAVD--SNIAVLVLLTKADKLASGARK--------AQLNMVREAVLAF  159 (188)
T ss_dssp             HHHHCTTEEEEEEEEETTSCCCHHH--HHHHHHHHH--TTCCEEEEEECGGGSCHHHHH--------HHHHHHHHHHGGG
T ss_pred             hhhhhhheeEEEEeecccccchhHH--HHHHHHhhh--ccccccchhhhhhccCHHHHH--------HHHHHHHHHHHhh
Confidence            1111223445555666555443333  344555544  368899999999987654300        1122222222222


Q ss_pred             -CCcEEEEecccCccCC
Q 030961          153 -GASYYIECSSKTQQVC  168 (168)
Q Consensus       153 -~~~~~~~~Sa~~~~~i  168 (168)
                       +..+++++||++|+||
T Consensus       160 ~~~~~~i~vSA~~g~Gi  176 (188)
T d1puia_         160 NGDVQVETFSSLKKQGV  176 (188)
T ss_dssp             CSCEEEEECBTTTTBSH
T ss_pred             CCCCcEEEEeCCCCCCH
Confidence             3457899999999986

>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=99.64  E-value=1.8e-15  Score=105.96  Aligned_cols=156  Identities=16%  Similarity=0.081  Sum_probs=81.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCC--CCC----------------------CCCCcee-eceeEE-----EEECCeE
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNK--FPT----------------------DYIPTVF-DNFSAN-----VVAEGTT   55 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~--~~~----------------------~~~~~~~-~~~~~~-----~~~~~~~   55 (168)
                      ++.++|+++|+.++|||||+.+|+...  ...                      ....... ......     .......
T Consensus        22 k~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~  101 (245)
T d1r5ba3          22 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH  101 (245)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS
T ss_pred             CCceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccccccc
Confidence            356789999999999999999995311  000                      0000000 000000     1112233


Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHH------HHHHhHHHHHchhCCCC-cEEEEeeCCcccccc
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYE------NVLKKWIPELQHYSPGV-PVVLVGTKLDLREDK  128 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~------~~~~~~~~~l~~~~~~~-p~ivv~nK~D~~~~~  128 (168)
                      ..+.+.|+||+..|..........+|++++|+|+.+..--.      .. .+.+..+...  ++ +++++.||+|+....
T Consensus       102 ~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT-~e~l~l~~~~--~i~~iiv~iNKmD~~~~~  178 (245)
T d1r5ba3         102 RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQT-REHAVLARTQ--GINHLVVVINKMDEPSVQ  178 (245)
T ss_dssp             EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCH-HHHHHHHHHT--TCSSEEEEEECTTSTTCS
T ss_pred             ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccch-HHHHHHHHHc--CCCeEEEEEEcCCCCccc
Confidence            56788999999999988888889999999999998753111      11 2223333332  34 588999999987432


Q ss_pred             hhhhcCCCCCcccHHHHHHHHHHh-C-----CcEEEEecccCccCC
Q 030961          129 HYLADHPGLVPVTTAQGEELRKQI-G-----ASYYIECSSKTQQVC  168 (168)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~-~-----~~~~~~~Sa~~~~~i  168 (168)
                      ....    ......++...+.... +     .++|+++||++|+||
T Consensus       179 ~~e~----~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI  220 (245)
T d1r5ba3         179 WSEE----RYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNV  220 (245)
T ss_dssp             SCHH----HHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTT
T ss_pred             hhHH----HHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCc
Confidence            1000    0001122333333332 1     147999999999997

>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=99.62  E-value=1e-15  Score=105.97  Aligned_cols=156  Identities=13%  Similarity=0.061  Sum_probs=93.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC--CCCC-----------------------------CCCCceeeceeEEEEECCeE
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN--KFPT-----------------------------DYIPTVFDNFSANVVAEGTT   55 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~   55 (168)
                      +.++|+++|+-++|||||+.+|+..  ....                             ......... ......+...
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~-~~~~~~~~~~   80 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTIN-LTFMRFETKK   80 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC------------CEEECSS
T ss_pred             CccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCcccc-ceEEEEecCC
Confidence            4689999999999999999998631  0000                             000000000 0011123334


Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHH-----HHHhHHHHHchhCCCCcEEEEeeCCcccccchh
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYEN-----VLKKWIPELQHYSPGVPVVLVGTKLDLREDKHY  130 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~-----~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~  130 (168)
                      ..+.++||||+..|.......++-+|++++|+|+.+...-..     ...+.+..... ....+++++.||+|+......
T Consensus        81 ~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~-~~~~~iIv~iNK~D~~~~~~~  159 (224)
T d1jnya3          81 YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKT-MGLDQLIVAVNKMDLTEPPYD  159 (224)
T ss_dssp             CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHH-TTCTTCEEEEECGGGSSSTTC
T ss_pred             ceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHH-hCCCceEEEEEcccCCCcccc
Confidence            667889999999999988888999999999999988643211     00122222222 123578889999998754220


Q ss_pred             hhcCCCCCcccHHHHHHHHHHhCC----cEEEEecccCccCC
Q 030961          131 LADHPGLVPVTTAQGEELRKQIGA----SYYIECSSKTQQVC  168 (168)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i  168 (168)
                      ..    .......+...+...++.    .+++++||.+|.||
T Consensus       160 ~~----~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV  197 (224)
T d1jnya3         160 EK----RYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNI  197 (224)
T ss_dssp             HH----HHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTT
T ss_pred             HH----HHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCc
Confidence            00    000122334444444433    47899999999986

>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=99.57  E-value=8.7e-15  Score=103.59  Aligned_cols=132  Identities=15%  Similarity=0.121  Sum_probs=89.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC--CCCC---CCCCceeece------------eEEEEECCeEEEEEEEeCCCCccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN--KFPT---DYIPTVFDNF------------SANVVAEGTTVNLGLWDTAGQEDY   69 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~--~~~~---~~~~~~~~~~------------~~~~~~~~~~~~~~i~D~~g~~~~   69 (168)
                      +.-+|+++|+.++|||||+.+++..  ....   ....+...++            ...........++.++||||+..|
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF   84 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDF   84 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETTEEEEEECCCSSSSC
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCCeEEEEecCCchhhh
Confidence            4457999999999999999998642  1110   0011111110            011223334566788999999999


Q ss_pred             cccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHH
Q 030961           70 NRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELR  149 (168)
Q Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (168)
                      .......++-+|++++|+|+.++-..... .-| ....+  .++|.++++||.|....+.            .+-..++.
T Consensus        85 ~~e~~~~l~~~D~avlVvda~~Gv~~~T~-~~w-~~a~~--~~lP~i~fINKmDr~~ad~------------~~~l~ei~  148 (276)
T d2bv3a2          85 TIEVERSMRVLDGAIVVFDSSQGVEPQSE-TVW-RQAEK--YKVPRIAFANKMDKTGADL------------WLVIRTMQ  148 (276)
T ss_dssp             STTHHHHHHHCCEEEEEEETTTSSCHHHH-HHH-HHHHT--TTCCEEEEEECTTSTTCCH------------HHHHHHHH
T ss_pred             HHHHHHHHHhhhheEEeccccCCcchhHH-HHH-HHHHH--cCCCEEEEEeccccccccc------------chhHHHHH
Confidence            99999999999999999999998777764 344 44444  3799999999999987643            34455555


Q ss_pred             HHhCC
Q 030961          150 KQIGA  154 (168)
Q Consensus       150 ~~~~~  154 (168)
                      ..++.
T Consensus       149 ~~l~~  153 (276)
T d2bv3a2         149 ERLGA  153 (276)
T ss_dssp             HTTCC
T ss_pred             HHhCC
Confidence            56665

>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=99.53  E-value=3.4e-14  Score=100.09  Aligned_cols=120  Identities=13%  Similarity=0.099  Sum_probs=71.5

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCC-C-CceeeceeEEEEECCeEEEEEEEeCCCCcccccccc---------
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTDY-I-PTVFDNFSANVVAEGTTVNLGLWDTAGQEDYNRLRP---------   74 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~---------   74 (168)
                      ...++|+++|.+|+|||||+|.+++....... . ++...........++  ..+.++||||-........         
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g--~~i~viDTPGl~~~~~~~~~~~~~i~~~  107 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSF  107 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEecc--EEEEEEeeecccCCcchHHHHHHHHHHH
Confidence            35799999999999999999999987643222 2 222222233444555  4577799999543211111         


Q ss_pred             ccccCCcEEEEEEeCCCh-hHHHHHHHhHHHHHchhC-C--CCcEEEEeeCCcccccch
Q 030961           75 LSYRGADVFVLAFSLVSR-ASYENVLKKWIPELQHYS-P--GVPVVLVGTKLDLREDKH  129 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~-~s~~~~~~~~~~~l~~~~-~--~~p~ivv~nK~D~~~~~~  129 (168)
                      ......+++++|++.+.. -+-..  ...+..+.... .  -.+++||.||+|...++.
T Consensus       108 ~~~~~~~~il~v~~~~~~r~~~~~--~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~  164 (257)
T d1h65a_         108 LLDKTIDVLLYVDRLDAYRVDNLD--KLVAKAITDSFGKGIWNKAIVALTHAQFSPPDG  164 (257)
T ss_dssp             TTTCEECEEEEEEESSCCCCCHHH--HHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGG
T ss_pred             HhcCCCCeEEEEEECCCCCCCHHH--HHHHHHHHHHcchhhhhCEEEEEECcccCCcCC
Confidence            112356888888887542 12111  22333333322 1  257899999999886543

>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=99.51  E-value=2.8e-14  Score=100.68  Aligned_cols=114  Identities=18%  Similarity=0.078  Sum_probs=79.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCC--CCC---CCCC-cee----------ece-eEEEEECCeEEEEEEEeCCCCccccc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNK--FPT---DYIP-TVF----------DNF-SANVVAEGTTVNLGLWDTAGQEDYNR   71 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~--~~~---~~~~-~~~----------~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~   71 (168)
                      -+|+++|+.++|||||+.+++...  ...   .... +..          ... ...........++.++||||+..|..
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~~~~n~iDtPGh~dF~~   82 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVG   82 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHH
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccccceeEEccCchhhhhh
Confidence            469999999999999999986321  100   0000 100          011 11122233345677899999999999


Q ss_pred             cccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           72 LRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        72 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      .....++-+|++++|+|+.++......  ...+.+.+  .++|.+++.||+|...
T Consensus        83 e~~~al~~~D~avlvvda~~Gv~~~t~--~~~~~~~~--~~~p~~i~iNk~D~~~  133 (267)
T d2dy1a2          83 EIRGALEAADAALVAVSAEAGVQVGTE--RAWTVAER--LGLPRMVVVTKLDKGG  133 (267)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCSCHHHH--HHHHHHHH--TTCCEEEEEECGGGCC
T ss_pred             hhhhhhcccCceEEEeeccCCccchhH--HHHHhhhh--cccccccccccccccc
Confidence            888999999999999999988777663  34444544  3689999999999743

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.50  E-value=1.1e-14  Score=105.98  Aligned_cols=118  Identities=11%  Similarity=0.103  Sum_probs=81.8

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcC--CCCCC---------CC-----Cceeecee-EEEE--------------ECCe
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSN--KFPTD---------YI-----PTVFDNFS-ANVV--------------AEGT   54 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~--~~~~~---------~~-----~~~~~~~~-~~~~--------------~~~~   54 (168)
                      +..-+|+++|+.++|||||+.+|+..  .....         +.     ..++.... ....              .++.
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            33446999999999999999999731  11100         00     00000000 0111              1345


Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      .+.+.++||||+..|.......++-+|++++|+|+.++-.....  ..+++..+  .++|.++++||+|....
T Consensus        95 ~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~--~~~~~a~~--~~~p~i~viNKiDr~~~  163 (341)
T d1n0ua2          95 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTE--TVLRQALG--ERIKPVVVINKVDRALL  163 (341)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHH--HHHHHHHH--TTCEEEEEEECHHHHHH
T ss_pred             ceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHH--HHHHHHHH--cCCCeEEEEECcccccc
Confidence            78899999999999999999999999999999999998877763  34444444  36999999999997643

>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=99.42  E-value=1.2e-13  Score=102.92  Aligned_cols=113  Identities=15%  Similarity=0.153  Sum_probs=68.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCCC-Cc--eeece-eEEEEECCeEEEEEEEeCCCCccccc-----cccccc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKFPTDYI-PT--VFDNF-SANVVAEGTTVNLGLWDTAGQEDYNR-----LRPLSY   77 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~~~~~~-~~--~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~-----~~~~~~   77 (168)
                      ..++|+++|.+|+|||||+|.|.+........ ++  .+.+. ...+... ..-.+.+|||||-.....     +....+
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~-~~~~~~l~DtPG~~~~~~~~~~~~~~~~~  133 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHP-NIPNVVFWDLPGIGSTNFPPDTYLEKMKF  133 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECS-SCTTEEEEECCCGGGSSCCHHHHHHHTTG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeecc-CCCeEEEEeCCCcccccccHHHHHHHhhh
Confidence            47899999999999999999999854322111 11  11111 1122221 222366899999643321     222335


Q ss_pred             cCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccc
Q 030961           78 RGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRE  126 (168)
Q Consensus        78 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~  126 (168)
                      ..+|.++++.|..-  +-.+  ..+.+.+.+  .+.|+++|.||+|...
T Consensus       134 ~~~d~~l~~~~~~~--~~~d--~~l~~~l~~--~~k~~~~V~nK~D~~~  176 (400)
T d1tq4a_         134 YEYDFFIIISATRF--KKND--IDIAKAISM--MKKEFYFVRTKVDSDI  176 (400)
T ss_dssp             GGCSEEEEEESSCC--CHHH--HHHHHHHHH--TTCEEEEEECCHHHHH
T ss_pred             hcceEEEEecCCCC--CHHH--HHHHHHHHH--cCCCEEEEEeCccccc
Confidence            67888888877432  2222  355566665  3689999999999753

