Psyllid ID: psy8220

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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-
Protein Sequence
MRSVKPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDLE
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHHHHHHHcccEEEEEEEEccccccccHHHHHHHHccccccEEEEEcccccccHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccEEEEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHHHHHHHHHccEEEEEEccccccccccHHHHHHHHHccccEEEEEEEcccccccccccccHHHHHHHHHHHHHHcccccEEEEEcccccccccccccccccccccccHHHHHHHHHHHHHccccccEEEEEEEEcccccccHHccc
Coil and Loop (DISEMBL)
mrsvkpmemRGVVVQEIERSVVEAADVILEVVdardpmgtrckvaedlvvgtpgkKLVIVINKagkpstkiqsgsMAQIFQTwipynsiqsiyssprfssrsqkdaqterdlkaiNVSSCVGAELLMLLLGnytrnkdiktSITVGVVGecniagsirdle
Flexible Loop (DISEMBL)
mrsvkpmemrgvVVQEIERSVVEAADVILEvvdardpmgtrckvaedlvvgtpgkkLVIVINKAgkpstkiqsgSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRnkdiktsitvgvvgecniagsirdle
Low Complexity Region (SEG)
MRSVKPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNsiqsiyssprfssrsqKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDLE
Disordered region (IsUnstruct)
**********GVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGK***KIQSGSMAQIFQTWIPYNSIQSIY******************LKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGS*****
Disordered Region (DISOPRED)
***********VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS*************************VGAELLML**************ITVGVVGECNIAGSI****
Disordered Region (DISEMBL)
********MRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGK********SMAQIFQTWIPYNSIQSIYS***************RDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDLE
Disordered Region (DISPRO)
******MEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRS****************SCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAG******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRSVKPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDLE
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	161	2.2.26 [Sep-21-2011]
Q8MT06	581	Guanine nucleotide-bindin	yes	N/A	0.801	0.222	0.465	6e-24
Q21086	556	Guanine nucleotide-bindin	yes	N/A	0.795	0.230	0.415	3e-18
Q54KS4	615	Guanine nucleotide-bindin	yes	N/A	0.770	0.201	0.339	3e-15
Q9NVN8	582	Guanine nucleotide-bindin	yes	N/A	0.776	0.214	0.370	4e-15
Q6PGG6	577	Guanine nucleotide-bindin	yes	N/A	0.763	0.213	0.370	2e-14
Q3T0J9	575	Guanine nucleotide-bindin	yes	N/A	0.826	0.231	0.35	2e-14
Q9BVP2	549	Guanine nucleotide-bindin	no	N/A	0.838	0.245	0.298	8e-12
Q6DRP2	561	Guanine nucleotide-bindin	no	N/A	0.819	0.235	0.309	1e-11
P40010	520	Nuclear GTP-binding prote	yes	N/A	0.826	0.255	0.318	5e-11
O74791	470	GTPase grn1 OS=Schizosacc	yes	N/A	0.863	0.295	0.343	7e-11

>sp|Q8MT06|GNL3_DROME Guanine nucleotide-binding protein-like 3 homolog OS=Drosophila melanogaster GN=ns1 PE=1 SV=2

 Score =  109 bits (273), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 68/146 (46%), Positives = 86/146 (58%), Gaps = 17/146 (11%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
           R V+E ADV+LEVVDARDP+GTRC   E  V G PG K+LV+V+NKA   P   + +   
Sbjct: 145 RKVIENADVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENLNN--- 201

Query: 77  AQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDL------KAINVSSCVGAELLMLLL 130
                 WI Y       ++ + S++ Q +    R L      KA+  S C+GAELLM +L
Sbjct: 202 ------WIKYFRRSGPVTAFKASTQDQANRLGRRKLREMKTEKAMQGSVCIGAELLMSML 255

Query: 131 GNYTRNKDIKTSITVGVVGECNIAGS 156
           GNY RNK IKTSI VGVVG  N+  S
Sbjct: 256 GNYCRNKGIKTSIRVGVVGIPNVGKS 281

May play a role in regulating cellular proliferation.
Drosophila melanogaster (taxid: 7227)

>sp|Q21086|GNL3_CAEEL Guanine nucleotide-binding protein-like 3 homolog OS=Caenorhabditis elegans GN=nst-1 PE=3 SV=1

 Score = 91.3 bits (225), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 59/142 (41%), Positives = 82/142 (57%), Gaps = 14/142 (9%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGK-PSTKIQSGSMA 77
           R  VE ADVI++V+DARDP+G+R K  ED V+   GK+LV+++NK    P   +Q     
Sbjct: 142 RKTVEIADVIIQVLDARDPLGSRSKSVEDQVLKG-GKRLVLLLNKIDLVPRENVQK---- 196

Query: 78  QIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAIN---VSSCVGAELLMLLLGNYT 134
                W+ Y   Q    + + S++ QK      +   +N    S CVGA+++M +L NY 
Sbjct: 197 -----WLEYLRGQFPTIAFKASTQEQKSNIGRFNSAILNNTETSKCVGADIVMKILANYC 251

Query: 135 RNKDIKTSITVGVVGECNIAGS 156
           RNKDIKTSI VGVVG  N+  S
Sbjct: 252 RNKDIKTSIRVGVVGFPNVGKS 273

May play a role in regulating cellular proliferation in both germline and somatic tissues.

Caenorhabditis elegans (taxid: 6239)

>sp|Q54KS4|GNL3_DICDI Guanine nucleotide-binding protein-like 3 homolog OS=Dictyostelium discoideum GN=gnl3 PE=3 SV=1

 Score = 81.3 bits (199), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 52/153 (33%), Positives = 83/153 (54%), Gaps = 29/153 (18%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVG-TPGKKLVIVINKAGK-PSTKIQSGSM 76
           + V+EA DVIL+V+DARDPMG RC   E +++     KK+V+++NK    P   +     
Sbjct: 139 KKVIEAGDVILQVLDARDPMGCRCLEIEKMILERYTNKKIVLILNKIDLVPRENV----- 193

Query: 77  AQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDL-------------KAINVSSCVGA 123
                 W+ Y  +++ Y +  F   +Q   Q +R+L               +N +  +GA
Sbjct: 194 ----LMWLKY--LRNFYPTLAFKCSTQ---QQKRNLGQQGGIQPELASNDMLNSTESLGA 244

Query: 124 ELLMLLLGNYTRNKDIKTSITVGVVGECNIAGS 156
           E L+ LL NY+R+ +IKTS+TVG++G  N+  S
Sbjct: 245 EQLLQLLKNYSRSLNIKTSVTVGIIGYPNVGKS 277

Dictyostelium discoideum (taxid: 44689)

>sp|Q9NVN8|GNL3L_HUMAN Guanine nucleotide-binding protein-like 3-like protein OS=Homo sapiens GN=GNL3L PE=1 SV=1

 Score = 80.9 bits (198), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 56/151 (37%), Positives = 81/151 (53%), Gaps = 26/151 (17%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGKPSTKIQSGSMA 77
           R VVE +DVILEV+DARDP+G RC   E+ V+   G KKLV+V+NK              
Sbjct: 129 RKVVEYSDVILEVLDARDPLGCRCFQMEEAVLRAQGNKKLVLVLNKIDLVPK-------- 180

Query: 78  QIFQTWIPYNSIQSIYSSPRFSSRSQK------------DAQTERDLKAINVSSCVGAEL 125
           ++ + W+ Y  +++   +  F + +Q             D  +E  LK+    +C GAE 
Sbjct: 181 EVVEKWLDY--LRNELPTVAFKASTQHQVKNLNRCSVPVDQASESLLKS---KACFGAEN 235

Query: 126 LMLLLGNYTRNKDIKTSITVGVVGECNIAGS 156
           LM +LGNY R  +++T I VGVVG  N+  S
Sbjct: 236 LMRVLGNYCRLGEVRTHIRVGVVGLPNVGKS 266

Required for normal processing of ribosomal pre-rRNA. Required for cell proliferation. Binds GTP.

Homo sapiens (taxid: 9606)

>sp|Q6PGG6|GNL3L_MOUSE Guanine nucleotide-binding protein-like 3-like protein OS=Mus musculus GN=Gnl3l PE=1 SV=1

 Score = 78.2 bits (191), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 57/154 (37%), Positives = 80/154 (51%), Gaps = 31/154 (20%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGKPSTKIQSGSMA 77
           R VVE +DVILEV+DARDP+G RC   E+ V+   G KKLV+V+NK              
Sbjct: 122 RKVVEYSDVILEVLDARDPLGCRCFQMEETVLRAEGNKKLVLVLNKIDLVP--------K 173

Query: 78  QIFQTWIPY--NSIQSIYSSPRFSSRSQK-------------DAQTERDLKAINVSSCVG 122
           +I + W+ Y  N + ++     F + +Q              D  +E  LK+    +C G
Sbjct: 174 EIVEKWLEYLLNELPTVA----FKASTQHHQVKNLTRCKVPVDQASESLLKS---RACFG 226

Query: 123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGS 156
           AE LM +LGNY R  +++  I VGVVG  N+  S
Sbjct: 227 AENLMRVLGNYCRLGEVRGHIRVGVVGLPNVGKS 260

Required for normal processing of ribosomal pre-rRNA. Required for cell proliferation. Binds GTP.

Mus musculus (taxid: 10090)

>sp|Q3T0J9|GNL3L_BOVIN Guanine nucleotide-binding protein-like 3-like protein OS=Bos taurus GN=GNL3L PE=2 SV=1

 Score = 78.2 bits (191), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 56/160 (35%), Positives = 84/160 (52%), Gaps = 27/160 (16%)

Query: 10  RGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGKPS 68
           R    +E  + VVE +DVILEV+D+RDP+G RC   E+ V+   G KKLV+V+NK     
Sbjct: 114 RKAYYKEFHK-VVEYSDVILEVLDSRDPLGCRCFQMEETVLRAEGNKKLVLVLNKIDLVP 172

Query: 69  TKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQK------------DAQTERDLKAIN 116
                    ++ + W+ Y  +++   +  F + +Q             D  +E  LK+  
Sbjct: 173 K--------EVVEKWLEY--LRNELPTVAFKASTQHQVKNLNRCSVPVDQASESLLKS-- 220

Query: 117 VSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGS 156
             +C GAE LM +LGNY R  +++T I VGVVG  N+  S
Sbjct: 221 -KACFGAENLMRVLGNYCRLGEVRTHIRVGVVGLPNVGKS 259

Required for normal processing of ribosomal pre-rRNA. Required for cell proliferation. Binds GTP.

Bos taurus (taxid: 9913)

>sp|Q9BVP2|GNL3_HUMAN Guanine nucleotide-binding protein-like 3 OS=Homo sapiens GN=GNL3 PE=1 SV=2

 Score = 69.7 bits (169), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 46/154 (29%), Positives = 78/154 (50%), Gaps = 19/154 (12%)

Query: 10  RGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGK-PS 68
           + +  QE+++ V+EA+DV+LEV+DARDP+G RC   E+ +V +  KKLV+++NK+   P 
Sbjct: 127 KKLYCQELKK-VIEASDVVLEVLDARDPLGCRCPQVEEAIVQSGQKKLVLILNKSDLVPK 185

Query: 69  TKIQSGSMAQIFQTWIPY------NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVG 122
             ++S         W+ Y        +    + P+   +  K  + +++        C G
Sbjct: 186 ENLES---------WLNYLKKELPTVVFRASTKPKDKGKITKRVKAKKNAAPFRSEVCFG 236

Query: 123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGS 156
            E L  LLG +        +I VGV+G  N+  S
Sbjct: 237 KEGLWKLLGGFQET--CSKAIRVGVIGFPNVGKS 268

May be required to maintain the proliferative capacity of stem cells and may play an important role in tumorigenesis.

Homo sapiens (taxid: 9606)

>sp|Q6DRP2|GNL3_DANRE Guanine nucleotide-binding protein-like 3 OS=Danio rerio GN=gnl3 PE=2 SV=1

 Score = 69.3 bits (168), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 47/152 (30%), Positives = 79/152 (51%), Gaps = 20/152 (13%)

Query: 15  QEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQ 72
           QE+ + V+EA+DVI+EV+DARDP+G RC   E++V+   G KKL+ ++NK    P   ++
Sbjct: 134 QELNK-VIEASDVIVEVLDARDPLGCRCPQLEEMVLKHEGKKKLLFILNKIDLVPKDNLE 192

Query: 73  SGSMAQIFQTWIPYNSIQS----IYSSPRFSSRSQKDAQTERDLKAI----NVSSCVGAE 124
                     W+ +   +       SS +   R+ +  + +R   A+      +SC G +
Sbjct: 193 K---------WLHFLEAECPTFLFKSSMQLKDRTVQQKRQQRGTNAVLDHSRAASCFGKD 243

Query: 125 LLMLLLGNYTRNKDIKTSITVGVVGECNIAGS 156
            L+  L +    K+ +T + VGVVG  N+  S
Sbjct: 244 FLLQTLNDLANKKEGETMLKVGVVGFPNVGKS 275

May play a role in regulating cellular proliferation.