>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=99.25  E-value=1.9e-12  Score=89.84  Aligned_cols=71  Identities=18%  Similarity=0.154  Sum_probs=41.1

Q ss_pred             EEEEEEeCCCCcccccccccc-----ccCCcEEEEEEeCC---ChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           56 VNLGLWDTAGQEDYNRLRPLS-----YRGADVFVLAFSLV---SRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~-----~~~~~~~i~v~d~~---~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      ..+.+.|+||+..+.......     ....+.++++.|+.   ++......  .+........-..|.+++.||+|+...
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~--~l~~~~~~~~~~~~~ivvinK~D~~~~  172 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFV--RFFALLIDLRLGATTIPALNKVDLLSE  172 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHH--HHHHHHHHHHHTSCEEEEECCGGGCCH
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhH--HHHHHHHHHHhCCCceeeeeccccccH
Confidence            347789999987653322221     12456888888875   33433322  111111111136899999999999865


Q ss_pred             c
Q 030961          128 K  128 (168)
Q Consensus       128 ~  128 (168)
                      .
T Consensus       173 ~  173 (244)
T d1yrba1         173 E  173 (244)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.16  E-value=3.9e-10  Score=79.83  Aligned_cols=82  Identities=20%  Similarity=0.127  Sum_probs=50.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeE-EEEECC------------e---EEEEEEEeCCCCccc--
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVVAEG------------T---TVNLGLWDTAGQEDY--   69 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~------------~---~~~~~i~D~~g~~~~--   69 (168)
                      .+||.+||.|+||||||++++.+........|-.+..-.. .+.+.+            .   ...+.++|+||--.-  
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            4799999999999999999999876433322222211111 122221            1   135788999995322  


Q ss_pred             --ccccccc---ccCCcEEEEEEeC
Q 030961           70 --NRLRPLS---YRGADVFVLAFSL   89 (168)
Q Consensus        70 --~~~~~~~---~~~~~~~i~v~d~   89 (168)
                        ..+...+   ++.+|+++.|+|+
T Consensus        82 ~g~Glg~~FL~~ir~~d~LihVVr~  106 (278)
T d1jala1          82 KGEGLGNKFLANIRETDAIGHVVRC  106 (278)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEEC
T ss_pred             cCCCccHHHHHHHHhccceEEEeec
Confidence              2344444   5789999999986

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.06  E-value=3.5e-10  Score=81.51  Aligned_cols=82  Identities=17%  Similarity=0.091  Sum_probs=44.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeceeEEE-----------------------EECCeEEEEEEEeCCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV-----------------------VAEGTTVNLGLWDTAG   65 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~-----------------------~~~~~~~~~~i~D~~g   65 (168)
                      ++|.++|.|+||||||+|.+.+.+......|-.+.+-...+                       .......+++++|+||
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            48999999999999999999987654333331111111000                       0112346788999999


Q ss_pred             Cccc----ccc---ccccccCCcEEEEEEeCC
Q 030961           66 QEDY----NRL---RPLSYRGADVFVLAFSLV   90 (168)
Q Consensus        66 ~~~~----~~~---~~~~~~~~~~~i~v~d~~   90 (168)
                      --.-    ..+   .-..++.+|++++|+|+.
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDAT  112 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETT
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEeccc
Confidence            5321    112   223467899999999985

>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=98.99  E-value=6.5e-09  Score=74.00  Aligned_cols=118  Identities=19%  Similarity=0.169  Sum_probs=72.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCC-CCCCCCcee----eceeE----EEE---------------------------
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVF----DNFSA----NVV---------------------------   50 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~~~-~~~~~~~~~----~~~~~----~~~---------------------------   50 (168)
                      ..++|+|+|..++|||||+|.|++.++ +....++..    ..+..    ...                           
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            356899999999999999999999875 333222211    01100    000                           


Q ss_pred             --------------EC-CeEEEEEEEeCCCCcccc-------------ccccccccCCc-EEEEEEeCCChhHHHHHHHh
Q 030961           51 --------------AE-GTTVNLGLWDTAGQEDYN-------------RLRPLSYRGAD-VFVLAFSLVSRASYENVLKK  101 (168)
Q Consensus        51 --------------~~-~~~~~~~i~D~~g~~~~~-------------~~~~~~~~~~~-~~i~v~d~~~~~s~~~~~~~  101 (168)
                                    +. .....+.++|+||.....             .+...++...+ ++++|.++....+.... ..
T Consensus       105 ~~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~-~~  183 (299)
T d2akab1         105 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA-LK  183 (299)
T ss_dssp             SSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHH-HH
T ss_pred             CCCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHH-HH
Confidence                          00 001136789999954321             22333445555 66677777766666555 56


Q ss_pred             HHHHHchhCCCCcEEEEeeCCccccc
Q 030961          102 WIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus       102 ~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      +.+.+..  ...++++|.||+|...+
T Consensus       184 ~~~~~~~--~~~r~i~Vltk~D~~~~  207 (299)
T d2akab1         184 IAKEVDP--QGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHHHCT--TCSSEEEEEECGGGSCT
T ss_pred             HHHHhCc--CCCceeeEEeccccccc
Confidence            6666655  34689999999998865

>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=98.96  E-value=8.1e-10  Score=79.64  Aligned_cols=92  Identities=12%  Similarity=0.094  Sum_probs=50.7

Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCC
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHP  135 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  135 (168)
                      +.+.+++|.|.-.-.   .....-+|.+++|.....++..+...    .-+.    +.+=++|.||+|+.....      
T Consensus       144 ~d~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ~~k----~gil----E~aDi~vvNKaD~~~~~~------  206 (323)
T d2qm8a1         144 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIK----KGIF----ELADMIAVNKADDGDGER------  206 (323)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CC----TTHH----HHCSEEEEECCSTTCCHH------
T ss_pred             CCeEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhhhhh----hhHh----hhhheeeEeccccccchH------
Confidence            456677777753311   12234599999999988777665431    1111    134478889999876543      


Q ss_pred             CCCcccHHHHHHHHHHhC---------CcEEEEecccCccCC
Q 030961          136 GLVPVTTAQGEELRKQIG---------ASYYIECSSKTQQVC  168 (168)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~---------~~~~~~~Sa~~~~~i  168 (168)
                          ........+...+.         .++++.+||++|+||
T Consensus       207 ----~~~~~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi  244 (323)
T d2qm8a1         207 ----RASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGL  244 (323)
T ss_dssp             ----HHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSH
T ss_pred             ----HHHHHHHHHHHHhhcccccccCCCCceEEEEecCCCCH
Confidence                22222222222221         146899999999985

>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=98.87  E-value=2.1e-09  Score=77.50  Aligned_cols=25  Identities=16%  Similarity=0.290  Sum_probs=22.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+.++|.+.|+||+|||||+++|..
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHH
Confidence            3578999999999999999999973

>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=98.86  E-value=2.9e-09  Score=76.19  Aligned_cols=68  Identities=22%  Similarity=0.248  Sum_probs=41.2

Q ss_pred             EEEEEeCCCCccc-------------cccccccccCCcEEEEEE-eCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCC
Q 030961           57 NLGLWDTAGQEDY-------------NRLRPLSYRGADVFVLAF-SLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKL  122 (168)
Q Consensus        57 ~~~i~D~~g~~~~-------------~~~~~~~~~~~~~~i~v~-d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~  122 (168)
                      .+.++|+||-...             ..+...++..++.+++++ +......-... ..+.+.+..  ....+++|.||+
T Consensus       132 ~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~-~~~~~~~~~--~~~r~i~Vitk~  208 (306)
T d1jwyb_         132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDA-LQLAKEVDP--EGKRTIGVITKL  208 (306)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSH-HHHHHHHCS--SCSSEEEEEECT
T ss_pred             CceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHH-HHHHHHhCc--CCCeEEEEEecc
Confidence            3668999995432             124445567788765554 55443333333 445555543  346899999999


Q ss_pred             ccccc
Q 030961          123 DLRED  127 (168)
Q Consensus       123 D~~~~  127 (168)
                      |....
T Consensus       209 D~~~~  213 (306)
T d1jwyb_         209 DLMDK  213 (306)
T ss_dssp             TSSCS
T ss_pred             ccccc
Confidence            98755

>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=98.70  E-value=5.1e-08  Score=69.33  Aligned_cols=86  Identities=20%  Similarity=0.164  Sum_probs=54.0

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeece-eEEEEECC---------------eEEEEEEEeCCCCcc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNF-SANVVAEG---------------TTVNLGLWDTAGQED   68 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~-~~~~~~~~~~~-~~~~~~~~---------------~~~~~~i~D~~g~~~   68 (168)
                      ...+||.+||.|+||||||+|.+.+.... ....|-.+.+- .-.+.+.+               ....+.+.|+||...
T Consensus         8 ~~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~   87 (296)
T d1ni3a1           8 GNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTK   87 (296)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeecccccc
Confidence            35689999999999999999999976532 22222222111 11223322               124678899998432


Q ss_pred             c----cccccc---cccCCcEEEEEEeCCC
Q 030961           69 Y----NRLRPL---SYRGADVFVLAFSLVS   91 (168)
Q Consensus        69 ~----~~~~~~---~~~~~~~~i~v~d~~~   91 (168)
                      -    ..+-..   .++.+|+++.|+|+.+
T Consensus        88 gA~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          88 GASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccccccccHHHHHHHhhccceeEEEEeccC
Confidence            2    222223   3578999999998754

>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=98.63  E-value=2.1e-08  Score=70.53  Aligned_cols=57  Identities=23%  Similarity=0.303  Sum_probs=34.7

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeeceeEEEEECCeEEEEEEEeCCCC
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPT-DYIPTVFDNFSANVVAEGTTVNLGLWDTAGQ   66 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   66 (168)
                      ...++++++|.||||||||+|++.+.+... ...|..+.... .+..+ .  .+.++||||-
T Consensus       110 ~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~pG~Tr~~~-~i~~~-~--~~~l~DTPGi  167 (273)
T d1puja_         110 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQ-WVKVG-K--ELELLDTPGI  167 (273)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC------------C-CEEET-T--TEEEEECCCC
T ss_pred             CCceEEEEEecCccchhhhhhhhhccceEEECCcccccccce-EEECC-C--CeEEecCCCc
Confidence            467899999999999999999999876422 22222222111 12222 1  2667999996

>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=98.41  E-value=1.6e-07  Score=63.74  Aligned_cols=22  Identities=23%  Similarity=0.318  Sum_probs=20.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ..+++|++|||||||+|+|...
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTT
T ss_pred             eEEEECCCCCCHHHHHHhhcch
Confidence            5689999999999999999865

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.12  E-value=4.4e-07  Score=61.78  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ..+++|++|||||||+|+|...
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            4679999999999999999875

>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=2.8e-06  Score=57.54  Aligned_cols=78  Identities=18%  Similarity=0.175  Sum_probs=54.0

Q ss_pred             cccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC-
Q 030961           76 SYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG-  153 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  153 (168)
                      ...+.|.+++|+++.+|+ +...+ ++++-....  .++|.+||+||+||..+..            .+....+...+. 
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~l-dR~Lv~a~~--~~i~pvIvlnK~DL~~~~~------------~~~~~~~~~~~~~   71 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYII-DKFLVLAEK--NELETVMVINKMDLYDEDD------------LRKVRELEEIYSG   71 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHH-HHHHHHHHH--TTCEEEEEECCGGGCCHHH------------HHHHHHHHHHHTT
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHH-HHHHHHHHH--cCCCEEEEEeCcccCCHHH------------HHHHHHhhccccc
Confidence            356899999999988865 44444 666665555  5799999999999976532            233334444332 


Q ss_pred             CcEEEEecccCccCC
Q 030961          154 ASYYIECSSKTQQVC  168 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~i  168 (168)
                      ..+++.+||++++|+
T Consensus        72 ~~~v~~vSa~~~~g~   86 (225)
T d1u0la2          72 LYPIVKTSAKTGMGI   86 (225)
T ss_dssp             TSCEEECCTTTCTTH
T ss_pred             ceeEEEeccccchhH
Confidence            247889999999874

>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=98.10  E-value=1.8e-06  Score=60.42  Aligned_cols=75  Identities=17%  Similarity=0.033  Sum_probs=51.0

Q ss_pred             cccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhC
Q 030961           74 PLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIG  153 (168)
Q Consensus        74 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (168)
                      ...++.+|++++|.|+.++.+...  ..+.+.+    .+.|.++|.||+|+.+...            .++..++.+..+
T Consensus        10 ~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~~----~~Kp~IlVlNK~DLv~~~~------------~~~w~~~f~~~~   71 (273)
T d1puja_          10 TEKLKLIDIVYELVDARIPMSSRN--PMIEDIL----KNKPRIMLLNKADKADAAV------------TQQWKEHFENQG   71 (273)
T ss_dssp             HHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC----SSSCEEEEEECGGGSCHHH------------HHHHHHHHHTTT
T ss_pred             HHHHHhCCEEEEEEECCCCCCCCC--HHHHHHH----cCCCeEEEEECccCCchHH------------HHHHHHHHHhcC
Confidence            345788999999999999877654  2222323    2579999999999976532            222223333344


Q ss_pred             CcEEEEecccCccC
Q 030961          154 ASYYIECSSKTQQV  167 (168)
Q Consensus       154 ~~~~~~~Sa~~~~~  167 (168)
                      . ..+.+|+.++.|
T Consensus        72 ~-~~i~isa~~~~~   84 (273)
T d1puja_          72 I-RSLSINSVNGQG   84 (273)
T ss_dssp             C-CEEECCTTTCTT
T ss_pred             C-ccceeecccCCC
Confidence            4 688999998876

>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=98.06  E-value=5.9e-07  Score=60.37  Aligned_cols=84  Identities=24%  Similarity=0.172  Sum_probs=47.4

Q ss_pred             EEEEEEeCCCCcccccccccc------ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccch
Q 030961           56 VNLGLWDTAGQEDYNRLRPLS------YRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKH  129 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~------~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~  129 (168)
                      +.+.++||+|........-..      ..+.+-+++|.|+..+..-......+.+.+     ++. =++.||.|....  
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~-----~~~-~~I~TKlDe~~~--  164 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKV-----GVT-GLVLTKLDGDAR--  164 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHT-----CCC-EEEEECGGGCSS--
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhC-----CCC-eeEEeecCcccc--
Confidence            467889999965432211111      235678899999876654333223333322     122 256799997543  


Q ss_pred             hhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961          130 YLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                                  .-.+..++...+. |+..+
T Consensus       165 ------------~G~~l~~~~~~~~-Pi~~i  182 (207)
T d1ls1a2         165 ------------GGAALSARHVTGK-PIYFA  182 (207)
T ss_dssp             ------------CHHHHHHHHHHCC-CEEEE
T ss_pred             ------------chHHHHHHHHHCC-CEEEE
Confidence                        2345666677776 55444

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.02  E-value=8e-06  Score=55.44  Aligned_cols=78  Identities=26%  Similarity=0.266  Sum_probs=54.7

Q ss_pred             cccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHH---HHH
Q 030961           76 SYRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEEL---RKQ  151 (168)
Q Consensus        76 ~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~---~~~  151 (168)
                      ...++|.+++|+++.+|+ +...+ ++++-....  .+++.+||+||+||..+..           ..+....+   ...
T Consensus         7 ~vANiD~~~iV~s~~~P~~~~~~i-dR~Lv~a~~--~~i~pvIvlnK~DL~~~~~-----------~~~~~~~~~~~y~~   72 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSFSTALL-DRFLVLVEA--NDIQPIICITKMDLIEDQD-----------TEDTIQAYAEDYRN   72 (231)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHH-HHHHHHHHT--TTCEEEEEEECGGGCCCHH-----------HHHHHHHHHHHHHH
T ss_pred             CccccCEEEEEEECCCCCCCHHHH-HHHHHHHHH--cCCCEEEEEecccccccHH-----------HHHHHHHHHHHHhh
Confidence            346899999999988865 45554 666655555  5789999999999976532           22223333   344


Q ss_pred             hCCcEEEEecccCccCC
Q 030961          152 IGASYYIECSSKTQQVC  168 (168)
Q Consensus       152 ~~~~~~~~~Sa~~~~~i  168 (168)
                      .|. +++.+|+++++|+
T Consensus        73 ~g~-~v~~~Sa~~~~gl   88 (231)
T d1t9ha2          73 IGY-DVYLTSSKDQDSL   88 (231)
T ss_dssp             HTC-CEEECCHHHHTTC
T ss_pred             ccc-cceeeecCChhHH
Confidence            566 8899999998875

>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=97.95  E-value=2.3e-06  Score=55.54  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=20.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +||+++|++|+|||||++.+.+
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            5899999999999999999876

>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=97.93  E-value=2.9e-06  Score=56.03  Aligned_cols=27  Identities=15%  Similarity=0.065  Sum_probs=22.5

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+.++..|+++|+|||||||++.+|..
T Consensus         2 ~~~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           2 EKSKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            344556789999999999999999865

>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=97.90  E-value=5e-05  Score=51.24  Aligned_cols=25  Identities=20%  Similarity=0.143  Sum_probs=21.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      +.+-.++-|.-|||||||+++++..
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4566889999999999999999875

>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=97.88  E-value=3.2e-06  Score=54.39  Aligned_cols=23  Identities=26%  Similarity=0.239  Sum_probs=20.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .++|+++|+|||||||++++|..
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            46899999999999999998864

>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=97.86  E-value=4.3e-06  Score=53.90  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=22.8

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +.+.++|++.|+|||||||+.+.|..
T Consensus         2 ~pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           2 QPKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            34678999999999999999998865

>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=97.86  E-value=3.2e-06  Score=54.92  Aligned_cols=22  Identities=14%  Similarity=0.264  Sum_probs=20.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -+|+|.|++|+|||||+++|..
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            4799999999999999999875

>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=97.79  E-value=7.8e-06  Score=53.93  Aligned_cols=26  Identities=19%  Similarity=0.332  Sum_probs=23.3

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +.+.++|+++|+|||||||+..+|..
T Consensus         3 ~~r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           3 SARLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             SSCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999999875

>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=97.75  E-value=8.4e-06  Score=53.04  Aligned_cols=22  Identities=18%  Similarity=0.123  Sum_probs=19.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++|+++|+|||||||++..|..
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            4799999999999999988854

>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=97.74  E-value=9.2e-06  Score=53.41  Aligned_cols=24  Identities=17%  Similarity=0.195  Sum_probs=21.3

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +.++|+++|+|||||||++.+|..
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            467999999999999999998864

>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=97.73  E-value=9.1e-06  Score=52.05  Aligned_cols=22  Identities=18%  Similarity=0.025  Sum_probs=19.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +-+.|+|.+|||||||++++..
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4589999999999999999975

>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=97.72  E-value=9.9e-06  Score=51.07  Aligned_cols=21  Identities=19%  Similarity=0.275  Sum_probs=18.7

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |++.|+|||||||+++++...
T Consensus         5 Iii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            788999999999999998653

>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=97.72  E-value=1e-05  Score=52.84  Aligned_cols=22  Identities=18%  Similarity=0.108  Sum_probs=19.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++|+++|+|||||||++.+|..
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVE   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998875

>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=97.70  E-value=1.2e-05  Score=52.48  Aligned_cols=22  Identities=14%  Similarity=0.297  Sum_probs=20.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++|+++|+|||||||+..+|..
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            5899999999999999999864

>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=97.70  E-value=7.3e-06  Score=53.88  Aligned_cols=24  Identities=21%  Similarity=0.146  Sum_probs=21.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+++|+++|+|||||||++.+|..
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            357899999999999999998864

>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=97.65  E-value=1.2e-05  Score=52.36  Aligned_cols=22  Identities=14%  Similarity=0.226  Sum_probs=19.8

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +||+++|+|||||||.+.+|..
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            5899999999999999988864

>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=97.63  E-value=1.7e-05  Score=51.66  Aligned_cols=23  Identities=22%  Similarity=0.218  Sum_probs=20.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .++|+++|+|||||||++..|..
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            36899999999999999998865

>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=97.60  E-value=1.8e-05  Score=50.65  Aligned_cols=21  Identities=19%  Similarity=0.260  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -|++.|+|||||||++++|..
T Consensus         4 lI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            388999999999999999875

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.58  E-value=1.8e-05  Score=52.51  Aligned_cols=22  Identities=36%  Similarity=0.205  Sum_probs=19.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-|+++|.|||||||++++|..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999874

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.57  E-value=2.5e-05  Score=51.35  Aligned_cols=23  Identities=13%  Similarity=0.105  Sum_probs=20.4

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++.|+++|+|||||||.+.++..
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            46899999999999999998864

>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=97.55  E-value=2e-05  Score=49.83  Aligned_cols=21  Identities=19%  Similarity=0.158  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|+++|++||||||+...|..
T Consensus         4 ~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>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=97.51  E-value=6.9e-05  Score=52.25  Aligned_cols=63  Identities=19%  Similarity=0.021  Sum_probs=40.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCC-----CCCceeeceeEEEEECCeEEEEEEEeCCCCcc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTSNKFPTD-----YIPTVFDNFSANVVAEGTTVNLGLWDTAGQED   68 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   68 (168)
                      .+..-|.++|+.++|||+|+|+|++..+.-.     ...|.+.-.......++....+.++||.|...
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~~~~~~~~~~lDteG~~~   97 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD   97 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeeccCCCCceEEEEecccccc
Confidence            4566799999999999999999998653211     11222322222222345556778899999654

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.51  E-value=2.2e-05  Score=50.40  Aligned_cols=21  Identities=29%  Similarity=0.192  Sum_probs=18.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHh
Q 030961            9 IKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~   29 (168)
                      ++|+++|.+||||||+...+.
T Consensus         2 p~IvliG~~G~GKSTig~~La   22 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLA   22 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHH
Confidence            478999999999999988774

>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=97.51  E-value=3.9e-05  Score=49.69  Aligned_cols=24  Identities=21%  Similarity=0.091  Sum_probs=20.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...-|+++|.|||||||++.++..
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            455789999999999999999864

>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=97.50  E-value=2.8e-05  Score=49.82  Aligned_cols=20  Identities=25%  Similarity=0.316  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      +.|+|.+|||||||+.++..
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            46999999999999999864

>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=97.46  E-value=4.8e-05  Score=50.07  Aligned_cols=25  Identities=12%  Similarity=0.074  Sum_probs=21.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .....|+++|+|||||||++.+|..
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4455689999999999999999875

>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=97.39  E-value=6.5e-05  Score=48.19  Aligned_cols=24  Identities=13%  Similarity=0.076  Sum_probs=20.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHh
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~   29 (168)
                      .+..-|.++|.|||||||+...|.
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La   27 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQ   27 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            455778899999999999998775

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.39  E-value=4.3e-05  Score=49.24  Aligned_cols=21  Identities=24%  Similarity=0.311  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|++.|++|+|||||+..+..
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            489999999999999998874

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.37  E-value=5e-05  Score=49.04  Aligned_cols=19  Identities=26%  Similarity=0.149  Sum_probs=17.3

Q ss_pred             EEEECCCCCCHHHHHHHHh
Q 030961           11 CVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~   29 (168)
                      |+|.|.+||||||++++|.
T Consensus         4 I~i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7888999999999999875

>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=97.36  E-value=5e-05  Score=48.53  Aligned_cols=21  Identities=19%  Similarity=0.183  Sum_probs=18.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -++++|++||||||+.+.|..
T Consensus         8 iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            366799999999999999865

>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=97.31  E-value=5.9e-05  Score=48.32  Aligned_cols=21  Identities=14%  Similarity=0.181  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |++.|++||||||+.+.+...
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999888653

>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=97.30  E-value=7e-05  Score=48.98  Aligned_cols=21  Identities=24%  Similarity=0.319  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |+++|++|||||||+++|...
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            789999999999999999754

>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=97.30  E-value=6.4e-05  Score=49.08  Aligned_cols=25  Identities=16%  Similarity=0.016  Sum_probs=21.3

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+-|.+-|++|||||||+++|..
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3456688999999999999999864

>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=97.30  E-value=6.3e-05  Score=48.04  Aligned_cols=21  Identities=19%  Similarity=0.213  Sum_probs=18.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      +|+++|.+||||||+...+..
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            489999999999999988743

>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=97.29  E-value=2.7e-05  Score=51.31  Aligned_cols=22  Identities=18%  Similarity=0.040  Sum_probs=19.5

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-|+++|+|||||||++.+|..
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            4488999999999999999875

>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=97.28  E-value=0.00012  Score=48.95  Aligned_cols=26  Identities=19%  Similarity=0.082  Sum_probs=21.6

Q ss_pred             CcceeeEEEEECCCCCCHHHHHHHHh
Q 030961            4 SASRFIKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         4 ~~~~~~~i~vvG~~~~GKStli~~l~   29 (168)
                      ++.++..|+++|++||||||.+-+|.
T Consensus         7 ~~~~p~vi~lvGptGvGKTTTiAKLA   32 (213)
T d1vmaa2           7 PPEPPFVIMVVGVNGTGKTTSCGKLA   32 (213)
T ss_dssp             CSSSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHH
Confidence            34567789999999999999987765

>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=97.28  E-value=7.8e-05  Score=48.50  Aligned_cols=21  Identities=33%  Similarity=0.585  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |+++|++||||||++++|...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            689999999999999998753

>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=97.26  E-value=8e-05  Score=47.62  Aligned_cols=20  Identities=25%  Similarity=0.529  Sum_probs=17.6

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      |++.|++||||||+.+.|..
T Consensus         6 I~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56679999999999999876

>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=97.22  E-value=9.9e-05  Score=50.66  Aligned_cols=23  Identities=17%  Similarity=0.157  Sum_probs=20.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -.|++.|+||+|||||+..+.+.
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            34899999999999999988764

>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=97.21  E-value=9.7e-05  Score=47.46  Aligned_cols=19  Identities=21%  Similarity=0.128  Sum_probs=17.3

Q ss_pred             EEEECCCCCCHHHHHHHHh
Q 030961           11 CVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~   29 (168)
                      |+++|.+||||||+...+.
T Consensus         5 Iil~G~~GsGKSTia~~LA   23 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELA   23 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6789999999999999885

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.21  E-value=0.00011  Score=47.85  Aligned_cols=21  Identities=19%  Similarity=0.284  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |+++|++|+||+||+++|+..
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

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.19  E-value=0.00011  Score=50.16  Aligned_cols=22  Identities=18%  Similarity=0.117  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      +++++|+.|||||||++.+.+-
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            6899999999999999988764