Danio rerio (taxid: 7955)

>sp|P40010|NUG1_YEAST Nuclear GTP-binding protein NUG1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NUG1 PE=1 SV=1

 Score = 67.0 bits (162), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 79/154 (51%), Gaps = 21/154 (13%)

Query: 7   MEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAG- 65
           +E       +I +SV++A+DVIL V+DARDP  TR +  E+ V+ + GK+L++++NK   
Sbjct: 158 LEKSRKAYDKIFKSVIDASDVILYVLDARDPESTRSRKVEEAVLQSQGKRLILILNKVDL 217

Query: 66  -KPSTKIQSGSMAQIFQTWIPYNSIQSIYSS-P-RFSSRSQKDAQTERDLKAINVSSCVG 122
             P           + + W+ Y  ++S + + P R SS +       R L     S    
Sbjct: 218 IPP----------HVLEQWLNY--LKSSFPTIPLRASSGAVNGTSFNRKL-----SQTTT 260

Query: 123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGS 156
           A  L+  L  Y+ N ++K SI VGV+G  N+  S
Sbjct: 261 ASALLESLKTYSNNSNLKRSIVVGVIGYPNVGKS 294

GTPase required for 60S ribosomal subunit export to the cytoplasm.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|O74791|GRN1_SCHPO GTPase grn1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=grn1 PE=1 SV=1

 Score = 66.2 bits (160), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 54/157 (34%), Positives = 82/157 (52%), Gaps = 18/157 (11%)

Query: 3   SVKPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG--KKLVIV 60
           SVK    R    +E ++ VVEA+DVIL V+DARDP GTR K  E  V+ +    K+L+ V
Sbjct: 142 SVKADTSRKAYDKEFKK-VVEASDVILYVLDARDPEGTRSKDVERQVLASSAEEKRLIFV 200

Query: 61  INKAGK-PSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSS 119
           INK    PS         ++   W+ Y  +++ +  P    RS   +    +LK  + S+
Sbjct: 201 INKIDLVPS---------EVLNKWVTY--LRNFF--PTIPMRSASGSGNS-NLKHQSASA 246

Query: 120 CVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGS 156
                 L+  L +Y+  K +K+S+TVGV+G  N+  S
Sbjct: 247 SSTISNLLKSLKSYSAKKKLKSSLTVGVIGYPNVGKS 283

Required for optimal growth. Required for normal processing of ribosomal pre-rRNA. Required for nuclear export of ribosomal protein rpl2501.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

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	161
194900518	581	GG16794 [Drosophila erecta] gi|190651507	0.801	0.222	0.465	3e-22
21428328	581	AT23067p [Drosophila melanogaster]	0.801	0.222	0.465	3e-22
28572990	581	nucleostemin 1 [Drosophila melanogaster]	0.801	0.222	0.465	3e-22
195349203	581	GM15388 [Drosophila sechellia] gi|194122	0.801	0.222	0.465	3e-22
195500114	581	GE26110 [Drosophila yakuba] gi|194183337	0.801	0.222	0.465	3e-22
194742485	581	GF17911 [Drosophila ananassae] gi|190626	0.826	0.228	0.471	4e-22
195451637	579	GK13906 [Drosophila willistoni] gi|19416	0.826	0.229	0.471	5e-22
195151599	583	GL21923 [Drosophila persimilis] gi|19411	0.801	0.221	0.458	3e-21
198453139	583	GA26447 [Drosophila pseudoobscura pseudo	0.801	0.221	0.458	3e-21
195394346	581	GJ10591 [Drosophila virilis] gi|19414251	0.826	0.228	0.443	5e-21

>gi|194900518|ref|XP_001979804.1| GG16794 [Drosophila erecta] gi|190651507|gb|EDV48762.1| GG16794 [Drosophila erecta]

 Score =  109 bits (273), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 68/146 (46%), Positives = 86/146 (58%), Gaps = 17/146 (11%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
           R V+E ADV+LEVVDARDP+GTRC   E  V G PG K+LV+V+NKA   P   + +   
Sbjct: 145 RKVIENADVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRDNLNN--- 201

Query: 77  AQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDL------KAINVSSCVGAELLMLLL 130
                 WI Y       ++ + S++ Q +    R L      KA+  S C+GAELLM +L
Sbjct: 202 ------WIKYFRRSGPVTAFKASTQDQANRLGRRKLREMKTEKAMQGSVCIGAELLMSML 255

Query: 131 GNYTRNKDIKTSITVGVVGECNIAGS 156
           GNY RNK IKTSI VGVVG  N+  S
Sbjct: 256 GNYCRNKGIKTSIRVGVVGIPNVGKS 281

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|21428328|gb|AAM49824.1| AT23067p [Drosophila melanogaster]

 Score =  109 bits (273), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 68/146 (46%), Positives = 86/146 (58%), Gaps = 17/146 (11%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
           R V+E ADV+LEVVDARDP+GTRC   E  V G PG K+LV+V+NKA   P   + +   
Sbjct: 145 RKVIENADVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENLNN--- 201

Query: 77  AQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDL------KAINVSSCVGAELLMLLL 130
                 WI Y       ++ + S++ Q +    R L      KA+  S C+GAELLM +L
Sbjct: 202 ------WIKYFRRSGPVTAFKASTQDQANRLGRRKLREMKTEKAMQGSVCIGAELLMSML 255

Query: 131 GNYTRNKDIKTSITVGVVGECNIAGS 156
           GNY RNK IKTSI VGVVG  N+  S
Sbjct: 256 GNYCRNKGIKTSIRVGVVGIPNVGKS 281

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|28572990|ref|NP_732199.2| nucleostemin 1 [Drosophila melanogaster] gi|62510652|sp|Q8MT06.2|GNL3_DROME RecName: Full=Guanine nucleotide-binding protein-like 3 homolog; AltName: Full=Nucleostemin 1; AltName: Full=Nucleostemin homolog gi|28381326|gb|AAF55384.3| nucleostemin 1 [Drosophila melanogaster] gi|212287978|gb|ACJ23464.1| FI08004p [Drosophila melanogaster]

 Score =  109 bits (273), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 68/146 (46%), Positives = 86/146 (58%), Gaps = 17/146 (11%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
           R V+E ADV+LEVVDARDP+GTRC   E  V G PG K+LV+V+NKA   P   + +   
Sbjct: 145 RKVIENADVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENLNN--- 201

Query: 77  AQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDL------KAINVSSCVGAELLMLLL 130
                 WI Y       ++ + S++ Q +    R L      KA+  S C+GAELLM +L
Sbjct: 202 ------WIKYFRRSGPVTAFKASTQDQANRLGRRKLREMKTEKAMQGSVCIGAELLMSML 255

Query: 131 GNYTRNKDIKTSITVGVVGECNIAGS 156
           GNY RNK IKTSI VGVVG  N+  S
Sbjct: 256 GNYCRNKGIKTSIRVGVVGIPNVGKS 281

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195349203|ref|XP_002041136.1| GM15388 [Drosophila sechellia] gi|194122741|gb|EDW44784.1| GM15388 [Drosophila sechellia]

 Score =  109 bits (273), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 68/146 (46%), Positives = 86/146 (58%), Gaps = 17/146 (11%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
           R V+E ADV+LEVVDARDP+GTRC   E  V G PG K+LV+V+NKA   P   + +   
Sbjct: 145 RKVIENADVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENLNN--- 201

Query: 77  AQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDL------KAINVSSCVGAELLMLLL 130
                 WI Y       ++ + S++ Q +    R L      KA+  S C+GAELLM +L
Sbjct: 202 ------WIKYFRRSGPVTAFKASTQDQANRLGRRKLREMKTEKAMQGSVCIGAELLMSML 255

Query: 131 GNYTRNKDIKTSITVGVVGECNIAGS 156
           GNY RNK IKTSI VGVVG  N+  S
Sbjct: 256 GNYCRNKGIKTSIRVGVVGIPNVGKS 281

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195500114|ref|XP_002097236.1| GE26110 [Drosophila yakuba] gi|194183337|gb|EDW96948.1| GE26110 [Drosophila yakuba]

 Score =  109 bits (273), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 68/146 (46%), Positives = 86/146 (58%), Gaps = 17/146 (11%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
           R V+E ADV+LEVVDARDP+GTRC   E  V G PG K+LV+V+NKA   P   + +   
Sbjct: 145 RKVIENADVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENLNN--- 201

Query: 77  AQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDL------KAINVSSCVGAELLMLLL 130
                 WI Y       ++ + S++ Q +    R L      KA+  S C+GAELLM +L
Sbjct: 202 ------WIKYFRRSGPVTAFKASTQDQANRLGRRKLREMKTEKAMQGSVCIGAELLMSML 255

Query: 131 GNYTRNKDIKTSITVGVVGECNIAGS 156
           GNY RNK IKTSI VGVVG  N+  S
Sbjct: 256 GNYCRNKGIKTSIRVGVVGIPNVGKS 281

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194742485|ref|XP_001953733.1| GF17911 [Drosophila ananassae] gi|190626770|gb|EDV42294.1| GF17911 [Drosophila ananassae]

 Score =  109 bits (273), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 67/142 (47%), Positives = 88/142 (61%), Gaps = 9/142 (6%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
           R V+E ADV+LEVVDARDP+GTRC   E  V G PG K+LV+V+NKA   P   +   + 
Sbjct: 144 RKVIENADVVLEVVDARDPLGTRCNEVEKAVRGAPGNKRLVLVLNKADLVPRENL--NNW 201

Query: 77  AQIFQTWIPYNSIQSIY--SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT 134
            + F+   P  + ++     + R   R  ++ +TE   KA+  S C+GAELLM +LGNY 
Sbjct: 202 IKYFRRSGPVTAFKASTQDQTSRLGRRKLREMKTE---KAMQGSVCIGAELLMSMLGNYC 258

Query: 135 RNKDIKTSITVGVVGECNIAGS 156
           RNK IKTSI VGVVG  N+  S
Sbjct: 259 RNKGIKTSIRVGVVGIPNVGKS 280

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195451637|ref|XP_002073011.1| GK13906 [Drosophila willistoni] gi|194169096|gb|EDW83997.1| GK13906 [Drosophila willistoni]

 Score =  108 bits (271), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 67/142 (47%), Positives = 88/142 (61%), Gaps = 9/142 (6%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
           R V+E ADV+LEVVDARDP+GTRC   E  V G PG K+LV+V+NKA   P   +   + 
Sbjct: 146 RKVIENADVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENL--NNW 203

Query: 77  AQIFQTWIPYNSIQSIYS--SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT 134
            + F+   P  + ++     + R   R  ++ +TE   KA+  S C+GAELLM +LGNY 
Sbjct: 204 IKYFRRSGPVTAFKASTQDQASRLGRRKLREMKTE---KAMQGSVCIGAELLMSMLGNYC 260

Query: 135 RNKDIKTSITVGVVGECNIAGS 156
           RNK IKTSI VGVVG  N+  S
Sbjct: 261 RNKGIKTSIRVGVVGIPNVGKS 282

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195151599|ref|XP_002016726.1| GL21923 [Drosophila persimilis] gi|194111783|gb|EDW33826.1| GL21923 [Drosophila persimilis]

 Score =  106 bits (265), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 67/146 (45%), Positives = 85/146 (58%), Gaps = 17/146 (11%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
           R V+E ADV+LEVVDARDP+GTRC   E  V G PG K+LV+++NKA   P   + +   
Sbjct: 145 RKVIENADVVLEVVDARDPLGTRCTEVERAVRGAPGNKRLVLILNKADLVPRENLDN--- 201

Query: 77  AQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDL------KAINVSSCVGAELLMLLL 130
                 WI Y       ++ + S++ Q      R L      KA+  S C+GAELLM +L
Sbjct: 202 ------WIKYFRRVGPVTAFKASTQDQASRLGRRKLHDMKSAKAMQGSVCIGAELLMSML 255

Query: 131 GNYTRNKDIKTSITVGVVGECNIAGS 156
           GNY RNK IKTSI VGVVG  N+  S
Sbjct: 256 GNYCRNKGIKTSIRVGVVGIPNVGKS 281

Source: Drosophila persimilis

Species: Drosophila persimilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|198453139|ref|XP_002137602.1| GA26447 [Drosophila pseudoobscura pseudoobscura] gi|198132227|gb|EDY68160.1| GA26447 [Drosophila pseudoobscura pseudoobscura]

 Score =  106 bits (265), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 67/146 (45%), Positives = 85/146 (58%), Gaps = 17/146 (11%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
           R V+E ADV+LEVVDARDP+GTRC   E  V G PG K+LV+++NKA   P   + +   
Sbjct: 145 RKVIENADVVLEVVDARDPLGTRCTEVERAVRGAPGNKRLVLILNKADLVPRENLDN--- 201

Query: 77  AQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDL------KAINVSSCVGAELLMLLL 130
                 WI Y       ++ + S++ Q      R L      KA+  S C+GAELLM +L
Sbjct: 202 ------WIKYFRRVGPVTAFKASTQDQASRLGRRKLHDMKSAKAMQGSVCIGAELLMSML 255

Query: 131 GNYTRNKDIKTSITVGVVGECNIAGS 156
           GNY RNK IKTSI VGVVG  N+  S
Sbjct: 256 GNYCRNKGIKTSIRVGVVGIPNVGKS 281

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195394346|ref|XP_002055806.1| GJ10591 [Drosophila virilis] gi|194142515|gb|EDW58918.1| GJ10591 [Drosophila virilis]

 Score =  105 bits (263), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 63/142 (44%), Positives = 87/142 (61%), Gaps = 9/142 (6%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
           R V+E ADV+LEVVDARDP+GTRC   E  V   PG K+LV+++NKA   P   +   + 
Sbjct: 145 RKVIENADVVLEVVDARDPLGTRCNEVERAVRAAPGNKRLVLILNKADLVPRENL--NNW 202

Query: 77  AQIFQTWIPYNSIQSIY--SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT 134
            + F+  +P  + ++     + +   R  +D ++E   KA+  S C+GAELLM +L NY 
Sbjct: 203 IKFFRRSLPVTAFKASTQDQASKLGRRKLRDMKSE---KAMQGSVCIGAELLMSMLANYC 259

Query: 135 RNKDIKTSITVGVVGECNIAGS 156
           RNK IKTSI VGVVG  N+  S
Sbjct: 260 RNKGIKTSIRVGVVGIPNVGKS 281

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	161
FB|FBgn0038473	581	ns1 "nucleostemin 1" [Drosophi	0.838	0.232	0.457	1.4e-21
ZFIN|ZDB-GENE-040723-1	571	gnl3l "guanine nucleotide bind	0.844	0.238	0.428	1.2e-19
WB|WBGene00003821	556	nst-1 [Caenorhabditis elegans	0.795	0.230	0.394	1.2e-16
UNIPROTKB|Q21086	556	nst-1 "Guanine nucleotide-bind	0.795	0.230	0.394	1.2e-16
UNIPROTKB|A8IVS6	380	CHLREDRAFT_116921 "Predicted p	0.279	0.118	0.478	7.7e-16
TAIR|locus:2077587	582	NSN1 "AT3G07050" [Arabidopsis	0.267	0.073	0.568	7.7e-16
UNIPROTKB|Q5ZCV4	591	B1111C09.2 "Uncharacterized pr	0.826	0.225	0.347	2.6e-14
UNIPROTKB|F1RUG1	574	LOC100521120 "Uncharacterized	0.832	0.233	0.380	4e-14
UNIPROTKB|K7GPE3	575	LOC100521120 "Uncharacterized	0.832	0.233	0.380	4e-14
UNIPROTKB|F1PAW6	649	GNL3L "Uncharacterized protein	0.832	0.206	0.373	5e-14