>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=97.16  E-value=0.00012  Score=47.99  Aligned_cols=20  Identities=25%  Similarity=0.313  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      |+++|++|||||||+.+|..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999864

>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=97.14  E-value=0.00012  Score=49.63  Aligned_cols=25  Identities=16%  Similarity=0.222  Sum_probs=21.5

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ....+++.|+||+||||+++.+.+.
T Consensus        34 ~~~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          34 PLEHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3567999999999999999988753

>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=97.14  E-value=0.00011  Score=49.65  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=20.4

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+++.|+||+||||+++.+..
T Consensus        35 ~~~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          35 LDHVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CCCEEEESSTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHh
Confidence            45799999999999999998875

>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=97.13  E-value=0.00013  Score=48.49  Aligned_cols=22  Identities=9%  Similarity=0.232  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      =|+++|++|||||||+++|+..
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            3789999999999999999753

>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=97.11  E-value=6.5e-05  Score=49.00  Aligned_cols=23  Identities=17%  Similarity=0.117  Sum_probs=19.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...|.++|.|||||||+.+.|..
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            44678999999999999998854

>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=97.11  E-value=0.00015  Score=48.34  Aligned_cols=23  Identities=17%  Similarity=0.195  Sum_probs=20.5

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .++|++-|+|||||||...+|..
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            57889999999999999998865

>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=97.10  E-value=0.00016  Score=49.36  Aligned_cols=22  Identities=14%  Similarity=0.107  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            6899999999999999988763

>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=97.06  E-value=0.00014  Score=49.92  Aligned_cols=22  Identities=23%  Similarity=0.241  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      +++++|+.|||||||++.+.+-
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCChHHHHHHHHhcc
Confidence            6899999999999999988763

>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=97.05  E-value=0.00018  Score=48.68  Aligned_cols=22  Identities=27%  Similarity=0.300  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4789999999999999988764

>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=97.05  E-value=0.00017  Score=48.81  Aligned_cols=22  Identities=23%  Similarity=0.199  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.++|+.|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCcchhhHhccCC
Confidence            4689999999999999977664

>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=97.04  E-value=0.00018  Score=48.02  Aligned_cols=89  Identities=16%  Similarity=0.055  Sum_probs=50.1

Q ss_pred             EEEEEEeCCCCccccc--c--c--cc--cccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCccccc
Q 030961           56 VNLGLWDTAGQEDYNR--L--R--PL--SYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLRED  127 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~--~--~--~~--~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~  127 (168)
                      +.+.++||+|...+..  +  .  ..  .....+-+++|++++....-...   .......  .++. -++.||.|....
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~---~~~~~~~--~~~~-~lI~TKlDet~~  168 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDL---ASKFNQA--SKIG-TIIITKMDGTAK  168 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHH---HHHHHHH--CTTE-EEEEECTTSCSC
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHH---Hhhhhcc--cCcc-eEEEecccCCCc
Confidence            4688899999643321  1  0  11  11245678899998765433221   2222222  1233 355899998654


Q ss_pred             chhhhcCCCCCcccHHHHHHHHHHhCCcEEEEecccCccC
Q 030961          128 KHYLADHPGLVPVTTAQGEELRKQIGASYYIECSSKTQQV  167 (168)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (168)
                                    .-.+-..+.+.++ |+..+|  +|++
T Consensus       169 --------------~G~~l~~~~~~~l-Pi~~it--~Gq~  191 (211)
T d1j8yf2         169 --------------GGGALSAVAATGA-TIKFIG--TGEK  191 (211)
T ss_dssp             --------------HHHHHHHHHTTTC-CEEEEE--CSSS
T ss_pred             --------------ccHHHHHHHHHCc-CEEEEe--CCCC
Confidence                          3556677777887 665555  3544

>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=97.03  E-value=0.00014  Score=46.99  Aligned_cols=20  Identities=30%  Similarity=0.370  Sum_probs=17.0

Q ss_pred             EE-EEECCCCCCHHHHHHHHh
Q 030961           10 KC-VTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        10 ~i-~vvG~~~~GKStli~~l~   29 (168)
                      || ++.|.+||||||+++.|.
T Consensus         2 kiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            55 467999999999999885

>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=97.03  E-value=0.00019  Score=49.20  Aligned_cols=22  Identities=18%  Similarity=0.193  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcc
Confidence            6899999999999999988764

>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=97.00  E-value=0.00023  Score=46.85  Aligned_cols=24  Identities=25%  Similarity=0.299  Sum_probs=20.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..-++++||+||+|||+++..|..
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCeEEEecCCcccHHHHHHHHH
Confidence            355799999999999999987765

>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=96.99  E-value=0.00021  Score=47.33  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCChHHHHHHHHhcc
Confidence            4689999999999999999764

>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=96.98  E-value=0.00023  Score=48.33  Aligned_cols=22  Identities=27%  Similarity=0.230  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.++|+.|||||||++.+.+-
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            4799999999999999988775

>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=96.97  E-value=0.00024  Score=48.32  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            3578999999999999998874

>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=96.94  E-value=0.00024  Score=46.46  Aligned_cols=26  Identities=19%  Similarity=0.264  Sum_probs=22.4

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..+++-|++-|..||||||+++.|..
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            45667899999999999999998865

>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=96.93  E-value=0.0003  Score=46.90  Aligned_cols=23  Identities=26%  Similarity=0.200  Sum_probs=19.7

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHh
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~   29 (168)
                      .+.-|+++|++||||||.+-+|-
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA   30 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLA   30 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            35568899999999999998875

>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=96.90  E-value=0.00024  Score=49.51  Aligned_cols=22  Identities=23%  Similarity=0.329  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++++|+.|||||||++.+.+-
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            5899999999999999988774

>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=96.89  E-value=0.00035  Score=46.46  Aligned_cols=84  Identities=17%  Similarity=0.072  Sum_probs=47.1

Q ss_pred             EEEEEEeCCCCccccccc----ccc--------ccCCcEEEEEEeCCChh-HHHHHHHhHHHHHchhCCCCcEEEEeeCC
Q 030961           56 VNLGLWDTAGQEDYNRLR----PLS--------YRGADVFVLAFSLVSRA-SYENVLKKWIPELQHYSPGVPVVLVGTKL  122 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~----~~~--------~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~l~~~~~~~p~ivv~nK~  122 (168)
                      +.+.++||+|...+....    ...        ....+-.++|+|++... ....+ ...+..+.     .. -++.||.
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~-~~~~~~~~-----~~-~lI~TKl  161 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQA-KKFHEAVG-----LT-GVIVTKL  161 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHH-HHHHHHHC-----CS-EEEEECT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHH-HHhhhccC-----Cc-eEEEecc
Confidence            567889999964432211    111        12356788899987654 34433 33333331     22 4567999


Q ss_pred             cccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961          123 DLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus       123 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      |....-              -.+-..+...+. |+..++
T Consensus       162 Det~~~--------------G~~l~~~~~~~~-Pi~~i~  185 (207)
T d1okkd2         162 DGTAKG--------------GVLIPIVRTLKV-PIKFVG  185 (207)
T ss_dssp             TSSCCC--------------TTHHHHHHHHCC-CEEEEE
T ss_pred             CCCCCc--------------cHHHHHHHHHCC-CEEEEe
Confidence            986542              224556666776 555544

>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=96.88  E-value=0.00031  Score=48.55  Aligned_cols=23  Identities=26%  Similarity=0.231  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-++++||+||+|||+++..|..
T Consensus        39 k~n~lLVG~~GvGKTalv~~la~   61 (268)
T d1r6bx2          39 KNNPLLVGESGVGKTAIAEGLAW   61 (268)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCCcEEECCCCCcHHHHHHHHHH
Confidence            45789999999999999988765

>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=96.88  E-value=0.00036  Score=46.24  Aligned_cols=23  Identities=17%  Similarity=0.062  Sum_probs=19.9

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++-|.+-|++||||||+.++|..
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            46789999999999999998743

>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=96.87  E-value=0.00032  Score=47.71  Aligned_cols=22  Identities=23%  Similarity=0.235  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+.++|+.|||||||++.+.+-
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4799999999999999988764

>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=96.84  E-value=0.0002  Score=48.36  Aligned_cols=22  Identities=27%  Similarity=0.252  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++++|+.|||||||++.+.+-
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            3789999999999999999875

>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=96.84  E-value=0.00019  Score=49.31  Aligned_cols=21  Identities=19%  Similarity=0.222  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      +++++|+.|||||||++.+.+
T Consensus        46 ~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCCcHHHHHHHHHh
Confidence            689999999999999987665

>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=96.83  E-value=0.00035  Score=47.46  Aligned_cols=24  Identities=21%  Similarity=0.260  Sum_probs=21.1

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...+++.|+||+||||++..+.+.
T Consensus        52 ~~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          52 FRAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            347999999999999999998864

>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=96.81  E-value=0.00028  Score=48.01  Aligned_cols=22  Identities=18%  Similarity=0.369  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.++|+.|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4689999999999999988764

>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=96.81  E-value=0.00052  Score=46.82  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=20.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +...|++.|+||+|||++++.+.+
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhh
Confidence            345699999999999999998865

>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=96.80  E-value=0.00039  Score=46.69  Aligned_cols=23  Identities=22%  Similarity=0.286  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ...+++.|++|+||||++..+..
T Consensus        45 ~~~lll~Gp~G~GKTtla~~iak   67 (231)
T d1iqpa2          45 MPHLLFAGPPGVGKTTAALALAR   67 (231)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            34699999999999999998865

>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=96.77  E-value=0.00039  Score=47.31  Aligned_cols=22  Identities=23%  Similarity=0.277  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.++|+.|+|||||++.+.+-
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3689999999999999999875

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.77  E-value=0.00049  Score=46.85  Aligned_cols=24  Identities=21%  Similarity=0.268  Sum_probs=20.8

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..-.+++.|+||+|||++++.+..
T Consensus        42 ~~~~lll~GppGtGKT~l~~~l~~   65 (276)
T d1fnna2          42 HYPRATLLGRPGTGKTVTLRKLWE   65 (276)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999998875

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.75  E-value=0.00038  Score=47.16  Aligned_cols=25  Identities=12%  Similarity=0.181  Sum_probs=21.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ...++++.|++|+||||++..+...
T Consensus        32 ~~~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          32 DLPHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CCCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHh
Confidence            3456999999999999999988653

>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=96.74  E-value=0.00031  Score=47.56  Aligned_cols=22  Identities=23%  Similarity=0.253  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.++|+.|+|||||++.+.+-
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3789999999999999999873

>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=96.70  E-value=0.00047  Score=45.70  Aligned_cols=21  Identities=14%  Similarity=0.147  Sum_probs=18.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -|++.|+|||||+|+...+..
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            567789999999999998865

>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=96.69  E-value=0.00049  Score=46.72  Aligned_cols=23  Identities=22%  Similarity=0.167  Sum_probs=20.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      -+.++|+.|+|||||++.+.+--
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36899999999999999987753

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.69  E-value=0.00047  Score=48.65  Aligned_cols=23  Identities=22%  Similarity=0.197  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .-.++++||||+|||.|+..+..
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHhh
Confidence            45689999999999999998865

>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=96.64  E-value=0.00055  Score=47.03  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+.++|+.|||||||++.+.+-
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            4789999999999999988764

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.63  E-value=0.00051  Score=47.06  Aligned_cols=21  Identities=19%  Similarity=0.262  Sum_probs=17.6

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      +.+.|+||+|||++++.+...
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            455699999999999998753

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.63  E-value=0.00053  Score=45.57  Aligned_cols=25  Identities=20%  Similarity=0.191  Sum_probs=21.1

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+..-|.+.|.|||||||+.+.|..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456699999999999999998863

>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=96.63  E-value=0.00054  Score=45.76  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=19.7

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..++++.|++|+||||+++.+..
T Consensus        36 ~~~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          36 MPHMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCchhhHHHHHH
Confidence            34689999999999999988764

>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=96.61  E-value=0.00027  Score=48.12  Aligned_cols=22  Identities=18%  Similarity=0.255  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .+.++|+.|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            4799999999999999998874

>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=96.59  E-value=0.00081  Score=43.69  Aligned_cols=25  Identities=20%  Similarity=0.066  Sum_probs=21.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .++-|.+.|.+||||||+++.|...
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHC
Confidence            3567889999999999999988654

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.58  E-value=0.00051  Score=46.81  Aligned_cols=21  Identities=14%  Similarity=0.189  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+++.|++|+|||||+.++..
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            578999999999999999864

>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=96.58  E-value=0.00072  Score=47.98  Aligned_cols=24  Identities=17%  Similarity=0.182  Sum_probs=21.1

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      .+|++.|++||||||+++.++..-
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            469999999999999999998643

>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=96.57  E-value=0.00065  Score=46.57  Aligned_cols=21  Identities=19%  Similarity=0.355  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      +.++|+.|||||||++.+.+-
T Consensus        33 ~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             EEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHHCC
Confidence            689999999999999998875

>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=96.56  E-value=0.00062  Score=45.47  Aligned_cols=24  Identities=17%  Similarity=0.297  Sum_probs=20.6

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ..++++.|++|+||||++..+...
T Consensus        35 ~~~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          35 LPHLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CCCEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCChhHHHHHHHHH
Confidence            346899999999999999998763

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.53  E-value=0.0008  Score=45.91  Aligned_cols=22  Identities=27%  Similarity=0.297  Sum_probs=20.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.+++.|+||+|||++++.+.+
T Consensus        43 ~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHH
Confidence            3599999999999999999986