FB|FBgn0038473 ns1 "nucleostemin 1" [Drosophila melanogaster (taxid:7227)]

 Score = 260 (96.6 bits), Expect = 1.4e-21, P = 1.4e-21
 Identities = 64/140 (45%), Positives = 81/140 (57%)

Query:    19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQSGSM 76
             R V+E ADV+LEVVDARDP+GTRC   E  V G PG K+LV+V+NKA   P   + +   
Sbjct:   145 RKVIENADVVLEVVDARDPLGTRCNEVERAVRGAPGNKRLVLVLNKADLVPRENLNN--W 202

Query:    77 AQIFQTWIPYNXXXXXXXXXXXXXXXXKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN 136
              + F+   P                  K  + + + KA+  S C+GAELLM +LGNY RN
Sbjct:   203 IKYFRRSGPVTAFKASTQDQANRLGRRKLREMKTE-KAMQGSVCIGAELLMSMLGNYCRN 261

Query:   137 KDIKTSITVGVVGECNIAGS 156
             K IKTSI VGVVG  N+  S
Sbjct:   262 KGIKTSIRVGVVGIPNVGKS 281

GO:0005525 "GTP binding" evidence=IEA

GO:0046626 "regulation of insulin receptor signaling pathway" evidence=IMP

GO:0040014 "regulation of multicellular organism growth" evidence=IMP

GO:0005730 "nucleolus" evidence=IDA

GO:0042254 "ribosome biogenesis" evidence=IBA

GO:0003924 "GTPase activity" evidence=IBA

ZFIN|ZDB-GENE-040723-1 gnl3l "guanine nucleotide binding protein-like 3 (nucleolar)-like" [Danio rerio (taxid:7955)]

 Score = 242 (90.2 bits), Expect = 1.2e-19, P = 1.2e-19
 Identities = 60/140 (42%), Positives = 78/140 (55%)

Query:    19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVV--GTPGKKLVIVINKAGKPSTKIQSGSM 76
             + V+EAADVILEV+DARDP+G RC   E  VV  GT  KK+V+V+NK    S  I     
Sbjct:   126 KKVIEAADVILEVLDARDPLGCRCPQVEQAVVQSGT-NKKIVLVLNKIDLVSKDIVE-KW 183

Query:    77 AQIFQTWIPYNXXXXXXXXXXXXXXXXKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN 136
              +  +   P                  +   T+   + +  S+CVGA+ LM LLGNY RN
Sbjct:   184 IKYLRNEFPTVAFKSSTQQQNKNLKRSRVPVTQATQELLESSACVGADCLMKLLGNYCRN 243

Query:   137 KDIKTSITVGVVGECNIAGS 156
             +DIKT+ITVGVVG  N+  S
Sbjct:   244 QDIKTAITVGVVGFPNVGKS 263

GO:0005525 "GTP binding" evidence=IEA

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

GO:0005730 "nucleolus" evidence=IBA

GO:0006184 "GTP catabolic process" evidence=IBA

GO:0042254 "ribosome biogenesis" evidence=IBA

GO:0000166 "nucleotide binding" evidence=IEA

WB|WBGene00003821 nst-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 214 (80.4 bits), Expect = 1.2e-16, P = 1.2e-16
 Identities = 56/142 (39%), Positives = 75/142 (52%)

Query:    19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGK-PSTKIQSGSMA 77
             R  VE ADVI++V+DARDP+G+R K  ED V+   GK+LV+++NK    P   +Q     
Sbjct:   142 RKTVEIADVIIQVLDARDPLGSRSKSVEDQVL-KGGKRLVLLLNKIDLVPRENVQK---- 196

Query:    78 QIFQTWIPYNXXXXXXXXXXXXXXXXKDAQTERDLKAIN---VSSCVGAELLMLLLGNYT 134
                  W+ Y                 K      +   +N    S CVGA+++M +L NY 
Sbjct:   197 -----WLEYLRGQFPTIAFKASTQEQKSNIGRFNSAILNNTETSKCVGADIVMKILANYC 251

Query:   135 RNKDIKTSITVGVVGECNIAGS 156
             RNKDIKTSI VGVVG  N+  S
Sbjct:   252 RNKDIKTSIRVGVVGFPNVGKS 273

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015093 "ferrous iron transmembrane transporter activity" evidence=IEA

GO:0015684 "ferrous iron transport" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0010171 "body morphogenesis" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

GO:0007276 "gamete generation" evidence=IMP

GO:0040014 "regulation of multicellular organism growth" evidence=IMP

GO:0007281 "germ cell development" evidence=IMP

GO:0005730 "nucleolus" evidence=IDA

GO:0005654 "nucleoplasm" evidence=IDA

UNIPROTKB|Q21086 nst-1 "Guanine nucleotide-binding protein-like 3 homolog" [Caenorhabditis elegans (taxid:6239)]

 Score = 214 (80.4 bits), Expect = 1.2e-16, P = 1.2e-16
 Identities = 56/142 (39%), Positives = 75/142 (52%)

Query:    19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGK-PSTKIQSGSMA 77
             R  VE ADVI++V+DARDP+G+R K  ED V+   GK+LV+++NK    P   +Q     
Sbjct:   142 RKTVEIADVIIQVLDARDPLGSRSKSVEDQVL-KGGKRLVLLLNKIDLVPRENVQK---- 196

Query:    78 QIFQTWIPYNXXXXXXXXXXXXXXXXKDAQTERDLKAIN---VSSCVGAELLMLLLGNYT 134
                  W+ Y                 K      +   +N    S CVGA+++M +L NY 
Sbjct:   197 -----WLEYLRGQFPTIAFKASTQEQKSNIGRFNSAILNNTETSKCVGADIVMKILANYC 251

Query:   135 RNKDIKTSITVGVVGECNIAGS 156
             RNKDIKTSI VGVVG  N+  S
Sbjct:   252 RNKDIKTSIRVGVVGFPNVGKS 273

GO:0006184 "GTP catabolic process" evidence=IBA

GO:0042127 "regulation of cell proliferation" evidence=ISS

GO:0005730 "nucleolus" evidence=ISS;IBA

GO:0005634 "nucleus" evidence=ISS

GO:0005525 "GTP binding" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=IBA

GO:0003924 "GTPase activity" evidence=IBA

UNIPROTKB|A8IVS6 CHLREDRAFT_116921 "Predicted protein" [Chlamydomonas reinhardtii (taxid:3055)]

 Score = 115 (45.5 bits), Expect = 7.7e-16, Sum P(2) = 7.7e-16
 Identities = 22/46 (47%), Positives = 33/46 (71%)

Query:    19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINK 63
             R VVE +DVI++V+DARDP+  RC   E  +  T P KK+++++NK
Sbjct:    89 RRVVELSDVIIQVLDARDPLACRCPDVERYIRSTNPNKKIILLLNK 134

GO:0003924 "GTPase activity" evidence=IBA

GO:0005730 "nucleolus" evidence=IBA

GO:0006184 "GTP catabolic process" evidence=IBA

GO:0042254 "ribosome biogenesis" evidence=IBA

TAIR|locus:2077587 NSN1 "AT3G07050" [Arabidopsis thaliana (taxid:3702)]

 Score = 124 (48.7 bits), Expect = 7.7e-16, Sum P(2) = 7.7e-16
 Identities = 25/44 (56%), Positives = 34/44 (77%)

Query:    21 VVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINK 63
             V+E +DVILEV+DARDP+GTRC   E +V+   P K LV+++NK
Sbjct:   133 VIELSDVILEVLDARDPLGTRCTDMERMVMQAGPNKHLVLLLNK 176

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

GO:0005634 "nucleus" evidence=ISM

GO:0005730 "nucleolus" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0009506 "plasmodesma" evidence=IDA

GO:0010077 "maintenance of inflorescence meristem identity" evidence=IMP

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

GO:0048444 "floral organ morphogenesis" evidence=IGI;IMP

GO:0001510 "RNA methylation" evidence=RCA

UNIPROTKB|Q5ZCV4 B1111C09.2 "Uncharacterized protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 193 (73.0 bits), Expect = 2.6e-14, P = 2.6e-14
 Identities = 48/138 (34%), Positives = 75/138 (54%)

Query:    21 VVEAADVILEVVDARDPMGTRCKVAEDLV-VGTPGKKLVIVINKAGK-PSTKIQSGSMAQ 78
             V+EA+DVILEV+DARDP+GTRC   E +V    P K++V+++NK    P   ++      
Sbjct:   148 VIEASDVILEVLDARDPLGTRCIDMEKMVRKADPSKRIVLLLNKIDLVPKESVEK--WLT 205

Query:    79 IFQTWIPYNXXXXXXXXXXXXXXXXKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD 138
               +  +P                  K ++ ++       S C+GAE L+ LL NY+R+ +
Sbjct:   206 YLREEMP-TVAFKCNTQEQRTKLGWKSSKIDKSSNIPQSSDCLGAENLIKLLKNYSRSHE 264

Query:   139 IKTSITVGVVGECNIAGS 156
             +K +ITVG+VG  N+  S
Sbjct:   265 LKLAITVGIVGLPNVGKS 282

GO:0003924 "GTPase activity" evidence=IBA

GO:0005730 "nucleolus" evidence=IBA

GO:0006184 "GTP catabolic process" evidence=IBA

GO:0042254 "ribosome biogenesis" evidence=IBA

UNIPROTKB|F1RUG1 LOC100521120 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 191 (72.3 bits), Expect = 4.0e-14, P = 4.0e-14
 Identities = 54/142 (38%), Positives = 74/142 (52%)

Query:    19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQS--G 74
             R VVE +DVILEV+DARDP+G RC   E+ V+G  G KKLV+V+NK    P   ++    
Sbjct:   121 RKVVEYSDVILEVLDARDPLGCRCFQMEEAVLGAEGNKKLVLVLNKIDLVPKEVVEKWLD 180

Query:    75 SMAQIFQTWIPYNXXXXXXXXXXXXXXXXKDAQTERDLKAINVSSCVGAELLMLLLGNYT 134
              +     T + +                  +  +E  LK+    +C GAE LM +LGNY 
Sbjct:   181 YLRNELPT-VAFKASTQHQVKNLNRCSVPVEQASESLLKS---KACFGAENLMRVLGNYC 236

Query:   135 RNKDIKTSITVGVVGECNIAGS 156
             R  ++ T I VGVVG  N+  S
Sbjct:   237 RLGEVHTHIRVGVVGLPNVGKS 258

GO:0005739 "mitochondrion" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|K7GPE3 LOC100521120 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 191 (72.3 bits), Expect = 4.0e-14, P = 4.0e-14
 Identities = 54/142 (38%), Positives = 74/142 (52%)

Query:    19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGK-PSTKIQS--G 74
             R VVE +DVILEV+DARDP+G RC   E+ V+G  G KKLV+V+NK    P   ++    
Sbjct:   122 RKVVEYSDVILEVLDARDPLGCRCFQMEEAVLGAEGNKKLVLVLNKIDLVPKEVVEKWLD 181

Query:    75 SMAQIFQTWIPYNXXXXXXXXXXXXXXXXKDAQTERDLKAINVSSCVGAELLMLLLGNYT 134
              +     T + +                  +  +E  LK+    +C GAE LM +LGNY 
Sbjct:   182 YLRNELPT-VAFKASTQHQVKNLNRCSVPVEQASESLLKS---KACFGAENLMRVLGNYC 237

Query:   135 RNKDIKTSITVGVVGECNIAGS 156
             R  ++ T I VGVVG  N+  S
Sbjct:   238 RLGEVHTHIRVGVVGLPNVGKS 259

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|F1PAW6 GNL3L "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 191 (72.3 bits), Expect = 5.0e-14, P = 5.0e-14
 Identities = 53/142 (37%), Positives = 74/142 (52%)

Query:    19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMA 77
             R VVE +DVILEV+DARDP+G RC ++ ED++     KKLV+V+NK      +I      
Sbjct:   196 RKVVEYSDVILEVLDARDPLGCRCFQMEEDVLQAEGNKKLVLVLNKIDLVPKEIVE-KWL 254

Query:    78 QIFQTWIP---YNXXXXXXXXXXXXXXXXKDAQTERDLKAINVSSCVGAELLMLLLGNYT 134
                +  +P   +                  D  +E  LK+    +C GAE LM +LGNY 
Sbjct:   255 DYLRNELPTVAFKASTQHQVKNLNRCTVPVDQASESLLKS---KACFGAENLMRVLGNYC 311

Query:   135 RNKDIKTSITVGVVGECNIAGS 156
             R  +++T I VGVVG  N+  S
Sbjct:   312 RLGEVRTHIRVGVVGLPNVGKS 333

GO:0005525 "GTP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	161
cd04178	171	cd04178, Nucleostemin_like, A circularly permuted	7e-29
cd01859	157	cd01859, MJ1464, An uncharacterized, circularly pe	8e-12
cd01858	157	cd01858, NGP_1, A novel nucleolar GTP-binding prot	2e-11
cd01849	146	cd01849, YlqF_related_GTPase, Circularly permuted	2e-10
COG1161	322	COG1161, COG1161, Predicted GTPases [General funct	6e-10
cd01857	140	cd01857, HSR1_MMR1, A circularly permuted subfamil	2e-07
cd01856	171	cd01856, YlqF, Circularly permuted YlqF GTPase	8e-04
TIGR03596	276	TIGR03596, GTPase_YlqF, ribosome biogenesis GTP-bi	0.001
PRK09563	287	PRK09563, rbgA, GTPase YlqF; Reviewed	0.002

>gnl|CDD|206753 cd04178, Nucleostemin_like, A circularly permuted subfamily of the Ras GTPases

 Score =  103 bits (260), Expect = 7e-29
 Identities = 56/134 (41%), Positives = 72/134 (53%), Gaps = 21/134 (15%)

Query: 26  DVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKAGK-PSTKIQSGSMAQIFQTW 83
           DVILEV+DARDP+G RC   E  V+   P KKLV+V+NK    P          +  + W
Sbjct: 1   DVILEVLDARDPLGCRCPQVERAVLVLGPNKKLVLVLNKIDLVPK---------ENVEKW 51

Query: 84  IPYNSIQ--------SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR 135
           + Y   +        S     +  SR  K  +   DL +   S+C+GA+ L+ LL NY R
Sbjct: 52  LKYLRNEFPTVAFKASTQQQKKNLSRKSKKVKASDDLLS--SSACLGADALLKLLKNYAR 109

Query: 136 NKDIKTSITVGVVG 149
           NK IKTSITVGVVG
Sbjct: 110 NKGIKTSITVGVVG 123

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 protein. Length = 171

>gnl|CDD|206752 cd01859, MJ1464, An uncharacterized, circularly permuted subfamily of the Ras GTPases

 Score = 59.3 bits (144), Expect = 8e-12
 Identities = 25/49 (51%), Positives = 35/49 (71%), Gaps = 1/49 (2%)

Query: 16 EIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKA 64
           + R +++ ADV+LEVVDARDP  TR +  E + +   GKKL+IV+NKA
Sbjct: 3  RLVRRIIKEADVVLEVVDARDPELTRSRKLERMAL-ELGKKLIIVLNKA 50

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. Length = 157

>gnl|CDD|206751 cd01858, NGP_1, A novel nucleolar GTP-binding protein, circularly permuted subfamily of the Ras GTPases

 Score = 58.1 bits (141), Expect = 2e-11
 Identities = 24/44 (54%), Positives = 34/44 (77%), Gaps = 1/44 (2%)

Query: 21 VVEAADVILEVVDARDPMGTRCK-VAEDLVVGTPGKKLVIVINK 63
          V++++DVI++V+DARDPMGTRCK V + L    P K L+ V+NK
Sbjct: 5  VIDSSDVIIQVLDARDPMGTRCKHVEKYLRKEKPHKHLIFVLNK 48

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. Length = 157

>gnl|CDD|206746 cd01849, YlqF_related_GTPase, Circularly permuted YlqF-related GTPases

 Score = 55.1 bits (133), Expect = 2e-10
 Identities = 20/39 (51%), Positives = 28/39 (71%), Gaps = 1/39 (2%)

Query: 26 DVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKA 64
          DV++EVVDARDP+ +R    E L+     KKL++V+NKA
Sbjct: 1  DVVVEVVDARDPLSSRNPDIEVLIN-EKNKKLIMVLNKA 38

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. Length = 146

>gnl|CDD|224083 COG1161, COG1161, Predicted GTPases [General function prediction only]

 Score = 55.9 bits (135), Expect = 6e-10
 Identities = 37/138 (26%), Positives = 67/138 (48%), Gaps = 20/138 (14%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQ 78
           + V+++ DV++EVVDARDP+GTR    E +V     K  ++V+NKA     ++      +
Sbjct: 29  KEVLKSVDVVVEVVDARDPLGTRNPELERIV---KEKPKLLVLNKADLAPKEV----TKK 81

Query: 79  IFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD 138
             + +     I+ I+     S++S++    ++  KA+        +L    +    +   
Sbjct: 82  WKKYFKKEEGIKPIFV----SAKSRQG--GKKIRKAL-------EKLSEEKIKRLKKKGL 128

Query: 139 IKTSITVGVVGECNIAGS 156
           +K  I VGVVG  N+  S
Sbjct: 129 LKRKIRVGVVGYPNVGKS 146

Length = 322

>gnl|CDD|206750 cd01857, HSR1_MMR1, A circularly permuted subfamily of the Ras GTPases

 Score = 47.2 bits (113), Expect = 2e-07
 Identities = 19/45 (42%), Positives = 31/45 (68%), Gaps = 1/45 (2%)

Query: 21 VVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKA 64
          V+E +DV++++VDAR+P+  RC   E  V    P K+ V+++NKA
Sbjct: 8  VIERSDVVVQIVDARNPLFFRCPDLEKYVKEVDPSKENVLLLNKA 52

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. Length = 140

>gnl|CDD|206749 cd01856, YlqF, Circularly permuted YlqF GTPase

 Score = 37.5 bits (88), Expect = 8e-04
 Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 3/40 (7%)

Query: 25 ADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKA 64
           DV++EV DAR P+ +R    + +      K  +IV+NKA
Sbjct: 20 VDVVIEVRDARIPLSSRNPDLDKI---LGNKPRLIVLNKA 56

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 all eukaryotes as well as a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga). Length = 171

>gnl|CDD|213833 TIGR03596, GTPase_YlqF, ribosome biogenesis GTP-binding protein YlqF

 Score = 37.5 bits (88), Expect = 0.001
 Identities = 15/40 (37%), Positives = 26/40 (65%), Gaps = 3/40 (7%)

Query: 25 ADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKA 64
           DV++EV+DAR P+ +R  + +++      K  +IV+NKA
Sbjct: 22 VDVVIEVLDARIPLSSRNPMIDEIR---GNKPRLIVLNKA 58

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 [Protein synthesis, Other]. Length = 276

>gnl|CDD|236570 PRK09563, rbgA, GTPase YlqF; Reviewed

 Score = 37.1 bits (87), Expect = 0.002
 Identities = 13/51 (25%), Positives = 30/51 (58%), Gaps = 7/51 (13%)

Query: 14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKA 64
          ++E  + V    DV++EV+DAR P+ +   + + ++     K  ++++NK+
Sbjct: 18 IKENLKLV----DVVIEVLDARIPLSSENPMIDKII---GNKPRLLILNKS 61

Length = 287

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	161
KOG2484|consensus	435		99.95
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	99.93
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	99.93
KOG2423|consensus	572		99.93
PRK09563	287	rbgA GTPase YlqF; Reviewed	99.92
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	99.91
COG1161	322	Predicted GTPases [General function prediction onl	99.91
KOG1424|consensus	562		99.9
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	99.9
COG1160	444	Predicted GTPases [General function prediction onl	99.9
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.89
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	99.87
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	99.86
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.83
PRK13796	365	GTPase YqeH; Provisional	99.8
KOG2485|consensus	335		99.79
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	99.79
PRK03003	472	GTP-binding protein Der; Reviewed	99.76
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.75
PRK12289	352	GTPase RsgA; Reviewed	99.74
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.73
PRK00093	435	GTP-binding protein Der; Reviewed	99.73
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.67
PRK00098	298	GTPase RsgA; Reviewed	99.65
COG1159	298	Era GTPase [General function prediction only]	99.63
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	99.63
PRK12288	347	GTPase RsgA; Reviewed	99.56
PRK01889	356	GTPase RsgA; Reviewed	99.49
COG1160	444	Predicted GTPases [General function prediction onl	99.4
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.39
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.39
PRK00089	292	era GTPase Era; Reviewed	99.25
PRK15494	339	era GTPase Era; Provisional	99.24
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.17
COG0486	454	ThdF Predicted GTPase [General function prediction	99.16
COG2262	411	HflX GTPases [General function prediction only]	99.14
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.12
PRK09866	741	hypothetical protein; Provisional	99.11
COG1162	301	Predicted GTPases [General function prediction onl	99.1
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.1
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.09
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.08
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.08
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.08
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.07
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.06
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.04
cd00881	189	GTP_translation_factor GTP translation factor fami	99.04
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.03
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.02
PRK00093	435	GTP-binding protein Der; Reviewed	99.02
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.0
PRK03003	472	GTP-binding protein Der; Reviewed	98.98
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.97
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.96
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	98.96
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	98.95
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.95
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.94
PRK12299	335	obgE GTPase CgtA; Reviewed	98.94
PRK12736	394	elongation factor Tu; Reviewed	98.94
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	98.93
CHL00071	409	tufA elongation factor Tu	98.91
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	98.91
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.91
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	98.9
PRK00049	396	elongation factor Tu; Reviewed	98.89
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	98.88
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	98.88
PRK12298	390	obgE GTPase CgtA; Reviewed	98.87
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	98.87
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.87
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	98.87
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.86
PRK12296	500	obgE GTPase CgtA; Reviewed	98.85
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.85
PLN03127	447	Elongation factor Tu; Provisional	98.83
PRK04000	411	translation initiation factor IF-2 subunit gamma;	98.83
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	98.83
PRK11058	426	GTPase HflX; Provisional	98.83
PRK05433	600	GTP-binding protein LepA; Provisional	98.82
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	98.82
PRK12735	396	elongation factor Tu; Reviewed	98.82
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	98.82
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	98.82
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	98.81
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	98.81
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	98.79
PRK13768	253	GTPase; Provisional	98.79
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	98.79
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	98.79
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	98.78
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	98.78
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	98.77
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	98.77
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	98.77
TIGR00485	394	EF-Tu translation elongation factor TU. This align	98.76
PRK12297	424	obgE GTPase CgtA; Reviewed	98.76
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	98.76
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	98.73
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	98.73
smart00178	184	SAR Sar1p-like members of the Ras-family of small	98.73
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	98.73
PLN00223	181	ADP-ribosylation factor; Provisional	98.73
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.72
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	98.72
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	98.72
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	98.72
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	98.71
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	98.71
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	98.7
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	98.69
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	98.69
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	98.68
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	98.68
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	98.68
PTZ00133	182	ADP-ribosylation factor; Provisional	98.67
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	98.67
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	98.67
PLN03126	478	Elongation factor Tu; Provisional	98.67
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	98.67
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	98.66
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	98.66
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	98.65
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	98.65
PTZ00099	176	rab6; Provisional	98.65
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	98.65
PRK04213	201	GTP-binding protein; Provisional	98.65
CHL00189	742	infB translation initiation factor 2; Provisional	98.65
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	98.64
COG0218	200	Predicted GTPase [General function prediction only	98.64
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	98.64
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	98.64
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	98.64
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	98.63
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	98.63
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	98.63
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	98.63
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	98.63
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	98.63
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	98.62
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	98.62
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	98.62
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	98.61
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.61
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	98.61
PRK12317	425	elongation factor 1-alpha; Reviewed	98.61
KOG1489|consensus	366		98.59
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	98.59
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	98.59
PTZ00369	189	Ras-like protein; Provisional	98.58
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	98.58
PRK10218	607	GTP-binding protein; Provisional	98.58
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	98.58
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	98.58
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	98.57
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	98.57
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	98.57
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.56
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	98.56
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	98.55
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	98.55
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	98.55
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	98.53
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	98.53
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	98.53
PTZ00141	446	elongation factor 1- alpha; Provisional	98.52
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	98.52
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	98.52
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	98.51
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	98.51
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	98.51
COG0536	369	Obg Predicted GTPase [General function prediction	98.51
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	98.51
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	98.51
PLN03110	216	Rab GTPase; Provisional	98.51
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	98.5
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	98.5
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	98.5
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	98.5
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	98.5
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	98.49
PRK05306	787	infB translation initiation factor IF-2; Validated	98.48
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	98.48
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	98.47
KOG1423|consensus	379		98.47
PRK00007	693	elongation factor G; Reviewed	98.45
KOG0462|consensus	650		98.45
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	98.44
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	98.43
PLN03118	211	Rab family protein; Provisional	98.43
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	98.43
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	98.41
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	98.4
KOG1145|consensus	683		98.4
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	98.4
PRK14845	1049	translation initiation factor IF-2; Provisional	98.4
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	98.4
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	98.39
COG2229	187	Predicted GTPase [General function prediction only	98.38
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	98.38
PRK04004	586	translation initiation factor IF-2; Validated	98.37
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	98.37
PRK12739	691	elongation factor G; Reviewed	98.37
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	98.36
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	98.36
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	98.35
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	98.35
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	98.34
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	98.34
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	98.34
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	98.33
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	98.33
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	98.32
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	98.32
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	98.31
PLN03108	210	Rab family protein; Provisional	98.29
PLN00043	447	elongation factor 1-alpha; Provisional	98.28
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.28
PRK00741	526	prfC peptide chain release factor 3; Provisional	98.28
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	98.27
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	98.27
KOG1191|consensus	531		98.26
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.26
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	98.25
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	98.25
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.25
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	98.25
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.24
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	98.23
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.23
PRK12740	668	elongation factor G; Reviewed	98.22
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.21
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.2
PRK13351	687	elongation factor G; Reviewed	98.2
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	98.19
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	98.18
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.17
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	98.15
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.13
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	98.1
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.09
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.05
COG1217	603	TypA Predicted membrane GTPase involved in stress	98.03
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	98.03
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	98.01
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	98.01
KOG0076|consensus	197		98.0
KOG0075|consensus	186		97.98
KOG0092|consensus	200		97.94
COG0486	454	ThdF Predicted GTPase [General function prediction	97.92
KOG0078|consensus	207		97.92
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	97.89
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	97.88
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	97.87
COG1084	346	Predicted GTPase [General function prediction only	97.84
KOG0073|consensus	185		97.82
PTZ00416	836	elongation factor 2; Provisional	97.77
KOG1423|consensus	379		97.75
KOG0461|consensus	522		97.74
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	97.72
KOG0410|consensus	410		97.72
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.69
KOG1249|consensus	572		97.68
KOG0094|consensus	221		97.66
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	97.63
PLN00116	843	translation elongation factor EF-2 subunit; Provis	97.62
KOG1191|consensus	531		97.6
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	97.59
KOG0084|consensus	205		97.52
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	97.5
TIGR00101	199	ureG urease accessory protein UreG. This model rep	97.49
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	97.47
PRK12298	390	obgE GTPase CgtA; Reviewed	97.45
PRK07560	731	elongation factor EF-2; Reviewed	97.44
KOG0072|consensus	182		97.43
COG1084	346	Predicted GTPase [General function prediction only	97.42
COG3596	296	Predicted GTPase [General function prediction only	97.42
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	97.4
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	97.4
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	97.39
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	97.38
KOG0468|consensus	971		97.37
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	97.34
COG0536	369	Obg Predicted GTPase [General function prediction	97.33
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	97.33
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	97.32
PRK12299	335	obgE GTPase CgtA; Reviewed	97.31
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	97.29
KOG0093|consensus	193		97.27
KOG1144|consensus	1064		97.23
KOG0070|consensus	181		97.21
PRK12297	424	obgE GTPase CgtA; Reviewed	97.2
PRK12296	500	obgE GTPase CgtA; Reviewed	97.18
PRK15494	339	era GTPase Era; Provisional	97.16
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.15
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	97.14
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	97.11
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	97.08
PRK11058	426	GTPase HflX; Provisional	97.07
KOG1532|consensus	366		97.03
COG1163	365	DRG Predicted GTPase [General function prediction	97.03
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	96.97
cd04105	203	SR_beta Signal recognition particle receptor, beta	96.95
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	96.93
COG1163	365	DRG Predicted GTPase [General function prediction	96.8
COG0050	394	TufB GTPases - translation elongation factors [Tra	96.78
KOG1490|consensus	620		96.75
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	96.75
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	96.75
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.59
KOG1489|consensus	366		96.58
KOG1490|consensus	620		96.57
PRK09602	396	translation-associated GTPase; Reviewed	96.55
KOG0095|consensus	213		96.54
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.54
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.46
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	96.46
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.42
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	96.42
KOG0466|consensus	466		96.38
KOG0410|consensus	410		96.36
KOG0098|consensus	216		96.34
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	96.25
KOG0087|consensus	222		96.25
KOG0083|consensus	192		96.25
KOG0071|consensus	180		96.21
PLN00023	334	GTP-binding protein; Provisional	96.19
KOG0088|consensus	218		96.16
COG5258	527	GTPBP1 GTPase [General function prediction only]	96.14
KOG0395|consensus	196		96.04
PRK05439	311	pantothenate kinase; Provisional	96.03
COG2262	411	HflX GTPases [General function prediction only]	95.95
KOG0394|consensus	210		95.81
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	95.78
PLN03210	1153	Resistant to P. syringae 6; Provisional	95.75
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	95.73
KOG1486|consensus	364		95.73
PF09439	181	SRPRB: Signal recognition particle receptor beta s	95.72
KOG0458|consensus	603		95.6
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.6
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.42
KOG0079|consensus	198		95.4
cd03112	158	CobW_like The function of this protein family is u	95.37
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	95.37
KOG0081|consensus	219		95.31
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.26
COG3596	296	Predicted GTPase [General function prediction only	95.2
COG1100	219	GTPase SAR1 and related small G proteins [General	95.19
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	95.17
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	95.16
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	95.03
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.8
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	94.75
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	94.58
PRK09866	741	hypothetical protein; Provisional	94.51
KOG1547|consensus	336		94.5
COG0523	323	Putative GTPases (G3E family) [General function pr	94.38
KOG2486|consensus	320		94.36
KOG0467|consensus	887		94.3
PLN02200	234	adenylate kinase family protein	94.11
KOG1487|consensus	358		94.1
COG1072	283	CoaA Panthothenate kinase [Coenzyme metabolism]	94.09
KOG0054|consensus	1381		94.0
PRK14974	336	cell division protein FtsY; Provisional	93.99
KOG0077|consensus	193		93.81
PRK05428	308	HPr kinase/phosphorylase; Provisional	93.78
KOG2486|consensus	320		93.77
KOG1143|consensus	591		93.66
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	93.44
PLN03126	478	Elongation factor Tu; Provisional	93.41
PLN03127	447	Elongation factor Tu; Provisional	93.29
KOG2004|consensus	906		93.29
PRK15455	644	PrkA family serine protein kinase; Provisional	93.28
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	93.13
KOG1954|consensus	532		93.01
KOG1707|consensus	625		92.92
TIGR00064	272	ftsY signal recognition particle-docking protein F	92.91
KOG0460|consensus	449		92.89
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	92.85
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	92.84
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	92.82
COG4987	573	CydC ABC-type transport system involved in cytochr	92.76
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	92.72
KOG0074|consensus	185		92.72
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	92.6
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	92.55
COG4181	228	Predicted ABC-type transport system involved in ly	92.45
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	92.37
PRK10416	318	signal recognition particle-docking protein FtsY;	92.3
TIGR00679	304	hpr-ser Hpr(Ser) kinase/phosphatase. The hprK gene	92.21
PF13555	62	AAA_29: P-loop containing region of AAA domain	92.08
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	92.04
KOG0057|consensus	591		91.97
KOG0781|consensus	587		91.94
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	91.7
CHL00189	742	infB translation initiation factor 2; Provisional	91.63
PRK08099	399	bifunctional DNA-binding transcriptional repressor	91.48
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	91.46
PRK14489	366	putative bifunctional molybdopterin-guanine dinucl	91.27
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	91.2
KOG0086|consensus	214		91.07
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	91.04
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	90.92
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	90.73
PLN02796	347	D-glycerate 3-kinase	90.68
PRK04220	301	2-phosphoglycerate kinase; Provisional	90.56
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	90.48
PRK00411	394	cdc6 cell division control protein 6; Reviewed	90.43
cd03110	179	Fer4_NifH_child This protein family's function is	90.34
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	90.34
KOG2749|consensus	415		90.33
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	90.33
COG2074	299	2-phosphoglycerate kinase [Carbohydrate transport	90.29
PRK00771	437	signal recognition particle protein Srp54; Provisi	90.25
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	90.18
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	90.13
KOG0090|consensus	238		89.83
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	89.75
PRK06851	367	hypothetical protein; Provisional	89.7
COG1149	284	MinD superfamily P-loop ATPase containing an inser	89.66
PLN02199	303	shikimate kinase	89.6
KOG0097|consensus	215		89.53
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	89.45
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	89.44
PRK09183	259	transposase/IS protein; Provisional	89.4
KOG3905|consensus	473		89.37
PRK05306	787	infB translation initiation factor IF-2; Validated	89.29
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	89.13
CHL00095	821	clpC Clp protease ATP binding subunit	89.07
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	88.96
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	88.86
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	88.85
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	88.83
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	88.8
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	88.74
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	88.71
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	88.7
PLN03046	460	D-glycerate 3-kinase; Provisional	88.69
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	88.64
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	88.64
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	88.64
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	88.55
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	88.52
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	88.52
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	88.5
CHL00181	287	cbbX CbbX; Provisional	88.49
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	88.49
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	88.45
PTZ00243	1560	ABC transporter; Provisional	88.4
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	88.36
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	88.35
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	88.35
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	88.31
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	88.28
PRK06526	254	transposase; Provisional	88.25
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	88.17
PRK14252	265	phosphate ABC transporter ATP-binding protein; Pro	88.16
KOG0066|consensus	807		88.04
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	88.01
PRK12402	337	replication factor C small subunit 2; Reviewed	87.99
PRK13531	498	regulatory ATPase RavA; Provisional	87.98
PHA02624	647	large T antigen; Provisional	87.91
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	87.88
COG1341	398	Predicted GTPase or GTP-binding protein [General f	87.86
PLN02165	334	adenylate isopentenyltransferase	87.81
KOG4658|consensus	889		87.8
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	87.79
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	87.78
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	87.78
PRK14271	276	phosphate ABC transporter ATP-binding protein; Pro	87.76
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	87.68
COG0488	530	Uup ATPase components of ABC transporters with dup	87.65
PRK13546	264	teichoic acids export protein ATP-binding subunit;	87.6
PLN03232	1495	ABC transporter C family member; Provisional	87.59
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	87.58
COG1493	308	HprK Serine kinase of the HPr protein, regulates c	87.58
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	87.56
TIGR01271	1490	CFTR_protein cystic fibrosis transmembrane conduct	87.55
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	87.53
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	87.51
PRK10867	433	signal recognition particle protein; Provisional	87.49
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	87.42
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	87.39
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	87.3
PLN03130	1622	ABC transporter C family member; Provisional	87.28
cd03288	257	ABCC_SUR2 The SUR domain 2. The sulfonylurea recep	87.27
cd03291	282	ABCC_CFTR1 The CFTR subfamily domain 1. The cystic	87.18
PHA02774	613	E1; Provisional	87.09
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	87.08
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	87.02
COG4167	267	SapF ABC-type antimicrobial peptide transport syst	86.98
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	86.95
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	86.94
PRK14246	257	phosphate ABC transporter ATP-binding protein; Pro	86.89
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	86.82
CHL00195	489	ycf46 Ycf46; Provisional	86.75
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	86.75
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	86.71
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	86.69