>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=96.51  E-value=0.00073  Score=45.26  Aligned_cols=23  Identities=22%  Similarity=0.317  Sum_probs=19.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ..+++.|++|+||||++..+...
T Consensus        34 ~~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          34 PHMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCChHHHHHHHHHH
Confidence            45899999999999999988753

>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=96.46  E-value=0.00098  Score=43.75  Aligned_cols=21  Identities=14%  Similarity=0.143  Sum_probs=18.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -|+|-|..||||||++..|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999987753

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=96.41  E-value=0.001  Score=45.60  Aligned_cols=22  Identities=23%  Similarity=0.264  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.+++.|+||+|||++++.+..
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHH
Confidence            3599999999999999998875

>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=96.40  E-value=0.0058  Score=38.53  Aligned_cols=25  Identities=24%  Similarity=0.187  Sum_probs=21.0

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      +..-|++-|+=|+|||||++.+...
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            3445889999999999999998864

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.38  E-value=0.0011  Score=45.43  Aligned_cols=24  Identities=17%  Similarity=0.104  Sum_probs=20.7

Q ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Q 030961            8 FIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         8 ~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-.+++.|+||+|||++++.+...
T Consensus        38 ~~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          38 PRGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceeEEecCCCCCchHHHHHHHHH
Confidence            346999999999999999988763

>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=96.36  E-value=0.0013  Score=46.23  Aligned_cols=25  Identities=20%  Similarity=0.058  Sum_probs=21.6

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHh
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~   29 (168)
                      ...++-|.|-|++||||||+.+.|.
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHH
Confidence            4567889999999999999988875

>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=96.19  E-value=0.0012  Score=48.76  Aligned_cols=22  Identities=23%  Similarity=0.264  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -+|+++||+|||||-|+++|..
T Consensus        50 sNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998854

>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=96.18  E-value=0.0023  Score=42.25  Aligned_cols=25  Identities=12%  Similarity=0.131  Sum_probs=20.9

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKF   33 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~   33 (168)
                      +-|.+.|..||||||+++.|....+
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~G~   28 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADLGI   28 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEECCCcCCHHHHHHHHHHCCC
Confidence            5688999999999999998875443

>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=96.17  E-value=0.0013  Score=43.39  Aligned_cols=20  Identities=25%  Similarity=0.126  Sum_probs=17.6

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      |++-|.+||||||++..|..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77889999999999998764

>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=96.14  E-value=0.0017  Score=42.35  Aligned_cols=22  Identities=18%  Similarity=0.105  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.+.|+||+|||+|+..+...
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            3689999999999999998754

>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=96.10  E-value=0.0022  Score=41.27  Aligned_cols=24  Identities=21%  Similarity=0.338  Sum_probs=21.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNK   32 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~   32 (168)
                      .-|++.|++|+||||++..|....
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            458999999999999999988754

>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=96.02  E-value=0.0014  Score=46.60  Aligned_cols=25  Identities=16%  Similarity=0.177  Sum_probs=22.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      ..++|.|=|.-|+||||+++.+...
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            3889999999999999999998763

>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=96.00  E-value=0.0032  Score=43.73  Aligned_cols=25  Identities=16%  Similarity=0.007  Sum_probs=20.5

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHh
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~   29 (168)
                      ...++=|.+-|.+|||||||...+.
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            3456788999999999999997663

>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=96.00  E-value=0.0019  Score=44.35  Aligned_cols=23  Identities=17%  Similarity=0.184  Sum_probs=20.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -.|++.|++|+|||+|++.+...
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcchhHHHHHHHH
Confidence            46999999999999999998763

>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=95.98  E-value=0.0031  Score=44.44  Aligned_cols=24  Identities=21%  Similarity=0.200  Sum_probs=20.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +.-.++++|++|+|||.|+..+..
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            344689999999999999998754

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.97  E-value=0.00097  Score=47.31  Aligned_cols=22  Identities=18%  Similarity=0.286  Sum_probs=19.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -+++++|+||+|||++++++..
T Consensus        29 h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          29 GGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CCEEEECCGGGCTTHHHHHHHH
T ss_pred             CeEEEECCCCccHHHHHHHHHH
Confidence            4699999999999999998853

>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=95.94  E-value=0.0012  Score=47.94  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=18.4

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHh
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~   29 (168)
                      .+-++++||+||||||+++..|.
T Consensus        42 ~k~n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          42 TKNNPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             SCCCCEEEECTTSCHHHHHHHHH
T ss_pred             CCCCCeEECCCCCCHHHHHHHHH
Confidence            34568999999999999885443

>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=95.94  E-value=0.0013  Score=44.01  Aligned_cols=21  Identities=24%  Similarity=0.256  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .|+|-|+.||||||++..|..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999987765

>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=95.87  E-value=0.0076  Score=40.44  Aligned_cols=21  Identities=24%  Similarity=0.282  Sum_probs=18.2

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+++.|++|+|||+++..+..
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            378999999999999988754

>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=95.86  E-value=0.0027  Score=40.87  Aligned_cols=25  Identities=12%  Similarity=0.274  Sum_probs=21.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKF   33 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~   33 (168)
                      .-+++.|++|+||||+...|....+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~G~   40 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINKNH   40 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTTTC
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcCC
Confidence            4589999999999999999987543

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.83  E-value=0.0021  Score=42.52  Aligned_cols=20  Identities=20%  Similarity=0.087  Sum_probs=16.5

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      |+|-|..||||||++..|..
T Consensus         6 I~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67779999999998877643

>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=95.82  E-value=0.0021  Score=42.91  Aligned_cols=22  Identities=14%  Similarity=0.084  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.+.|+||+|||+|+..|...
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            3689999999999999998754

>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=95.81  E-value=0.0023  Score=43.04  Aligned_cols=22  Identities=18%  Similarity=0.084  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++|.|+||+|||+|...|...
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~   59 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVM   59 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            3789999999999999998754

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.74  E-value=0.0052  Score=40.31  Aligned_cols=23  Identities=22%  Similarity=0.121  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      +-|.+.|..||||||+++.|...
T Consensus         3 ~iIgITG~igSGKStv~~~l~~~   25 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTDL   25 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
Confidence            56889999999999999987643

>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=95.73  E-value=0.003  Score=43.62  Aligned_cols=23  Identities=17%  Similarity=0.107  Sum_probs=19.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~   31 (168)
                      .-|.++|.+|+|||||+..+.+.
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999987653

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=95.69  E-value=0.003  Score=45.37  Aligned_cols=22  Identities=18%  Similarity=0.070  Sum_probs=19.3

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      --+++.|+||+|||+++..+.+
T Consensus       155 ~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998764

>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=95.58  E-value=0.0037  Score=44.95  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=20.6

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++-.++++|++|||||-++.+|..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            455699999999999999998754

>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=95.54  E-value=0.0041  Score=39.75  Aligned_cols=25  Identities=16%  Similarity=0.313  Sum_probs=21.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhcCCC
Q 030961            9 IKCVTVGDGAVGKTCMLICYTSNKF   33 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~~~~   33 (168)
                      .-+++.|++|+||||+.-.+.....
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g~   40 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRGH   40 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTTC
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcCC
Confidence            4689999999999999998887643

>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=95.51  E-value=0.0041  Score=41.23  Aligned_cols=21  Identities=24%  Similarity=0.264  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      +.+.|++|+|||.|++.+...
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~   59 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNE   59 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            789999999999999988764

>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=95.46  E-value=0.0062  Score=43.17  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=21.9

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..++|.|=|.-|+||||+++.|..
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~   28 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMAS   28 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHS
T ss_pred             ceEEEEEECCccCCHHHHHHHHHH
Confidence            578999999999999999998875

>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=95.45  E-value=0.0038  Score=41.74  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+++.|+||+|||+|+.++...
T Consensus        28 l~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          28 IILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4789999999999999988754

>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=95.41  E-value=0.0051  Score=41.19  Aligned_cols=22  Identities=18%  Similarity=0.102  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -+.+.|+||+|||+|...|...
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999753

>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=95.31  E-value=0.0043  Score=41.52  Aligned_cols=21  Identities=29%  Similarity=0.335  Sum_probs=18.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -|+|=|..||||||+++.|..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            478899999999999998875

>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=95.28  E-value=0.0046  Score=41.15  Aligned_cols=22  Identities=23%  Similarity=0.045  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -++|.|+||+|||+|+..+...
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            3789999999999999998753

>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=95.15  E-value=0.0051  Score=40.70  Aligned_cols=20  Identities=20%  Similarity=0.067  Sum_probs=17.8

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      |++=|..||||||+++.|..
T Consensus         6 I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            78999999999999988754

>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=95.15  E-value=0.0027  Score=44.14  Aligned_cols=21  Identities=10%  Similarity=0.219  Sum_probs=15.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -|.|.|.+||||||+.++|..
T Consensus         6 IIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            489999999999999997643

>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=95.13  E-value=0.0067  Score=39.91  Aligned_cols=21  Identities=5%  Similarity=0.146  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      .+++.|++|+||||++..+..
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            499999999999999997765

>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=95.11  E-value=0.0069  Score=42.68  Aligned_cols=20  Identities=25%  Similarity=0.446  Sum_probs=17.0

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      +++.|+||+|||.++..+-.
T Consensus       126 ~l~~G~pG~GKT~la~ala~  145 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGE  145 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHH
Confidence            45579999999999998865

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=94.95  E-value=0.0089  Score=42.26  Aligned_cols=24  Identities=17%  Similarity=0.236  Sum_probs=21.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..++|.|=|+-|+||||+++.|..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            467899999999999999998854

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=94.84  E-value=0.0079  Score=43.72  Aligned_cols=21  Identities=19%  Similarity=0.237  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      |++.|+.||||||++..++..
T Consensus       161 iLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         161 ILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEcCCCCCccHHHHHHhhh
Confidence            899999999999999998874

>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=94.79  E-value=0.0077  Score=39.73  Aligned_cols=20  Identities=25%  Similarity=0.395  Sum_probs=17.2

Q ss_pred             EEEEECCCCCCHHHHHHHHh
Q 030961           10 KCVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~   29 (168)
                      -+++.|+||+|||+|+..+.
T Consensus        28 ~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            46889999999999997764

>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=94.78  E-value=0.006  Score=42.09  Aligned_cols=15  Identities=27%  Similarity=0.671  Sum_probs=13.3

Q ss_pred             EEEECCCCCCHHHHH
Q 030961           11 CVTVGDGAVGKTCML   25 (168)
Q Consensus        11 i~vvG~~~~GKStli   25 (168)
                      ++|+|.||+||||++
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            789999999999764

>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=94.63  E-value=0.011  Score=40.35  Aligned_cols=20  Identities=10%  Similarity=0.164  Sum_probs=17.4

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      +++.|.||+|||+|+..+..
T Consensus        38 ~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            68999999999999887753

>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=94.62  E-value=0.011  Score=39.50  Aligned_cols=21  Identities=19%  Similarity=-0.007  Sum_probs=18.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      -|.+.|..||||||+++.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478899999999999998854

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=94.58  E-value=0.0075  Score=39.52  Aligned_cols=22  Identities=18%  Similarity=0.230  Sum_probs=19.0

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      --+++.|++++|||.++..+..
T Consensus        54 n~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          54 NCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             SEEEEESCGGGCHHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHHH
Confidence            3489999999999999988765

>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=94.50  E-value=0.015  Score=40.80  Aligned_cols=22  Identities=23%  Similarity=0.227  Sum_probs=18.6

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -.++++|++|+|||.++..+..
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            3578999999999999997754

>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=94.39  E-value=0.0081  Score=41.79  Aligned_cols=15  Identities=27%  Similarity=0.392  Sum_probs=13.4

Q ss_pred             EEEECCCCCCHHHHH
Q 030961           11 CVTVGDGAVGKTCML   25 (168)
Q Consensus        11 i~vvG~~~~GKStli   25 (168)
                      ++|.|.||+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            789999999999765

>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=94.29  E-value=0.01  Score=43.16  Aligned_cols=22  Identities=18%  Similarity=0.205  Sum_probs=18.7

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      -+++|+|.+|+|||+++..++.
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~   72 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAY   72 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHH
Confidence            4699999999999999876654

>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=94.11  E-value=0.0025  Score=41.08  Aligned_cols=18  Identities=17%  Similarity=0.431  Sum_probs=16.0

Q ss_pred             EEECCCCCCHHHHHHHHh
Q 030961           12 VTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        12 ~vvG~~~~GKStli~~l~   29 (168)
                      +++|+-|+||||++..+.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            578999999999999874

>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=93.87  E-value=0.012  Score=40.64  Aligned_cols=18  Identities=22%  Similarity=0.353  Sum_probs=16.1

Q ss_pred             EEEECCCCCCHHHHHHHH
Q 030961           11 CVTVGDGAVGKTCMLICY   28 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l   28 (168)
                      -+++|+-|||||+++..+
T Consensus        27 nvlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEEECCTTTCSTHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHH
Confidence            379999999999999876

>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=93.76  E-value=0.017  Score=39.21  Aligned_cols=19  Identities=21%  Similarity=0.354  Sum_probs=16.8

Q ss_pred             EEEECCCCCCHHHHHHHHh
Q 030961           11 CVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~   29 (168)
                      .++.|.+|+|||+|+..+.
T Consensus        32 ~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHH
Confidence            5789999999999998765

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.01  E-value=0.028  Score=40.32  Aligned_cols=18  Identities=22%  Similarity=0.398  Sum_probs=16.2

Q ss_pred             EEECCCCCCHHHHHHHHh
Q 030961           12 VTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        12 ~vvG~~~~GKStli~~l~   29 (168)
                      +++|+-|+|||+++..+.
T Consensus        29 ~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          29 SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEECSTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            688999999999999863