>KOG2484|consensus

Probab=99.95  E-value=5.2e-28  Score=193.55  Aligned_cols=137  Identities=39%  Similarity=0.621  Sum_probs=118.4

Q ss_pred             hHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          10 RGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        10 ~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      ..++.+++ ++.++.+||||+|+|||+|+++.+.++++.+... +++.+|+|+||+||+|.        +.++.|..|++
T Consensus       133 ~kaY~ke~-rkvve~sDVVleVlDARDPlgtR~~~vE~~V~~~~gnKkLILVLNK~DLVPr--------Ev~e~Wl~YLr  203 (435)
T KOG2484|consen  133 KKAYDKEF-RKVVEASDVVLEVLDARDPLGTRCPEVEEAVLQAHGNKKLILVLNKIDLVPR--------EVVEKWLVYLR  203 (435)
T ss_pred             HHHHHHHH-HHHHhhhheEEEeeeccCCCCCCChhHHHHHHhccCCceEEEEeehhccCCH--------HHHHHHHHHHH
Confidence            44788888 8999999999999999999999999999988542 45999999999999998        88899999998


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                        ..+|.++|-|.++.++.+   ....+.+.+.|.+.|++.|.+|......++.|+|||||+|||||||+|.
T Consensus       204 --~~~ptv~fkast~~~~~~---~~~~~~s~c~gae~l~~~lgny~~~~~lk~sIrvGViG~PNVGKSSvIN  270 (435)
T KOG2484|consen  204 --REGPTVAFKASTQMQNSN---SKNLQSSVCFGAETLMKVLGNYCRKGELKTSIRVGIIGYPNVGKSSVIN  270 (435)
T ss_pred             --hhCCcceeeccccccccc---ccccccchhhhHHHHHHHhcCcccccccCcceEeeeecCCCCChhHHHH
Confidence              678889998888755543   3344555678999999999999988777788999999999999999985

>cd01858 NGP_1 NGP-1

Probab=99.93  E-value=5.7e-26  Score=164.57  Aligned_cols=117  Identities=32%  Similarity=0.466  Sum_probs=92.4

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPR   97 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   97 (161)
                      ++++++||++++|+|+++|..+.+..+.+++... .++|+|+|+||+|+.++        +....|...+.+......++
T Consensus         3 ~~~l~~aD~il~VvD~~~p~~~~~~~i~~~l~~~~~~~p~ilVlNKiDl~~~--------~~~~~~~~~~~~~~~~~~~~   74 (157)
T cd01858           3 YKVIDSSDVVIQVLDARDPMGTRCKHVEEYLKKEKPHKHLIFVLNKCDLVPT--------WVTARWVKILSKEYPTIAFH   74 (157)
T ss_pred             hHhhhhCCEEEEEEECCCCccccCHHHHHHHHhccCCCCEEEEEEchhcCCH--------HHHHHHHHHHhcCCcEEEEE
Confidence            5899999999999999999888888888887642 25899999999999876        44566777765221222477


Q ss_pred             EeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          98 FSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        98 iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +||+++                 .|.++|++.|.+++........++|+++|.||||||||++
T Consensus        75 iSa~~~-----------------~~~~~L~~~l~~~~~~~~~~~~~~v~~~G~~nvGKStliN  120 (157)
T cd01858          75 ASINNP-----------------FGKGSLIQLLRQFSKLHSDKKQISVGFIGYPNVGKSSIIN  120 (157)
T ss_pred             eecccc-----------------ccHHHHHHHHHHHHhhhccccceEEEEEeCCCCChHHHHH
Confidence            899888                 8999999999988643211235899999999999999985

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=99.93  E-value=1.8e-25  Score=175.77  Aligned_cols=124  Identities=23%  Similarity=0.334  Sum_probs=102.8

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      |.||.. .++++ ++++++||+||+|+|++.|.++.++.+.+.+.   ++|+|+|+||+|++++        .....|.+
T Consensus         5 pgHm~k-~~~~~-~~~l~~aDvVl~V~Dar~p~~~~~~~i~~~l~---~kp~IiVlNK~DL~~~--------~~~~~~~~   71 (276)
T TIGR03596         5 PGHMAK-ARREI-KEKLKLVDVVIEVLDARIPLSSRNPMIDEIRG---NKPRLIVLNKADLADP--------AVTKQWLK   71 (276)
T ss_pred             hHHHHH-HHHHH-HHHHhhCCEEEEEEeCCCCCCCCChhHHHHHC---CCCEEEEEEccccCCH--------HHHHHHHH
Confidence            889985 59999 79999999999999999999988888888763   5899999999999865        43566777


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCC--------CCceEEEEEeecCCCccc
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDI--------KTSITVGVVGECNIAGSI  157 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~--------~~~~~v~vvG~pNVGKSs  157 (161)
                      ++.. .+.+++++||.++                 .|+++|.+.|.++++....        .+.+++++||+|||||||
T Consensus        72 ~~~~-~~~~vi~iSa~~~-----------------~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~vG~~nvGKSs  133 (276)
T TIGR03596        72 YFEE-KGIKALAINAKKG-----------------KGVKKIIKAAKKLLKEKNEKLKAKGLKNRPIRAMIVGIPNVGKST  133 (276)
T ss_pred             HHHH-cCCeEEEEECCCc-----------------ccHHHHHHHHHHHHHHhhhhhhhccCCCCCeEEEEECCCCCCHHH
Confidence            6642 3457899999998                 8999999999888764321        245899999999999999


Q ss_pred             ccC
Q psy8220         158 RDL  160 (161)
Q Consensus       158 l~~  160 (161)
                      |++
T Consensus       134 lin  136 (276)
T TIGR03596       134 LIN  136 (276)
T ss_pred             HHH
Confidence            975

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.

>KOG2423|consensus

Probab=99.93  E-value=2.6e-25  Score=178.25  Aligned_cols=123  Identities=32%  Similarity=0.504  Sum_probs=110.6

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      -.|.++ .+.++.+|+|+.|+||++|.++.+..++++++++ +.+-+|+|+||+||+|.        .....|...++  
T Consensus       202 RIW~EL-yKViDSSDVvvqVlDARDPmGTrc~~ve~ylkke~phKHli~vLNKvDLVPt--------wvt~~Wv~~lS--  270 (572)
T KOG2423|consen  202 RIWGEL-YKVIDSSDVVVQVLDARDPMGTRCKHVEEYLKKEKPHKHLIYVLNKVDLVPT--------WVTAKWVRHLS--  270 (572)
T ss_pred             HHHHHH-HHhhcccceeEEeeeccCCcccccHHHHHHHhhcCCcceeEEEeeccccccH--------HHHHHHHHHHh--
Confidence            368888 8999999999999999999999999999999875 57889999999999998        77789999998  


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+|.+.|.|.-.               +.+|-..|++.|++++..+.++..|-||+||||||||||+|+
T Consensus       271 keyPTiAfHAsi~---------------nsfGKgalI~llRQf~kLh~dkkqISVGfiGYPNvGKSSiIN  325 (572)
T KOG2423|consen  271 KEYPTIAFHASIN---------------NSFGKGALIQLLRQFAKLHSDKKQISVGFIGYPNVGKSSIIN  325 (572)
T ss_pred             hhCcceeeehhhc---------------CccchhHHHHHHHHHHhhccCccceeeeeecCCCCchHHHHH
Confidence            6789999987654               459999999999999998877788999999999999999985

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=99.92  E-value=7.1e-25  Score=173.29  Aligned_cols=124  Identities=19%  Similarity=0.330  Sum_probs=102.7

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      |.||.. .++++ ++++++||+||+|+|++.|.++.++.+.+.+.   ++|+++|+||+|+.+.        .....|.+
T Consensus         8 pgHm~k-~~~~l-~~~l~~aDvIL~VvDar~p~~~~~~~l~~~~~---~kp~iiVlNK~DL~~~--------~~~~~~~~   74 (287)
T PRK09563          8 PGHMAK-ARREI-KENLKLVDVVIEVLDARIPLSSENPMIDKIIG---NKPRLLILNKSDLADP--------EVTKKWIE   74 (287)
T ss_pred             HHHHHH-HHHHH-HHHhhhCCEEEEEEECCCCCCCCChhHHHHhC---CCCEEEEEEchhcCCH--------HHHHHHHH
Confidence            789985 49999 79999999999999999999988888877663   5999999999999865        44567877


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC--------CCCceEEEEEeecCCCccc
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD--------IKTSITVGVVGECNIAGSI  157 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~--------~~~~~~v~vvG~pNVGKSs  157 (161)
                      ++.+ .+.+++++||.++                 .|++.|++.|.+.++...        ....+++++||+|||||||
T Consensus        75 ~~~~-~~~~vi~vSa~~~-----------------~gi~~L~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~G~pnvGKSs  136 (287)
T PRK09563         75 YFEE-QGIKALAINAKKG-----------------QGVKKILKAAKKLLKEKNERRKAKGMRPRAIRAMIIGIPNVGKST  136 (287)
T ss_pred             HHHH-cCCeEEEEECCCc-----------------ccHHHHHHHHHHHHHHHHhhhhhcccCcCceEEEEECCCCCCHHH
Confidence            7642 2467899999998                 899999999988875431        1346899999999999999


Q ss_pred             ccC
Q psy8220         158 RDL  160 (161)
Q Consensus       158 l~~  160 (161)
                      |++
T Consensus       137 liN  139 (287)
T PRK09563        137 LIN  139 (287)
T ss_pred             HHH
Confidence            975

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=99.91  E-value=6.9e-24  Score=156.18  Aligned_cols=124  Identities=43%  Similarity=0.651  Sum_probs=95.7

Q ss_pred             cEEEEEEeCCCCCCCCcHHHHHH--HhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCC
Q psy8220          26 DVILEVVDARDPMGTRCKVAEDL--VVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQ  103 (161)
Q Consensus        26 DviL~VvD~~~~~~~~~~~i~~~--l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~  103 (161)
                      |+|++|+|++.|+++.++.+.+.  +.. .++|+|+|+||+|++++        +.+..|.+++.  ...+.+.|.+...
T Consensus         1 DvVl~VvDar~p~~~~~~~i~~~~~l~~-~~kp~IlVlNK~DL~~~--------~~l~~~~~~~~--~~~~~~~~~~~~~   69 (172)
T cd04178           1 DVILEVLDARDPLGCRCPQVEEAVLQAG-GNKKLVLVLNKIDLVPK--------ENVEKWLKYLR--REFPTVAFKASTQ   69 (172)
T ss_pred             CEEEEEEECCCCCCCCCHHHHHHHHhcc-CCCCEEEEEehhhcCCH--------HHHHHHHHHHH--hhCCEEEEEeccc
Confidence            89999999999999999999887  433 57999999999999987        66788999886  3455555555443


Q ss_pred             CCcch---------hhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         104 KDAQT---------ERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       104 ~~~~~---------~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .....         .....+.++..+.|.+.|++.++++.........++++++|+||||||||++
T Consensus        70 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~vG~pnvGKSslin  135 (172)
T cd04178          70 SQKKNLGQKSVKVEAASADLLRSSVCFGADCLLKLLKNYSRNKDIKTSITVGVVGFPNVGKSSLIN  135 (172)
T ss_pred             ccccchhhcccccchhhhhhhhhccccCHHHHHHHHHHHhhccccccCcEEEEEcCCCCCHHHHHH
Confidence            22111         1234566778889999999999887765444556899999999999999985

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

>COG1161 Predicted GTPases [General function prediction only]

Probab=99.91  E-value=4.2e-24  Score=171.21  Aligned_cols=126  Identities=29%  Similarity=0.408  Sum_probs=100.8

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      .|.||. ++++++ .+.++.+|+|+.|+|+++|.++..+.+.+++.   +++.++|+||+||++.        .....|.
T Consensus        17 ~~g~~~-k~~~~~-~~~~~~~d~vvevvDar~P~~s~~~~l~~~v~---~k~~i~vlNK~DL~~~--------~~~~~W~   83 (322)
T COG1161          17 FPGHMK-KAKRQL-KEVLKSVDVVVEVVDARDPLGTRNPELERIVK---EKPKLLVLNKADLAPK--------EVTKKWK   83 (322)
T ss_pred             CCCchH-HHHHHH-HHhcccCCEEEEEEeccccccccCccHHHHHc---cCCcEEEEehhhcCCH--------HHHHHHH
Confidence            488888 579999 89999999999999999999999999999885   4777999999999998        6688999


Q ss_pred             hhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHH--------HHHHhHhhcCCCCCceEEEEEeecCCCcc
Q psy8220          85 PYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLM--------LLLGNYTRNKDIKTSITVGVVGECNIAGS  156 (161)
Q Consensus        85 ~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~--------~~l~~~~~~~~~~~~~~v~vvG~pNVGKS  156 (161)
                      +++....+...+++++.++                 .+...+.        +.+..+.+....+..++|+|||+||||||
T Consensus        84 ~~~~~~~~~~~~~v~~~~~-----------------~~~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~v~vvG~PNVGKS  146 (322)
T COG1161          84 KYFKKEEGIKPIFVSAKSR-----------------QGGKKIRKALEKLSEEKIKRLKKKGLLKRKIRVGVVGYPNVGKS  146 (322)
T ss_pred             HHHHhcCCCccEEEEeecc-----------------cCccchHHHHHHHHHHHHHHHhhcCCCccceEEEEEcCCCCcHH
Confidence            9987444556788888877                 5555555        33333333322345689999999999999


Q ss_pred             cccC
Q psy8220         157 IRDL  160 (161)
Q Consensus       157 sl~~  160 (161)
                      |||+
T Consensus       147 slIN  150 (322)
T COG1161         147 TLIN  150 (322)
T ss_pred             HHHH
Confidence            9986

>KOG1424|consensus

Probab=99.90  E-value=6.3e-24  Score=174.60  Aligned_cols=90  Identities=27%  Similarity=0.379  Sum_probs=79.9

Q ss_pred             cCCCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHH
Q psy8220           3 SVKPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQ   81 (161)
Q Consensus         3 ~~~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~   81 (161)
                      +++|++++-++|+|+| ++++.+|+|+.+||||+|..-.++.+.+++.+. ..|..++++||+||+++        +...
T Consensus       154 ~lTpFErNLE~WRQLW-RVlErSDivvqIVDARnPllfr~~dLe~Yvke~d~~K~~~LLvNKaDLl~~--------~qr~  224 (562)
T KOG1424|consen  154 VLTPFERNLEIWRQLW-RVLERSDIVVQIVDARNPLLFRSPDLEDYVKEVDPSKANVLLVNKADLLPP--------EQRV  224 (562)
T ss_pred             eechhhhCHHHHHHHH-HHHhhcceEEEEeecCCccccCChhHHHHHhccccccceEEEEehhhcCCH--------HHHH
Confidence            4689999999999995 999999999999999999998999999998764 35888999999999998        6778


Q ss_pred             HHhhhhccCCCCceeEEeecC
Q psy8220          82 TWIPYNSIQSIYSSPRFSSRS  102 (161)
Q Consensus        82 ~~~~~~~~~~~~~~i~iSa~~  102 (161)
                      +|..||.. .+.+++++||.-
T Consensus       225 aWa~YF~~-~ni~~vf~SA~~  244 (562)
T KOG1424|consen  225 AWAEYFRQ-NNIPVVFFSALA  244 (562)
T ss_pred             HHHHHHHh-cCceEEEEeccc
Confidence            99999963 467899999986

>cd01856 YlqF YlqF

Probab=99.90  E-value=3.6e-23  Score=151.98  Aligned_cols=124  Identities=24%  Similarity=0.320  Sum_probs=97.2

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      |.||.. .++++ ++++++||++|+|+|++.|....+..+.+.+   .++|+++|+||+|+.++        +....|.+
T Consensus         3 ~~~~~~-~~~~~-~~~i~~aD~il~v~D~~~~~~~~~~~i~~~~---~~k~~ilVlNK~Dl~~~--------~~~~~~~~   69 (171)
T cd01856           3 PGHMAK-ALRQI-KEKLKLVDLVIEVRDARIPLSSRNPLLEKIL---GNKPRIIVLNKADLADP--------KKTKKWLK   69 (171)
T ss_pred             chHHHH-HHHHH-HHHHhhCCEEEEEeeccCccCcCChhhHhHh---cCCCEEEEEehhhcCCh--------HHHHHHHH
Confidence            778884 69999 8999999999999999998877776666654   35899999999999765        33445655


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc----C---CCCCceEEEEEeecCCCcccc
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN----K---DIKTSITVGVVGECNIAGSIR  158 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~----~---~~~~~~~v~vvG~pNVGKSsl  158 (161)
                      ++.. ...+++++||+++                 .|+++|.+.|.++++.    .   ......+++++|.||||||||
T Consensus        70 ~~~~-~~~~vi~iSa~~~-----------------~gi~~L~~~l~~~l~~~~~~~~~~~~~~~~~~~~~G~~~vGKstl  131 (171)
T cd01856          70 YFES-KGEKVLFVNAKSG-----------------KGVKKLLKAAKKLLKDIEKLKAKGLLPRGIRAMVVGIPNVGKSTL  131 (171)
T ss_pred             HHHh-cCCeEEEEECCCc-----------------ccHHHHHHHHHHHHHHHhhhhhcccCCCCeEEEEECCCCCCHHHH
Confidence            5542 2346789999998                 8999999999987641    0   112347999999999999998


Q ss_pred             cC
Q psy8220         159 DL  160 (161)
Q Consensus       159 ~~  160 (161)
                      +.
T Consensus       132 in  133 (171)
T cd01856         132 IN  133 (171)
T ss_pred             HH
Confidence            74

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.90  E-value=3.1e-23  Score=169.27  Aligned_cols=122  Identities=19%  Similarity=0.206  Sum_probs=97.0

Q ss_pred             hHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          10 RGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        10 ~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +++.+++.+..++++||++|||+|++.+++..|+.+.++++. .++|+|+|+||+|-...        +  ....++++ 
T Consensus        69 l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~-~~kpviLvvNK~D~~~~--------e--~~~~efys-  136 (444)
T COG1160          69 LQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILRR-SKKPVILVVNKIDNLKA--------E--ELAYEFYS-  136 (444)
T ss_pred             HHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHh-cCCCEEEEEEcccCchh--------h--hhHHHHHh-
Confidence            455577777999999999999999999999999999999986 78999999999997643        2  11122322 


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh-cC-CC----CCceEEEEEeecCCCcccccC
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR-NK-DI----KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~-~~-~~----~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .....++++||.++                 .|+++|++.+.+.++ .. ..    ..+++++|||.||||||||++
T Consensus       137 lG~g~~~~ISA~Hg-----------------~Gi~dLld~v~~~l~~~e~~~~~~~~~~ikiaiiGrPNvGKSsLiN  196 (444)
T COG1160         137 LGFGEPVPISAEHG-----------------RGIGDLLDAVLELLPPDEEEEEEEETDPIKIAIIGRPNVGKSSLIN  196 (444)
T ss_pred             cCCCCceEeehhhc-----------------cCHHHHHHHHHhhcCCcccccccccCCceEEEEEeCCCCCchHHHH
Confidence            11235799999999                 999999999999974 11 11    146999999999999999985

>cd01859 MJ1464 MJ1464

Probab=99.89  E-value=1.7e-22  Score=145.95  Aligned_cols=118  Identities=30%  Similarity=0.423  Sum_probs=92.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      |+++++..+++||++|+|+|+++|....+..+.+++.. .++|+++|+||+|+.+.        .....|..... ..+.
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~~~l~~~~~~-~~~p~iiv~NK~Dl~~~--------~~~~~~~~~~~-~~~~   71 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRSRKLERYVLE-LGKKLLIVLNKADLVPK--------EVLEKWKSIKE-SEGI   71 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCCHHHHHHHHh-CCCcEEEEEEhHHhCCH--------HHHHHHHHHHH-hCCC
Confidence            77887777778999999999999887777777766654 57999999999999764        22333432222 1346


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +++++||+++                 .|+++|.+.|.++++...  ...+++++|.||||||||+.
T Consensus        72 ~~~~iSa~~~-----------------~gi~~L~~~l~~~~~~~~--~~~~~~~ig~~~~Gkssl~~  119 (156)
T cd01859          72 PVVYVSAKER-----------------LGTKILRRTIKELAKIDG--KEGKVGVVGYPNVGKSSIIN  119 (156)
T ss_pred             cEEEEEcccc-----------------ccHHHHHHHHHHHHhhcC--CCcEEEEECCCCCCHHHHHH
Confidence            7899999998                 999999999999887532  34789999999999999974