>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=92.96  E-value=0.032  Score=38.12  Aligned_cols=24  Identities=17%  Similarity=0.116  Sum_probs=20.1

Q ss_pred             eeeEEEEECCCCCCHHHHHHHHhc
Q 030961            7 RFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         7 ~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ++--+.+.|+++.|||+|++.+..
T Consensus       103 k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         103 KRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccEEEEEEcCCCCCHHHHHHHHHH
Confidence            345578899999999999998765

>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=92.93  E-value=0.033  Score=39.70  Aligned_cols=19  Identities=26%  Similarity=0.261  Sum_probs=15.9

Q ss_pred             EEEEECCCCCCHHHHHHHH
Q 030961           10 KCVTVGDGAVGKTCMLICY   28 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l   28 (168)
                      -.++.|+||+|||+++.++
T Consensus       165 ~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEEECCTTSTHHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHHH
Confidence            4788999999999988553

>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=92.84  E-value=0.03  Score=38.68  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      |+.++|++|+|||+|+..+...
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHH
Confidence            7899999999999999888753

>d1zpda1 c.31.1.3 (A:188-362) Pyruvate decarboxylase {Zymomonas mobilis [TaxId: 542]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Pyruvate decarboxylase
species: Zymomonas mobilis [TaxId: 542]

Probab=92.80  E-value=0.31  Score=30.58  Aligned_cols=55  Identities=16%  Similarity=0.196  Sum_probs=43.0

Q ss_pred             CCChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           89 LVSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        89 ~~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      .+|+.+++...++..+.+..  .+.|+|++|.......              ..+++.++++..++ +++.+
T Consensus         2 ~sd~~~l~~~v~~~~~~l~~--AkrPvIi~G~g~~~~~--------------a~~~l~~lae~~~~-Pv~tt   56 (175)
T d1zpda1           2 ASDEASLNAAVDETLKFIAN--RDKVAVLVGSKLRAAG--------------AEEAAVKFTDALGG-AVATM   56 (175)
T ss_dssp             CCCHHHHHHHHHHHHHHHTT--CSCEEEEECTTTTTTT--------------CHHHHHHHHHHHCC-CEEEE
T ss_pred             CCChHHHHHHHHHHHHHHHc--CCCEEEEECcCccccc--------------hHHHHHHHHHhhce-eEEec
Confidence            46788888877777777776  6799999998876543              36788999999999 77643

>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=92.51  E-value=0.06  Score=32.05  Aligned_cols=26  Identities=15%  Similarity=0.037  Sum_probs=22.2

Q ss_pred             cceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            5 ASRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         5 ~~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .++-+-|.+-|..|+|||++.+.|..
T Consensus         3 ~kqgf~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           3 PKQGFSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             GGCCEEEEECTTCCSCHHHHHHHHHH
T ss_pred             CccceEEEEeCCCCCCHHHHHHHHHH
Confidence            45678899999999999999998853

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=92.50  E-value=0.043  Score=37.39  Aligned_cols=37  Identities=24%  Similarity=0.266  Sum_probs=24.3

Q ss_pred             EEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcE-EEEeeCC
Q 030961           82 VFVLAFSLVSRASYENVLKKWIPELQHYSPGVPV-VLVGTKL  122 (168)
Q Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~-ivv~nK~  122 (168)
                      .+++|-.. ++.+..+. ......+...  ++|+ -+|.||.
T Consensus       200 ~~~lVt~p-e~~~~~~~-~r~~~~l~~~--gi~~~~vVvN~v  237 (296)
T d1ihua1         200 RLVLVARL-QKSTLQEV-ARTHLELAAI--GLKNQYLVINGV  237 (296)
T ss_dssp             EEEEEEES-CHHHHHHH-HHHHHHHHHH--TCCCEEEEEEEE
T ss_pred             eeeEecCc-chhHHHHH-HHHHHHHHhc--CCCceEEEEcCC
Confidence            55655543 56677777 7777777775  3555 4667986

>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=92.17  E-value=0.05  Score=37.02  Aligned_cols=22  Identities=18%  Similarity=0.188  Sum_probs=18.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      -..+.|++++|||+|+-.+...
T Consensus        56 itei~G~~gsGKTtl~l~~~~~   77 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIAA   77 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEecCCCcHHHHHHHHHHHH
Confidence            3678999999999999887654

>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=91.52  E-value=0.5  Score=30.58  Aligned_cols=67  Identities=10%  Similarity=0.058  Sum_probs=46.3

Q ss_pred             EEEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcEE-EEeeCCccccc
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPVV-LVGTKLDLRED  127 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~i-vv~nK~D~~~~  127 (168)
                      .+.+.++|+++....  .....+..+|.++++... +..++..+ .+....+.+  .+.|++ ++.|+.+....
T Consensus       111 ~~d~IiiD~~~~~~~--~~~~~l~~aD~viiv~~~-~~~s~~~~-~~~~~~~~~--~~~~~~giv~N~~~~~~~  178 (237)
T d1g3qa_         111 KFDFILIDCPAGLQL--DAMSAMLSGEEALLVTNP-EISCLTDT-MKVGIVLKK--AGLAILGFVLNRYGRSDR  178 (237)
T ss_dssp             GCSEEEEECCSSSSH--HHHHHHTTCSEEEEEECS-CHHHHHHH-HHHHHHHHH--TTCEEEEEEEEEETSCTT
T ss_pred             cCCEEEEcccccccc--cchhhhhhhhcccccccc-cceecchh-hHHHHHHhh--hhhhhhhhhhcccccccc
Confidence            456788999876432  233346679999998885 56677776 666676766  467765 88999986543

>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=90.73  E-value=0.073  Score=35.87  Aligned_cols=83  Identities=13%  Similarity=0.203  Sum_probs=47.2

Q ss_pred             EEEEEEeCCCCcccccc-ccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcE-EEEeeCCcccccchhh
Q 030961           56 VNLGLWDTAGQEDYNRL-RPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPV-VLVGTKLDLREDKHYL  131 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~-~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~-ivv~nK~D~~~~~~~~  131 (168)
                      +.+.++|+|+.-..... .......+|.++++.+. +..++... ......+....  .+.++ -++.|+.+....    
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~-~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~~----  189 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAA-NNISKGIQKYAKSGGVRLGGIICNSRKVANE----  189 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHH-HHHHHHHHHHBTTBBCEEEEEEEECCSSSCC----
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHH-HHHHHHHHhhccccceeccceEEeeecCCCc----
Confidence            55778999875432221 11223457888777765 66667665 45555554433  23333 377898876543    


Q ss_pred             hcCCCCCcccHHHHHHHHHHhCC
Q 030961          132 ADHPGLVPVTTAQGEELRKQIGA  154 (168)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~  154 (168)
                                .+..+++++.++.
T Consensus       190 ----------~~~~~~~~~~~~~  202 (269)
T d1cp2a_         190 ----------YELLDAFAKELGS  202 (269)
T ss_dssp             ----------HHHHHHHHHHHTC
T ss_pred             ----------cchhhhhHhhcCC
Confidence                      2345556666666

>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=90.04  E-value=0.098  Score=35.78  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      |+.++|.+|+|||+|+..+..+
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHH
Confidence            7899999999999999888653

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=89.76  E-value=0.086  Score=31.57  Aligned_cols=21  Identities=10%  Similarity=-0.032  Sum_probs=17.0

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..++.+++|+|||.++-.+..
T Consensus        10 ~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            357899999999999876554

>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=89.46  E-value=0.12  Score=34.62  Aligned_cols=22  Identities=18%  Similarity=0.280  Sum_probs=18.4

Q ss_pred             eEEEEECCCCCCHHHHHHHHhc
Q 030961            9 IKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli~~l~~   30 (168)
                      ..|++.|.+|+||+.++..+-.
T Consensus        24 ~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          24 CPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             SCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEECCCCcCHHHHHHHHHH
Confidence            3589999999999999887753

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=89.32  E-value=0.13  Score=31.39  Aligned_cols=17  Identities=24%  Similarity=0.266  Sum_probs=13.5

Q ss_pred             EEECCCCCCHHH-HHHHH
Q 030961           12 VTVGDGAVGKTC-MLICY   28 (168)
Q Consensus        12 ~vvG~~~~GKSt-li~~l   28 (168)
                      +++|+-.||||| |++++
T Consensus         6 ~i~GpMfsGKTteLi~~~   23 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRL   23 (139)
T ss_dssp             EEECSTTSCHHHHHHHHH
T ss_pred             EEEccccCHHHHHHHHHH
Confidence            568999999999 55554

>d7mdha1 c.2.1.5 (A:23-197) Malate dehydrogenase {Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]

Probab=89.27  E-value=0.37  Score=30.44  Aligned_cols=102  Identities=14%  Similarity=0.161  Sum_probs=55.8

Q ss_pred             ceeeEEEEECC-CCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc---------------
Q 030961            6 SRFIKCVTVGD-GAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY---------------   69 (168)
Q Consensus         6 ~~~~~i~vvG~-~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~---------------   69 (168)
                      .+.+||+++|. .++|-| ++.++..+..-..                ...+.+.++|.+.....               
T Consensus        22 k~~~kV~I~GA~G~Ig~~-l~~~La~g~v~g~----------------~~~i~L~L~di~~~~~~l~g~~mdl~d~a~~~   84 (175)
T d7mdha1          22 KKLVNIAVSGAAGMISNH-LLFKLASGEVFGQ----------------DQPIALKLLGSERSFQALEGVAMELEDSLYPL   84 (175)
T ss_dssp             CCCEEEEEETTTSHHHHH-HHHHHHHTTTTCT----------------TCCEEEEEECCGGGHHHHHHHHHHHHTTTCTT
T ss_pred             CCCcEEEEECCCcHHHHH-HHHHHHcCcccCC----------------CceEEEEEecCccccchhcchhhhhccccccc
Confidence            46789999996 777765 4545554432111                12234555665542110               


Q ss_pred             ------cccccccccCCcEEEEEEeCCCh-----hH-HH---HHHHhHHHHHchhCC-CCcEEEEeeCCcc
Q 030961           70 ------NRLRPLSYRGADVFVLAFSLVSR-----AS-YE---NVLKKWIPELQHYSP-GVPVVLVGTKLDL  124 (168)
Q Consensus        70 ------~~~~~~~~~~~~~~i~v~d~~~~-----~s-~~---~~~~~~~~~l~~~~~-~~p~ivv~nK~D~  124 (168)
                            ..-....++++|+++++......     .. +.   .+.+.+.+.+.++.+ +.-+++++|=.|.
T Consensus        85 ~~~~~~~~~~~~~~~~aDvVvi~ag~~rkpg~tR~Dll~~N~~I~k~~~~~i~~~a~~~~~vlvv~NPvd~  155 (175)
T d7mdha1          85 LREVSIGIDPYEVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASKNVKVLVVGNPCNT  155 (175)
T ss_dssp             EEEEEEESCHHHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHHH
T ss_pred             ccCccccccchhhccCCceEEEeeccCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCcEEEEecCcHHH
Confidence                  00112236789999998755421     11 11   223566667777764 5667777776664

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=89.00  E-value=0.13  Score=34.61  Aligned_cols=40  Identities=5%  Similarity=-0.072  Sum_probs=23.5

Q ss_pred             CcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCcE-EEEeeCCc
Q 030961           80 ADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVPV-VLVGTKLD  123 (168)
Q Consensus        80 ~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p~-ivv~nK~D  123 (168)
                      ++.+++|.. -+..++..+ .++.+.+.+..  .|+ -+|.|+.-
T Consensus       183 ~~~~vlV~~-p~~~~~~~~-~r~~~~l~~~~--~~~~~iV~N~~~  223 (279)
T d1ihua2         183 RTKVLLVTL-PETTPVLEA-ANLQADLERAG--IHPWGWIINNSL  223 (279)
T ss_dssp             TEEEEEEEC-SSHHHHHHH-HHHHHHHHHTT--CCCCEEEEEEES
T ss_pred             cccceEecc-ccHhHHHHH-HHHHHHHHhcC--CCccEEEEcCCc
Confidence            455666644 356677776 67777776654  333 24567753

>d1mlda1 c.2.1.5 (A:1-144) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=88.88  E-value=0.83  Score=27.69  Aligned_cols=50  Identities=12%  Similarity=0.301  Sum_probs=31.2

Q ss_pred             ccccCCcEEEEEEeCCC-----h-hHHH---HHHHhHHHHHchhCCCCcEEEEeeCCcc
Q 030961           75 LSYRGADVFVLAFSLVS-----R-ASYE---NVLKKWIPELQHYSPGVPVVLVGTKLDL  124 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~-----~-~s~~---~~~~~~~~~l~~~~~~~p~ivv~nK~D~  124 (168)
                      ..++++|++++..-...     + +-+.   .+.+.+.+.+.++.++.-++++.|=.|.
T Consensus        64 ~~~~~aDivVitag~~~~~g~sR~~ll~~N~~i~~~i~~~i~~~~p~~iiivvtNPvD~  122 (144)
T d1mlda1          64 DCLKGCDVVVIPAGVPRKPGMTRDDLFNTNATIVATLTAACAQHCPDAMICIISNPVNS  122 (144)
T ss_dssp             HHHTTCSEEEECCSCCCCTTCCGGGGHHHHHHHHHHHHHHHHHHCTTSEEEECSSCHHH
T ss_pred             HHhCCCCEEEECCCcCCCCCCCcchHHHHHHHHHHHHHHHHHhcCCCeEEEEecCchhh
Confidence            34678999998765321     1 1122   2236677777777777777777776663