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=99.87  E-value=8.8e-22  Score=142.38  Aligned_cols=109  Identities=37%  Similarity=0.479  Sum_probs=82.9

Q ss_pred             cEEEEEEeCCCCCCCCcHHHH-HHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCC
Q psy8220          26 DVILEVVDARDPMGTRCKVAE-DLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQK  104 (161)
Q Consensus        26 DviL~VvD~~~~~~~~~~~i~-~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~  104 (161)
                      |++|+|+|+++|.+..+..+. ..+.. .++|+|+|+||+|+.++        +....|...+....+.+++++||.++ 
T Consensus         1 Dvvl~VvD~~~p~~~~~~~i~~~~~~~-~~~p~IiVlNK~Dl~~~--------~~~~~~~~~~~~~~~~~ii~vSa~~~-   70 (155)
T cd01849           1 DVILEVLDARDPLGTRSPDIERVLIKE-KGKKLILVLNKADLVPK--------EVLRKWLAYLRHSYPTIPFKISATNG-   70 (155)
T ss_pred             CEEEEEEeccCCccccCHHHHHHHHhc-CCCCEEEEEechhcCCH--------HHHHHHHHHHHhhCCceEEEEeccCC-
Confidence            899999999999888877776 44544 57999999999999876        44556765444222456789999998 


Q ss_pred             CcchhhhhhhhccccccCHHHHHHHHHhHhhc--------CCCCCceEEEEEeecCCCcccccC
Q psy8220         105 DAQTERDLKAINVSSCVGAELLMLLLGNYTRN--------KDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       105 ~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~--------~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                                      .|+++|.+.|.+....        .......+++++|.||||||||++
T Consensus        71 ----------------~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~GKstlin  118 (155)
T cd01849          71 ----------------QGIEKKESAFTKQTNSNLKSYAKDGKLKKSITVGVIGYPNVGKSSVIN  118 (155)
T ss_pred             ----------------cChhhHHHHHHHHhHHHHHHHHhccccccCcEEEEEccCCCCHHHHHH
Confidence                            8999999988654311        112345899999999999999974

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=99.86  E-value=1.5e-21  Score=139.09  Aligned_cols=99  Identities=28%  Similarity=0.357  Sum_probs=81.1

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      |+++ ++++++||++|+|+|+++|....+..+.+++... .++|+++|+||+|+.++        +....|..++.. .+
T Consensus         2 ~~~~-~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~iivlNK~DL~~~--------~~~~~~~~~~~~-~~   71 (141)
T cd01857           2 WRQL-WRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNILLLNKADLLTE--------EQRKAWAEYFKK-EG   71 (141)
T ss_pred             HHHH-HHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEEEEEechhcCCH--------HHHHHHHHHHHh-cC
Confidence            6778 7999999999999999999988888888888652 27999999999999876        445566666642 24


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+++++||.++                 .+                     +++++|.||||||||+.
T Consensus        72 ~~ii~iSa~~~-----------------~~---------------------~~~~~G~~~vGKstlin  101 (141)
T cd01857          72 IVVVFFSALKE-----------------NA---------------------TIGLVGYPNVGKSSLIN  101 (141)
T ss_pred             CeEEEEEecCC-----------------Cc---------------------EEEEECCCCCCHHHHHH
Confidence            67889999877                 32                     69999999999999975

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.

>cd01855 YqeH YqeH

Probab=99.83  E-value=1.5e-20  Score=139.98  Aligned_cols=117  Identities=18%  Similarity=0.143  Sum_probs=84.5

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh--hhccC--
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP--YNSIQ--   90 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~--   90 (161)
                      +.++...+++||++|+|+|++++..+.+..+...  . .++|+++|+||+|+.+..    ........|..  .....  
T Consensus        25 ~~~l~~~~~~ad~il~VvD~~~~~~~~~~~l~~~--~-~~~~~ilV~NK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~   97 (190)
T cd01855          25 LNLLSSISPKKALVVHVVDIFDFPGSLIPRLRLF--G-GNNPVILVGNKIDLLPKD----KNLVRIKNWLRAKAAAGLGL   97 (190)
T ss_pred             HHHHHhcccCCcEEEEEEECccCCCccchhHHHh--c-CCCcEEEEEEchhcCCCC----CCHHHHHHHHHHHHHhhcCC
Confidence            4455788899999999999998876666555222  2 468999999999997541    00122233431  11100  


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ...+++++||+++                 .|+++|.+.|.++++..     .+++++|.|||||||||+
T Consensus        98 ~~~~i~~vSA~~~-----------------~gi~eL~~~l~~~l~~~-----~~~~~~G~~nvGKStliN  145 (190)
T cd01855          98 KPKDVILISAKKG-----------------WGVEELINAIKKLAKKG-----GDVYVVGATNVGKSTLIN  145 (190)
T ss_pred             CcccEEEEECCCC-----------------CCHHHHHHHHHHHhhcC-----CcEEEEcCCCCCHHHHHH
Confidence            1125789999998                 99999999999988633     589999999999999985

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.

>PRK13796 GTPase YqeH; Provisional

Probab=99.80  E-value=3.9e-19  Score=144.83  Aligned_cols=124  Identities=18%  Similarity=0.193  Sum_probs=89.6

Q ss_pred             CCcchHHHHHHHHHHHhhhcc-EEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           6 PMEMRGVVVQEIERSVVEAAD-VILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aD-viL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      |.....+.+.++ .+.+.++| +|++|+|+.+...+..+.+.++.   .++|+++|+||+||.+...   . .+.+..|.
T Consensus        51 ~~~~~~~~~~~~-l~~i~~~~~lIv~VVD~~D~~~s~~~~L~~~~---~~kpviLViNK~DLl~~~~---~-~~~i~~~l  122 (365)
T PRK13796         51 DVSLTDDDFLKL-LNGIGDSDALVVNVVDIFDFNGSWIPGLHRFV---GNNPVLLVGNKADLLPKSV---K-KNKVKNWL  122 (365)
T ss_pred             CCCCCHHHHHHH-HHhhcccCcEEEEEEECccCCCchhHHHHHHh---CCCCEEEEEEchhhCCCcc---C-HHHHHHHH
Confidence            333444445555 57777777 99999999998877777776654   3689999999999986410   0 12345565


Q ss_pred             hhhccCCCC---ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          85 PYNSIQSIY---SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        85 ~~~~~~~~~---~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+....+.   .++.+||+++                 .|+++|.+.|.++.+.      .+++|||+|||||||||+
T Consensus       123 ~~~~k~~g~~~~~v~~vSAk~g-----------------~gI~eL~~~I~~~~~~------~~v~vvG~~NvGKSTLiN  178 (365)
T PRK13796        123 RQEAKELGLRPVDVVLISAQKG-----------------HGIDELLEAIEKYREG------RDVYVVGVTNVGKSTLIN  178 (365)
T ss_pred             HHHHHhcCCCcCcEEEEECCCC-----------------CCHHHHHHHHHHhcCC------CeEEEEcCCCCcHHHHHH
Confidence            543221232   4788999998                 9999999999877532      479999999999999985

>KOG2485|consensus

Probab=99.79  E-value=1.8e-19  Score=141.01  Aligned_cols=127  Identities=24%  Similarity=0.281  Sum_probs=84.8

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      |.||.. .++++ ++.+...|+||+|.|||.|+++.++.+.+++.   .+|.|+|+||+||++.        ......++
T Consensus        30 pgHmak-alr~i-~~~l~~~D~iiEvrDaRiPLssrn~~~~~~~~---~k~riiVlNK~DLad~--------~~~k~~iq   96 (335)
T KOG2485|consen   30 PGHMAK-ALRAI-QNRLPLVDCIIEVRDARIPLSSRNELFQDFLP---PKPRIIVLNKMDLADP--------KEQKKIIQ   96 (335)
T ss_pred             chHHHH-HHHHH-HhhcccccEEEEeeccccCCccccHHHHHhcC---CCceEEEEecccccCc--------hhhhHHHH
Confidence            778885 49999 89999999999999999999999999888774   5999999999999985        22233444


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh---c--CCCCCceEEEEEeecCCCcccccC
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR---N--KDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~---~--~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++..+.....+..++....               ..++..++..+..+..   .  ...+....|+|||+|||||||||.
T Consensus        97 ~~~~~~~~~~~~~~c~~~~---------------~~~v~~l~~il~~~~~~l~r~irt~~~~~~vmVvGvPNVGKSsLIN  161 (335)
T KOG2485|consen   97 YLEWQNLESYIKLDCNKDC---------------NKQVSPLLKILTILSEELVRFIRTLNSEYNVMVVGVPNVGKSSLIN  161 (335)
T ss_pred             HHHhhcccchhhhhhhhhh---------------hhccccHHHHHHHHHHHHHHhhcccCCceeEEEEcCCCCChHHHHH
Confidence            4432112222333332220               0123333333222221   1  112345899999999999999985

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=99.79  E-value=8.1e-19  Score=142.72  Aligned_cols=126  Identities=18%  Similarity=0.161  Sum_probs=92.2

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      .|.....+.+..+.......+|+|++|+|+.++..+..+.+.+++   .++|+++|+||+|+.++..   . .+.+..|.
T Consensus        44 ~~~~~~~e~f~~~l~~~~~~~~~Il~VvD~~d~~~s~~~~l~~~~---~~~piilV~NK~DLl~k~~---~-~~~~~~~l  116 (360)
T TIGR03597        44 QDVELNDDDFLNLLNSLGDSNALIVYVVDIFDFEGSLIPELKRFV---GGNPVLLVGNKIDLLPKSV---N-LSKIKEWM  116 (360)
T ss_pred             ccCCCCHHHHHHHHhhcccCCcEEEEEEECcCCCCCccHHHHHHh---CCCCEEEEEEchhhCCCCC---C-HHHHHHHH
Confidence            444455555666645555799999999999998888888887765   3589999999999986521   1 12345554


Q ss_pred             hhhccCCCC---ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          85 PYNSIQSIY---SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        85 ~~~~~~~~~---~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+....+.   .++.+||+++                 .|+++|.+.|.++..      +.++++||.|||||||||+
T Consensus       117 ~~~~k~~g~~~~~i~~vSAk~g-----------------~gv~eL~~~l~~~~~------~~~v~~vG~~nvGKStliN  172 (360)
T TIGR03597       117 KKRAKELGLKPVDIILVSAKKG-----------------NGIDELLDKIKKARN------KKDVYVVGVTNVGKSSLIN  172 (360)
T ss_pred             HHHHHHcCCCcCcEEEecCCCC-----------------CCHHHHHHHHHHHhC------CCeEEEECCCCCCHHHHHH
Confidence            322111233   3788999998                 999999999987743      2589999999999999985

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.76  E-value=4.3e-18  Score=142.89  Aligned_cols=119  Identities=18%  Similarity=0.124  Sum_probs=88.3

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .+.+.+..++.+||++|+|+|++++.+..+..+.+.+.. .++|+++|+||+|+....  .    +..+.|.  +.  .+
T Consensus       106 ~~~~~~~~~~~~aD~il~VvD~~~~~s~~~~~i~~~l~~-~~~piilV~NK~Dl~~~~--~----~~~~~~~--~g--~~  174 (472)
T PRK03003        106 SVAEQAEVAMRTADAVLFVVDATVGATATDEAVARVLRR-SGKPVILAANKVDDERGE--A----DAAALWS--LG--LG  174 (472)
T ss_pred             HHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHH-cCCCEEEEEECccCCccc--h----hhHHHHh--cC--CC
Confidence            344444778999999999999998877667777777776 689999999999986431  0    1111111  11  12


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC-----CCCceEEEEEeecCCCcccccC
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD-----IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~-----~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                       ..+++||+++                 .|+++|++.|.+.++...     ....++|++||.||||||||+.
T Consensus       175 -~~~~iSA~~g-----------------~gi~eL~~~i~~~l~~~~~~~~~~~~~~kI~iiG~~nvGKSSLin  229 (472)
T PRK03003        175 -EPHPVSALHG-----------------RGVGDLLDAVLAALPEVPRVGSASGGPRRVALVGKPNVGKSSLLN  229 (472)
T ss_pred             -CeEEEEcCCC-----------------CCcHHHHHHHHhhcccccccccccccceEEEEECCCCCCHHHHHH
Confidence             3478999999                 899999999988775421     1245899999999999999974

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.75  E-value=7.9e-18  Score=139.38  Aligned_cols=117  Identities=21%  Similarity=0.250  Sum_probs=91.0

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      +...+..++++||++++|+|++.+....+..+.+++++ .++|+++|+||+|+.+..       ....   +...  .+.
T Consensus        68 ~~~~~~~~~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~-~~~piilVvNK~D~~~~~-------~~~~---~~~~--lg~  134 (429)
T TIGR03594        68 IREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWLRK-SGKPVILVANKIDGKKED-------AVAA---EFYS--LGF  134 (429)
T ss_pred             HHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHH-hCCCEEEEEECccCCccc-------ccHH---HHHh--cCC
Confidence            44444789999999999999999888888888888876 689999999999987651       1111   1111  233


Q ss_pred             -ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC-----CCCceEEEEEeecCCCcccccC
Q psy8220          94 -SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD-----IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        94 -~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~-----~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                       +++++||.++                 .|+++|++.+.+.++...     ....++|+++|.||||||||+.
T Consensus       135 ~~~~~vSa~~g-----------------~gv~~ll~~i~~~l~~~~~~~~~~~~~~~v~ivG~~~~GKSsLin  190 (429)
T TIGR03594       135 GEPIPISAEHG-----------------RGIGDLLDAILELLPEEEEEEEEEDGPIKIAIIGRPNVGKSTLVN  190 (429)
T ss_pred             CCeEEEeCCcC-----------------CChHHHHHHHHHhcCcccccccccCCceEEEEECCCCCCHHHHHH
Confidence             6899999999                 899999999988875432     1235899999999999999974

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.