>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=88.85  E-value=0.14  Score=33.15  Aligned_cols=25  Identities=12%  Similarity=-0.019  Sum_probs=21.6

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      .....+++.|++|+|||+++..+..
T Consensus        13 ~~~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          13 SEGISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             CSSEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            3567899999999999999988765

>d1t2da1 c.2.1.5 (A:1-150) Lactate dehydrogenase {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

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: Lactate dehydrogenase
species: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=88.04  E-value=0.9  Score=27.72  Aligned_cols=51  Identities=16%  Similarity=0.294  Sum_probs=32.4

Q ss_pred             cccccCCcEEEEEEeCCC----------hhH-HH---HHHHhHHHHHchhCCCCcEEEEeeCCcc
Q 030961           74 PLSYRGADVFVLAFSLVS----------RAS-YE---NVLKKWIPELQHYSPGVPVVLVGTKLDL  124 (168)
Q Consensus        74 ~~~~~~~~~~i~v~d~~~----------~~s-~~---~~~~~~~~~l~~~~~~~p~ivv~nK~D~  124 (168)
                      ...++++|+++++.-...          +.. +.   .+...+.+.+.+.+++.-++++-|=+|.
T Consensus        66 ~~~~~~advvvitag~~~~~g~~~~~~~R~~l~~~N~~iv~~i~~~i~~~~p~aivivvtNPvD~  130 (150)
T d1t2da1          66 YDDLAGADVVIVTAGFTKAPGKSDKEWNRDDLLPLNNKIMIEIGGHIKKNCPNAFIIVVTNPVDV  130 (150)
T ss_dssp             GGGGTTCSEEEECCSCSSCTTCCSTTCCGGGGHHHHHHHHHHHHHHHHHHCTTSEEEECSSSHHH
T ss_pred             ccccCCCcEEEEecccccCCCCCccccchhHHHHHHHHHHHHHHHHHHhcCCCeEEEEecCchHH
Confidence            356788999999877533          211 21   2235667777777777666777666654

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {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: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=87.88  E-value=0.16  Score=32.67  Aligned_cols=20  Identities=25%  Similarity=0.335  Sum_probs=16.6

Q ss_pred             EEEEECCC-CCCHHHHHHHHh
Q 030961           10 KCVTVGDG-AVGKTCMLICYT   29 (168)
Q Consensus        10 ~i~vvG~~-~~GKStli~~l~   29 (168)
                      |+.|.|-. ||||||+.--|.
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHH
Confidence            68899995 999999887554

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=87.78  E-value=0.19  Score=34.18  Aligned_cols=20  Identities=20%  Similarity=0.220  Sum_probs=17.4

Q ss_pred             EEEECCCCCCHHHHHHHHhc
Q 030961           11 CVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~   30 (168)
                      ..+.|++++|||+|+..+..
T Consensus        63 ~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          63 IEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             EEEECSSSSSHHHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHHHH
Confidence            57899999999999987764

>d1ez4a1 c.2.1.5 (A:16-162) Lactate dehydrogenase {Lactobacillus pentosus [TaxId: 1589]}

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: Lactate dehydrogenase
species: Lactobacillus pentosus [TaxId: 1589]

Probab=87.55  E-value=0.47  Score=28.90  Aligned_cols=49  Identities=12%  Similarity=0.141  Sum_probs=27.8

Q ss_pred             ccccCCcEEEEEEeCCChh------HH---HHHHHhHHHHHchhCCCCcEEEEeeCCc
Q 030961           75 LSYRGADVFVLAFSLVSRA------SY---ENVLKKWIPELQHYSPGVPVVLVGTKLD  123 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~~------s~---~~~~~~~~~~l~~~~~~~p~ivv~nK~D  123 (168)
                      ..++++|+++++.......      .+   ..+...+...+.++.++.-++++.|=+|
T Consensus        68 ~~~~~adivvitag~~~~~g~~r~~l~~~N~~i~~~~~~~i~~~~p~aivivvtNPvd  125 (146)
T d1ez4a1          68 SDCKDADLVVITAGAPQKPGESRLDLVNKNLNILSSIVKPVVDSGFDGIFLVAANPVD  125 (146)
T ss_dssp             GGGTTCSEEEECCCC----------CHHHHHHHHHHHHHHHHHTTCCSEEEECSSSHH
T ss_pred             HHhccccEEEEecccccCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCcEEEEeCCccH
Confidence            3568899999876542211      11   1123567777777766665666655444

>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=87.15  E-value=0.18  Score=34.21  Aligned_cols=87  Identities=11%  Similarity=0.105  Sum_probs=46.2

Q ss_pred             EEEEEEEeCCCCcccccccccc-ccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhC--CCCcE-EEEeeCCcccccchh
Q 030961           55 TVNLGLWDTAGQEDYNRLRPLS-YRGADVFVLAFSLVSRASYENVLKKWIPELQHYS--PGVPV-VLVGTKLDLREDKHY  130 (168)
Q Consensus        55 ~~~~~i~D~~g~~~~~~~~~~~-~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~--~~~p~-ivv~nK~D~~~~~~~  130 (168)
                      .+.+.++|+|+........... ...++.++++.. .+..++..+ ....+.+.+..  .+.++ -++.|+.+....   
T Consensus       118 ~~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~-~~~~s~~~~-~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~~---  192 (289)
T d2afhe1         118 DLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCS-GEMMAMYAA-NNISKGIVKYANSGSVRLGGLICNSRNTDRE---  192 (289)
T ss_dssp             TCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEEC-SSHHHHHHH-HHHHHHHHHHHTTSCCEEEEEEEECCCCTTH---
T ss_pred             cCCeEeeccCCccCHHHHHHHHHhhccceeecccc-hhHHHHHHH-HHHHHHHHhhhhcccccccceeehhhcchhh---
Confidence            3566788888754322221111 234666666654 456666655 45555554432  34454 377888764322   


Q ss_pred             hhcCCCCCcccHHHHHHHHHHhCCcEEE
Q 030961          131 LADHPGLVPVTTAQGEELRKQIGASYYI  158 (168)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (168)
                                 .+....+++.++. +++
T Consensus       193 -----------~~~~~~~~~~~g~-~vl  208 (289)
T d2afhe1         193 -----------DELIIALANKLGT-QMI  208 (289)
T ss_dssp             -----------HHHHHHHHHHHTS-CEE
T ss_pred             -----------HHHHHHHHHHcCC-eEE
Confidence                       2345566677776 443

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=87.10  E-value=0.14  Score=35.55  Aligned_cols=15  Identities=33%  Similarity=0.397  Sum_probs=13.5

Q ss_pred             EEEECCCCCCHHHHH
Q 030961           11 CVTVGDGAVGKTCML   25 (168)
Q Consensus        11 i~vvG~~~~GKStli   25 (168)
                      -++.|.+|.|||||-
T Consensus        17 alfFGLSGTGKTTLs   31 (313)
T d2olra1          17 AVFFGLSGTGKTTLS   31 (313)
T ss_dssp             EEEECSTTSSHHHHH
T ss_pred             EEEEccCCCCcccce
Confidence            379999999999977

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=86.62  E-value=0.14  Score=32.65  Aligned_cols=21  Identities=14%  Similarity=0.203  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      ++|.|...||||.+.-++...
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            589999999999999998753

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=86.59  E-value=0.2  Score=34.06  Aligned_cols=21  Identities=19%  Similarity=0.265  Sum_probs=18.0

Q ss_pred             EEEECCCCCCHHHHHHHHhcC
Q 030961           11 CVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~~~   31 (168)
                      ..+.|++++|||+|+..+...
T Consensus        60 tei~G~~~sGKT~l~l~~~~~   80 (268)
T d1xp8a1          60 TEIYGPESGGKTTLALAIVAQ   80 (268)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEecCCccchHHHHHHHHHH
Confidence            578999999999999887653

>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=85.79  E-value=0.17  Score=34.74  Aligned_cols=21  Identities=29%  Similarity=0.387  Sum_probs=18.4

Q ss_pred             EEEEECCCCCCHHHHHHHHhc
Q 030961           10 KCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~   30 (168)
                      |+.++|.+|+|||+|+..+..
T Consensus        70 r~~If~~~g~GKt~ll~~~~~   90 (285)
T d2jdia3          70 RELIIGDRQTGKTSIAIDTII   90 (285)
T ss_dssp             BCEEEESTTSSHHHHHHHHHH
T ss_pred             EEEeecCCCCChHHHHHHHHH
Confidence            789999999999999877654

>d1p3da1 c.5.1.1 (A:11-106) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=85.78  E-value=0.42  Score=26.89  Aligned_cols=33  Identities=12%  Similarity=0.207  Sum_probs=25.7

Q ss_pred             CCCCcceeeEEEEECCCCCCHHHHHHHHhcCCC
Q 030961            1 MASSASRFIKCVTVGDGAVGKTCMLICYTSNKF   33 (168)
Q Consensus         1 m~~~~~~~~~i~vvG~~~~GKStli~~l~~~~~   33 (168)
                      |...-+..-+|-|+|-.|+|-|+|+..|....+
T Consensus         1 ~~~~~~~~~~ihfiGigG~GMs~LA~~L~~~G~   33 (96)
T d1p3da1           1 IIPEMRRVQQIHFIGIGGAGMSGIAEILLNEGY   33 (96)
T ss_dssp             CCCCCTTCCEEEEETTTSTTHHHHHHHHHHHTC
T ss_pred             CCccchhCCEEEEEEECHHHHHHHHHHHHhCCC
Confidence            334445667899999999999999988876554

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=85.76  E-value=0.19  Score=35.08  Aligned_cols=15  Identities=33%  Similarity=0.375  Sum_probs=13.7

Q ss_pred             EEEECCCCCCHHHHH
Q 030961           11 CVTVGDGAVGKTCML   25 (168)
Q Consensus        11 i~vvG~~~~GKStli   25 (168)
                      -++.|.+|.|||||-
T Consensus        17 alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          17 TVFFGLSGTGKTTLS   31 (323)
T ss_dssp             EEEECCTTSSHHHHH
T ss_pred             EEEEccCCCCcccce
Confidence            469999999999998

>d1a5za1 c.2.1.5 (A:22-163) Lactate dehydrogenase {Thermotoga maritima [TaxId: 2336]}

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: Lactate dehydrogenase
species: Thermotoga maritima [TaxId: 2336]

Probab=85.52  E-value=1.5  Score=26.30  Aligned_cols=49  Identities=24%  Similarity=0.450  Sum_probs=28.5

Q ss_pred             ccccCCcEEEEEEeCCC-----h-hHHH---HHHHhHHHHHchhCCCCcEEEEeeCCc
Q 030961           75 LSYRGADVFVLAFSLVS-----R-ASYE---NVLKKWIPELQHYSPGVPVVLVGTKLD  123 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~-----~-~s~~---~~~~~~~~~l~~~~~~~p~ivv~nK~D  123 (168)
                      ..++++|++++..-...     + +.+.   .+...+.+.+.+.+++.-++++.|=+|
T Consensus        63 ~~~~~adivvitag~~~~~g~~r~dl~~~N~~I~~~i~~~i~~~~p~aivivvtNPvd  120 (140)
T d1a5za1          63 ADLKGSDVVIVAAGVPQKPGETRLQLLGRNARVMKEIARNVSKYAPDSIVIVVTNPVD  120 (140)
T ss_dssp             GGGTTCSEEEECCCCCCCSSCCHHHHHHHHHHHHHHHHHHHHHHCTTCEEEECSSSHH
T ss_pred             HHhcCCCEEEEecccccCCCcchhhhhccccchHHHHHHHHHhcCCCcEEEEeCCcHH
Confidence            35789999988864422     2 2111   123556677777777665666555444

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=85.27  E-value=0.16  Score=35.37  Aligned_cols=16  Identities=31%  Similarity=0.360  Sum_probs=14.0

Q ss_pred             EEEECCCCCCHHHHHH
Q 030961           11 CVTVGDGAVGKTCMLI   26 (168)
Q Consensus        11 i~vvG~~~~GKStli~   26 (168)
                      -++.|.+|.|||||-.
T Consensus        17 alffGLSGTGKTTLs~   32 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLST   32 (318)
T ss_dssp             EEEEECTTSCHHHHTC
T ss_pred             EEEEccCCCCcccccc
Confidence            4899999999999763

>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=84.39  E-value=3.6  Score=26.45  Aligned_cols=25  Identities=16%  Similarity=-0.040  Sum_probs=16.4

Q ss_pred             ceeeEEEEECCCCCCHHHHHHHHhc
Q 030961            6 SRFIKCVTVGDGAVGKTCMLICYTS   30 (168)
Q Consensus         6 ~~~~~i~vvG~~~~GKStli~~l~~   30 (168)
                      +.+.-|+++|++|+||||.+-+|..
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~   34 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAY   34 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3456688899999999999888753

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=83.54  E-value=0.26  Score=33.62  Aligned_cols=22  Identities=27%  Similarity=0.345  Sum_probs=18.7

Q ss_pred             EEEEECCCCCCHHHHHHHHhcC
Q 030961           10 KCVTVGDGAVGKTCMLICYTSN   31 (168)
Q Consensus        10 ~i~vvG~~~~GKStli~~l~~~   31 (168)
                      |+.++|.+|+|||+|+..+...
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~   90 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILN   90 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHT
T ss_pred             eEeeccCCCCChHHHHHHHHhh
Confidence            6889999999999999776544

>d1ovma1 c.31.1.3 (A:181-341) Indole-3-pyruvate decarboxylase {Enterobacter cloacae [TaxId: 550]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Indole-3-pyruvate decarboxylase
species: Enterobacter cloacae [TaxId: 550]

Probab=82.99  E-value=1.8  Score=26.40  Aligned_cols=55  Identities=7%  Similarity=-0.110  Sum_probs=38.9

Q ss_pred             CChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEec
Q 030961           90 VSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIECS  161 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  161 (168)
                      ++.+.++...+.....+..  .+.|+++++......              -..+++++++++.++ +++.+.
T Consensus        10 ~~~~~l~a~~~~a~~~l~~--AkrP~il~G~gv~~~--------------~a~~~l~~l~e~~~i-Pv~tt~   64 (161)
T d1ovma1          10 ADSACLKAFRDAAENKLAM--SKRTALLADFLVLRH--------------GLKHALQKWVKEVPM-AHATML   64 (161)
T ss_dssp             CCHHHHHHHHHHHHHHHHT--CSCEEEEECHHHHHT--------------TCHHHHHHHHHHSCC-EEEECG
T ss_pred             CCHHHHHHHHHHHHHHHHc--CCCcEEEECcCcChh--------------hhHHHHHHHHHhcCc-cEEEcC
Confidence            3556666665556666666  579999998655432              246789999999999 777654

>d1ldna1 c.2.1.5 (A:15-162) Lactate dehydrogenase {Bacillus stearothermophilus [TaxId: 1422]}

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: Lactate dehydrogenase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=82.81  E-value=2.3  Score=25.62  Aligned_cols=50  Identities=10%  Similarity=0.148  Sum_probs=30.6

Q ss_pred             ccccCCcEEEEEEeCCCh------hHHH---HHHHhHHHHHchhCCCCcEEEEeeCCcc
Q 030961           75 LSYRGADVFVLAFSLVSR------ASYE---NVLKKWIPELQHYSPGVPVVLVGTKLDL  124 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~~------~s~~---~~~~~~~~~l~~~~~~~p~ivv~nK~D~  124 (168)
                      ..++++|++++..-....      +.+.   .+.+.+.+.+.++.++.-++++-|=+|.
T Consensus        70 ~~l~daDvvvitag~~~~~~~~R~dl~~~N~~i~~~i~~~i~~~~p~a~~ivvtNPvd~  128 (148)
T d1ldna1          70 DDCRDADLVVICAGANQKPGETRLDLVDKNIAIFRSIVESVMASGFQGLFLVATNPVDI  128 (148)
T ss_dssp             GGTTTCSEEEECCSCCCCTTTCSGGGHHHHHHHHHHHHHHHHHHTCCSEEEECSSSHHH
T ss_pred             HHhccceeEEEecccccccCcchhHHHHHHHHHHHHHHHHHHhhCCCceEEEecCccHH
Confidence            457789999987654321      2222   2235667777777777766676665554

>d1pvda1 c.31.1.3 (A:182-360) Pyruvate decarboxylase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Pyruvate decarboxylase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.12  E-value=3.2  Score=25.70  Aligned_cols=54  Identities=13%  Similarity=0.072  Sum_probs=37.8

Q ss_pred             CChhHHHHHHHhHHHHHchhCCCCcEEEEeeCCcccccchhhhcCCCCCcccHHHHHHHHHHhCCcEEEEe
Q 030961           90 VSRASYENVLKKWIPELQHYSPGVPVVLVGTKLDLREDKHYLADHPGLVPVTTAQGEELRKQIGASYYIEC  160 (168)
Q Consensus        90 ~~~~s~~~~~~~~~~~l~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (168)
                      ++++..++..+...+.+.+  .+.|+|++|..+...              -..+++.++++..++ +++.+
T Consensus        11 ~~~~~~~~~i~~~~~~l~~--AkrPvii~G~g~~~~--------------~a~~~l~~lae~~~~-Pv~tt   64 (179)
T d1pvda1          11 NDAESEKEVIDTILALVKD--AKNPVILADACCSRH--------------DVKAETKKLIDLTQF-PAFVT   64 (179)
T ss_dssp             CCHHHHHHHHHHHHHHHHH--CSSEEEEECGGGTTT--------------STHHHHHHHHHHHCC-CEEEC
T ss_pred             CCCcccHHHHHHHHHHHHh--CCCCEEEEecccchh--------------hhHHHHHHHHHhhCc-eEEec
Confidence            3455555554666666666  579999999766543              246889999999998 66553

>d1hyha1 c.2.1.5 (A:21-166) L-2-hydroxyisocapronate dehydrogenase, L-HICDH {Lactobacillus confusus [TaxId: 1583]}

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: L-2-hydroxyisocapronate dehydrogenase, L-HICDH
species: Lactobacillus confusus [TaxId: 1583]

Probab=82.11  E-value=1.4  Score=26.62  Aligned_cols=50  Identities=16%  Similarity=0.230  Sum_probs=29.5

Q ss_pred             ccccCCcEEEEEEeCCC---------h-hHH---HHHHHhHHHHHchhCCCCcEEEEeeCCcc
Q 030961           75 LSYRGADVFVLAFSLVS---------R-ASY---ENVLKKWIPELQHYSPGVPVVLVGTKLDL  124 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~---------~-~s~---~~~~~~~~~~l~~~~~~~p~ivv~nK~D~  124 (168)
                      ..++++|+++++.-...         + +-+   ..+.+++.+.+.++.++.-++++.|=+|.
T Consensus        65 ~~l~~adiVVitaG~~~~~~~~~g~~R~~l~~~N~~i~~~i~~~i~~~~p~aivivvtNPvD~  127 (146)
T d1hyha1          65 AALADADVVISTLGNIKLQQDNPTGDRFAELKFTSSMVQSVGTNLKESGFHGVLVVISNPVDV  127 (146)
T ss_dssp             GGGTTCSEEEECCSCGGGTC-------CTTHHHHHHHHHHHHHHHHHTTCCSEEEECSSSHHH
T ss_pred             HHhccccEEEEeccccccccccCCccHHHHHHHHHHHHHHHHHHHhhcCCCeEEEEecCcHHH
Confidence            45788999998755321         1 111   12236677777777766666676665554

>d5mdha1 c.2.1.5 (A:1-154) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=82.11  E-value=0.66  Score=28.39  Aligned_cols=101  Identities=16%  Similarity=0.210  Sum_probs=52.8

Q ss_pred             eeeEEEEECC-CCCCHHHHHHHHhcCCCCCCCCCceeeceeEEEEECCeEEEEEEEeCCCCccc----------------
Q 030961            7 RFIKCVTVGD-GAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVVAEGTTVNLGLWDTAGQEDY----------------   69 (168)
Q Consensus         7 ~~~~i~vvG~-~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----------------   69 (168)
                      .++||.++|. .++|.+... .+..+..-..                .....+.++|.......                
T Consensus         2 ~p~KV~IiGA~G~VG~~la~-~l~~~~~~~~----------------~~~~~L~l~d~~~~~~~~~~l~~~~~~~~~~~~   64 (154)
T d5mdha1           2 EPIRVLVTGAAGQIAYSLLY-SIGNGSVFGK----------------DQPIILVLLDITPMMGVLDGVLMELQDCALPLL   64 (154)
T ss_dssp             CCEEEEESSTTSHHHHTTHH-HHHTTTTTCT----------------TCCEEEEEECCGGGHHHHHHHHHHHHHTCCTTE
T ss_pred             CceEEEEECCCCHHHHHHHH-HHHHHHhcCC----------------CCccEEEEecCccchhhhhhhhhhhcccccccc
Confidence            4789999995 788887555 4544332111                11234555665542110                


Q ss_pred             c-----ccccccccCCcEEEEEEeCC------ChhHHHHH---HHhHHHHHchhCCCCc-EEEEeeCCcc
Q 030961           70 N-----RLRPLSYRGADVFVLAFSLV------SRASYENV---LKKWIPELQHYSPGVP-VVLVGTKLDL  124 (168)
Q Consensus        70 ~-----~~~~~~~~~~~~~i~v~d~~------~~~s~~~~---~~~~~~~l~~~~~~~p-~ivv~nK~D~  124 (168)
                      .     .-....++++|++++.-...      +.+-+...   .+.+...+.++.+... ++++.|-+|.
T Consensus        65 ~~~~~~~~~~~~~~~~dvVVitag~~~~~g~sr~dll~~N~~i~k~~~~~i~k~a~~~~~iivvsNPvD~  134 (154)
T d5mdha1          65 KDVIATDKEEIAFKDLDVAILVGSMPRRDGMERKDLLKANVKIFKCQGAALDKYAKKSVKVIVVGNPANT  134 (154)
T ss_dssp             EEEEEESCHHHHTTTCSEEEECCSCCCCTTCCTTTTHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHHH
T ss_pred             cccccCcccccccCCceEEEEecccCCCCCCchhHHHHHhHHHHHHHHHHHHhhCCCceEEEEecCcHHH
Confidence            0     00123466788888876432      22222222   2455566666665544 4566776664

>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=81.23  E-value=0.57  Score=30.95  Aligned_cols=19  Identities=16%  Similarity=0.188  Sum_probs=16.9

Q ss_pred             EEEECCCCCCHHHHHHHHh
Q 030961           11 CVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~   29 (168)
                      +++-|+-.+||||++..+.
T Consensus        44 ~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHH
Confidence            6889999999999998764

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=81.18  E-value=0.26  Score=28.98  Aligned_cols=17  Identities=24%  Similarity=0.118  Sum_probs=13.2

Q ss_pred             eEEEEECCCCCCHHHHH
Q 030961            9 IKCVTVGDGAVGKTCML   25 (168)
Q Consensus         9 ~~i~vvG~~~~GKStli   25 (168)
                      -.+++.+++|+|||..+
T Consensus         8 ~~~il~~~tGsGKT~~~   24 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRF   24 (140)
T ss_dssp             CEEEECCCTTSSTTTTH
T ss_pred             CcEEEEcCCCCChhHHH
Confidence            45688899999999433

>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=80.92  E-value=0.57  Score=30.75  Aligned_cols=19  Identities=21%  Similarity=0.303  Sum_probs=16.9

Q ss_pred             EEEECCCCCCHHHHHHHHh
Q 030961           11 CVTVGDGAVGKTCMLICYT   29 (168)
Q Consensus        11 i~vvG~~~~GKStli~~l~   29 (168)
                      +++-|+-.+||||++..+.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            7899999999999998754

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {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: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=80.52  E-value=0.6  Score=29.42  Aligned_cols=16  Identities=31%  Similarity=0.524  Sum_probs=13.2

Q ss_pred             EEEEECCCCCCHHHHH
Q 030961           10 KCVTVGDGAVGKTCML   25 (168)
Q Consensus        10 ~i~vvG~~~~GKStli   25 (168)
                      +++++++.|+|||...
T Consensus        25 n~lv~~pTGsGKT~i~   40 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIA   40 (200)
T ss_dssp             CEEEECCTTSCHHHHH
T ss_pred             CeEEEeCCCCcHHHHH
Confidence            5788999999999643

>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=80.39  E-value=0.59  Score=30.15  Aligned_cols=64  Identities=11%  Similarity=0.043  Sum_probs=39.6

Q ss_pred             EEEEEEeCCCCccccccccccccCCcEEEEEEeCCChhHHHHHHHhHHHHHchhCCCCc-EEEEeeCCccc
Q 030961           56 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLVSRASYENVLKKWIPELQHYSPGVP-VVLVGTKLDLR  125 (168)
Q Consensus        56 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~l~~~~~~~p-~ivv~nK~D~~  125 (168)
                      +.+.++|+|+....  .....+..+|.++++... +..++... .+....+++..  .+ +-++.|+.+..
T Consensus       110 ~D~viiD~~~~~~~--~~~~~l~~ad~v~~v~~~-~~~~~~~~-~~~~~~~~~~~--~~~~~iv~N~~~~~  174 (232)
T d1hyqa_         110 TDILLLDAPAGLER--SAVIAIAAAQELLLVVNP-EISSITDG-LKTKIVAERLG--TKVLGVVVNRITTL  174 (232)
T ss_dssp             CSEEEEECCSSSSH--HHHHHHHHSSEEEEEECS-SHHHHHHH-HHHHHHHHHHT--CEEEEEEEEEECTT
T ss_pred             cceeeecccccccc--hhHHHhhhhheeeeeccc-cccchhhh-hhhhhhhhhcc--cccccccccccccc
Confidence            44678998876432  222345678999988875 45566555 44555555543  34 34788988643

>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=80.14  E-value=1.4  Score=26.79  Aligned_cols=50  Identities=18%  Similarity=0.279  Sum_probs=30.0

Q ss_pred             ccccCCcEEEEEEeCCC-----hhH-HH---HHHHhHHHHHchhCC-CCcEEEEeeCCcc
Q 030961           75 LSYRGADVFVLAFSLVS-----RAS-YE---NVLKKWIPELQHYSP-GVPVVLVGTKLDL  124 (168)
Q Consensus        75 ~~~~~~~~~i~v~d~~~-----~~s-~~---~~~~~~~~~l~~~~~-~~p~ivv~nK~D~  124 (168)
                      ..++++|++++......     +.. +.   ...+.+...+.++.+ +.-++++.|-+|.
T Consensus        76 ~~~~~advViitaG~~~~pg~~r~dl~~~N~~i~~~~~~~i~k~a~~~~~vivvsNPvDv  135 (154)
T d1y7ta1          76 VAFKDADYALLVGAAPRKAGMERRDLLQVNGKIFTEQGRALAEVAKKDVKVLVVGNPANT  135 (154)
T ss_dssp             HHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHHH
T ss_pred             hhcccccEEEeecCcCCCCCCcHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEecCcHHH
Confidence            45789999999876532     211 11   122566666777664 4556667776664