>PRK12289 GTPase RsgA; Reviewed

Probab=99.74  E-value=7.9e-18  Score=136.27  Aligned_cols=105  Identities=26%  Similarity=0.207  Sum_probs=78.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      +.++.++|.+++|+|+.+|... ...+.+++..  ..+.|+++|+||+||++.        +....|...+.. .+++++
T Consensus        84 R~~~aNvD~vLlV~d~~~p~~~-~~~LdR~L~~a~~~~ip~ILVlNK~DLv~~--------~~~~~~~~~~~~-~g~~v~  153 (352)
T PRK12289         84 RPPVANADQILLVFALAEPPLD-PWQLSRFLVKAESTGLEIVLCLNKADLVSP--------TEQQQWQDRLQQ-WGYQPL  153 (352)
T ss_pred             chhhhcCCEEEEEEECCCCCCC-HHHHHHHHHHHHHCCCCEEEEEEchhcCCh--------HHHHHHHHHHHh-cCCeEE
Confidence            4568899999999999876422 2234444431  147999999999999875        434667665542 467889


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++||.++                 .|+++|.+.|..          ..++|+|.|||||||||+
T Consensus       154 ~iSA~tg-----------------~GI~eL~~~L~~----------ki~v~iG~SgVGKSSLIN  190 (352)
T PRK12289        154 FISVETG-----------------IGLEALLEQLRN----------KITVVAGPSGVGKSSLIN  190 (352)
T ss_pred             EEEcCCC-----------------CCHHHHhhhhcc----------ceEEEEeCCCCCHHHHHH
Confidence            9999998                 899998887732          137999999999999985

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.73  E-value=2.1e-17  Score=144.72  Aligned_cols=118  Identities=17%  Similarity=0.143  Sum_probs=88.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      +.+.+..++++||++|+|+|++.++...+..+.+++.. .++|+++|+||+|+....    .  .....|.  +.   ..
T Consensus       344 ~~~~~~~~~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~-~~~pvIlV~NK~D~~~~~----~--~~~~~~~--lg---~~  411 (712)
T PRK09518        344 IASQAQIAVSLADAVVFVVDGQVGLTSTDERIVRMLRR-AGKPVVLAVNKIDDQASE----Y--DAAEFWK--LG---LG  411 (712)
T ss_pred             HHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHh-cCCCEEEEEECcccccch----h--hHHHHHH--cC---CC
Confidence            33443788999999999999998887777778888876 689999999999986541    0  1111111  11   12


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCC-------CCceEEEEEeecCCCcccccC
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDI-------KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~-------~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+++||+++                 .|+++|++.|.+.++....       ....+|+++|.||||||||+.
T Consensus       412 ~~~~iSA~~g-----------------~GI~eLl~~i~~~l~~~~~~~~a~~~~~~~kI~ivG~~nvGKSSLin  468 (712)
T PRK09518        412 EPYPISAMHG-----------------RGVGDLLDEALDSLKVAEKTSGFLTPSGLRRVALVGRPNVGKSSLLN  468 (712)
T ss_pred             CeEEEECCCC-----------------CCchHHHHHHHHhcccccccccccCCCCCcEEEEECCCCCCHHHHHH
Confidence            3578999999                 9999999999887754211       234899999999999999974

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.73  E-value=3.9e-17  Score=135.61  Aligned_cols=118  Identities=20%  Similarity=0.215  Sum_probs=88.3

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .+++.+..++.+||++|+|+|++.+....+..+.+++.. .++|+++|+||+|+....       .....   ...  .+
T Consensus        69 ~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~-~~~piilv~NK~D~~~~~-------~~~~~---~~~--lg  135 (435)
T PRK00093         69 QIREQAELAIEEADVILFVVDGRAGLTPADEEIAKILRK-SNKPVILVVNKVDGPDEE-------ADAYE---FYS--LG  135 (435)
T ss_pred             HHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHH-cCCcEEEEEECccCccch-------hhHHH---HHh--cC
Confidence            355555778999999999999998877777777787876 689999999999975431       11111   111  23


Q ss_pred             C-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC----CCCceEEEEEeecCCCcccccC
Q psy8220          93 Y-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD----IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        93 ~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~----~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      . .++++||.++                 .|+++|.+.|.+..+...    ....++|+++|.||||||||+.
T Consensus       136 ~~~~~~iSa~~g-----------------~gv~~l~~~I~~~~~~~~~~~~~~~~~~v~ivG~~n~GKStlin  191 (435)
T PRK00093        136 LGEPYPISAEHG-----------------RGIGDLLDAILEELPEEEEEDEEDEPIKIAIIGRPNVGKSSLIN  191 (435)
T ss_pred             CCCCEEEEeeCC-----------------CCHHHHHHHHHhhCCccccccccccceEEEEECCCCCCHHHHHH
Confidence            3 3689999999                 899999999877443221    1346999999999999999974

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.67  E-value=2.2e-16  Score=122.30  Aligned_cols=110  Identities=20%  Similarity=0.130  Sum_probs=78.7

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHH---hCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLV---VGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l---~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .+.+.+..+..+|.+++|.|+++|..+.+ .+.+++   .. .+.|+++|+||+||.+..       +....|.+.+.. 
T Consensus        26 ~~~L~r~~~~n~D~viiV~d~~~p~~s~~-~l~r~l~~~~~-~~i~~vIV~NK~DL~~~~-------~~~~~~~~~~~~-   95 (245)
T TIGR00157        26 KNELTRPIVANIDQIVIVSSAVLPELSLN-QLDRFLVVAEA-QNIEPIIVLNKIDLLDDE-------DMEKEQLDIYRN-   95 (245)
T ss_pred             cceEECcccccCCEEEEEEECCCCCCCHH-HHHHHHHHHHH-CCCCEEEEEECcccCCCH-------HHHHHHHHHHHH-
Confidence            33443446789999999999998764432 233333   22 579999999999997651       212244444432 


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+++++.+||+++                 .|+++|.+.|.+          ..++++|.|||||||||+
T Consensus        96 ~g~~v~~~SAktg-----------------~gi~eLf~~l~~----------~~~~~~G~sgvGKStLiN  138 (245)
T TIGR00157        96 IGYQVLMTSSKNQ-----------------DGLKELIEALQN----------RISVFAGQSGVGKSSLIN  138 (245)
T ss_pred             CCCeEEEEecCCc-----------------hhHHHHHhhhcC----------CEEEEECCCCCCHHHHHH
Confidence            4678899999998                 899998877632          268899999999999985

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>PRK00098 GTPase RsgA; Reviewed

Probab=99.65  E-value=3.7e-16  Score=124.23  Aligned_cols=103  Identities=17%  Similarity=0.182  Sum_probs=74.5

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHH---HhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeE
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDL---VVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPR   97 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~---l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   97 (161)
                      .+.++|++++|+|+++|.... ..+.++   +.. .+.|+++|+||+||.+..       +....|...+.. .++++++
T Consensus        77 iaaniD~vllV~d~~~p~~~~-~~idr~L~~~~~-~~ip~iIVlNK~DL~~~~-------~~~~~~~~~~~~-~g~~v~~  146 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFST-DLLDRFLVLAEA-NGIKPIIVLNKIDLLDDL-------EEARELLALYRA-IGYDVLE  146 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCH-HHHHHHHHHHHH-CCCCEEEEEEhHHcCCCH-------HHHHHHHHHHHH-CCCeEEE
Confidence            458999999999998774332 222232   333 579999999999997431       223445444431 3578899


Q ss_pred             EeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          98 FSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        98 iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +||.++                 .|+++|.+.|.    .      ..++++|.||||||||++
T Consensus       147 vSA~~g-----------------~gi~~L~~~l~----g------k~~~~~G~sgvGKStlin  182 (298)
T PRK00098        147 LSAKEG-----------------EGLDELKPLLA----G------KVTVLAGQSGVGKSTLLN  182 (298)
T ss_pred             EeCCCC-----------------ccHHHHHhhcc----C------ceEEEECCCCCCHHHHHH
Confidence            999998                 89999887762    1      368999999999999985

>COG1159 Era GTPase [General function prediction only]

Probab=99.63  E-value=3.7e-15  Score=116.51  Aligned_cols=108  Identities=20%  Similarity=0.277  Sum_probs=88.0

Q ss_pred             CCCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHH
Q psy8220           4 VKPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTW   83 (161)
Q Consensus         4 ~~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~   83 (161)
                      -+|.|.++++|++.++++++++|+||||+|+.++++..|+.+.+.++. .+.|+|+++||+|..+.+       ..+...
T Consensus        65 h~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~d~~il~~lk~-~~~pvil~iNKID~~~~~-------~~l~~~  136 (298)
T COG1159          65 HKPKHALGELMNKAARSALKDVDLILFVVDADEGWGPGDEFILEQLKK-TKTPVILVVNKIDKVKPK-------TVLLKL  136 (298)
T ss_pred             CCcchHHHHHHHHHHHHHhccCcEEEEEEeccccCCccHHHHHHHHhh-cCCCeEEEEEccccCCcH-------HHHHHH
Confidence            378899999999999999999999999999999999999999888876 568999999999998772       112333


Q ss_pred             hhhhccC-CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          84 IPYNSIQ-SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        84 ~~~~~~~-~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+... ....++++||+++                 .|++.|++.+.+++++
T Consensus       137 ~~~~~~~~~f~~ivpiSA~~g-----------------~n~~~L~~~i~~~Lpe  173 (298)
T COG1159         137 IAFLKKLLPFKEIVPISALKG-----------------DNVDTLLEIIKEYLPE  173 (298)
T ss_pred             HHHHHhhCCcceEEEeecccc-----------------CCHHHHHHHHHHhCCC
Confidence            3333211 2346899999999                 8999999999988865

>cd01854 YjeQ_engC YjeQ/EngC

Probab=99.63  E-value=7.7e-16  Score=121.80  Aligned_cols=102  Identities=19%  Similarity=0.155  Sum_probs=74.8

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHHH---hCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeE
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDLV---VGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPR   97 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~l---~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   97 (161)
                      .+..+|++++|+|+.+|..+ ...+.+++   .. .++|+++|+||+||.++        .....|..... ..++++++
T Consensus        75 i~anvD~vllV~d~~~p~~s-~~~ldr~L~~~~~-~~ip~iIVlNK~DL~~~--------~~~~~~~~~~~-~~g~~v~~  143 (287)
T cd01854          75 IAANVDQLVIVVSLNEPFFN-PRLLDRYLVAAEA-AGIEPVIVLTKADLLDD--------EEEELELVEAL-ALGYPVLA  143 (287)
T ss_pred             EEEeCCEEEEEEEcCCCCCC-HHHHHHHHHHHHH-cCCCEEEEEEHHHCCCh--------HHHHHHHHHHH-hCCCeEEE
Confidence            47899999999999988622 12333333   33 57999999999999865        22233333332 13678899


Q ss_pred             EeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          98 FSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        98 iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +||.++                 .|+++|...|..          ..++++|.+||||||||.
T Consensus       144 vSA~~g-----------------~gi~~L~~~L~~----------k~~~~~G~sg~GKSTlin  179 (287)
T cd01854         144 VSAKTG-----------------EGLDELREYLKG----------KTSVLVGQSGVGKSTLIN  179 (287)
T ss_pred             EECCCC-----------------ccHHHHHhhhcc----------ceEEEECCCCCCHHHHHH
Confidence            999998                 899998877642          369999999999999985

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=99.56  E-value=1.1e-14  Score=117.79  Aligned_cols=104  Identities=20%  Similarity=0.142  Sum_probs=71.7

Q ss_pred             hhhccEEEEEEeCCCCCCCCcHHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEe
Q psy8220          22 VEAADVILEVVDARDPMGTRCKVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFS   99 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~~~~~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iS   99 (161)
                      ...+|.+++|.+.. |..+. ..+.+++..  ..+.|.++|+||+||.+..    + ......|...+.. .+++++.+|
T Consensus       118 aANvD~vlIV~s~~-p~~s~-~~Ldr~L~~a~~~~i~~VIVlNK~DL~~~~----~-~~~~~~~~~~y~~-~g~~v~~vS  189 (347)
T PRK12288        118 AANIDQIVIVSAVL-PELSL-NIIDRYLVACETLGIEPLIVLNKIDLLDDE----G-RAFVNEQLDIYRN-IGYRVLMVS  189 (347)
T ss_pred             EEEccEEEEEEeCC-CCCCH-HHHHHHHHHHHhcCCCEEEEEECccCCCcH----H-HHHHHHHHHHHHh-CCCeEEEEe
Confidence            47899998888865 32221 233333321  1578999999999998751    0 0123445554431 367899999


Q ss_pred             ecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         100 SRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       100 a~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      |.++                 .|+++|.+.|..    +      .++++|.|||||||||+
T Consensus       190 A~tg-----------------~GideL~~~L~~----k------i~~~vG~sgVGKSTLiN  223 (347)
T PRK12288        190 SHTG-----------------EGLEELEAALTG----R------ISIFVGQSGVGKSSLIN  223 (347)
T ss_pred             CCCC-----------------cCHHHHHHHHhh----C------CEEEECCCCCCHHHHHH
Confidence            9998                 899999888743    1      37899999999999985

>PRK01889 GTPase RsgA; Reviewed

Probab=99.49  E-value=1.2e-13  Score=112.37  Aligned_cols=101  Identities=17%  Similarity=0.129  Sum_probs=72.2

Q ss_pred             hhhccEEEEEEeCCCCCCCCcHHHHHHH---hCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          22 VEAADVILEVVDARDPMGTRCKVAEDLV---VGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~~~~~~i~~~l---~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      +..+|.+++|+++..++..  ..+.+++   .. .+.+.++|+||+||++..       +....|...+.  .+++++++
T Consensus       110 aANvD~vliV~s~~p~~~~--~~ldr~L~~a~~-~~i~piIVLNK~DL~~~~-------~~~~~~~~~~~--~g~~Vi~v  177 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNL--RRIERYLALAWE-SGAEPVIVLTKADLCEDA-------EEKIAEVEALA--PGVPVLAV  177 (356)
T ss_pred             EEeCCEEEEEEecCCCCCh--hHHHHHHHHHHH-cCCCEEEEEEChhcCCCH-------HHHHHHHHHhC--CCCcEEEE
Confidence            5789999999999643332  2344443   22 578889999999998751       11122333333  47789999


Q ss_pred             eecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          99 SSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        99 Sa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      |+.++                 .|+++|...|..         +-+++++|.||||||||+.
T Consensus       178 Sa~~g-----------------~gl~~L~~~L~~---------g~~~~lvG~sgvGKStLin  213 (356)
T PRK01889        178 SALDG-----------------EGLDVLAAWLSG---------GKTVALLGSSGVGKSTLVN  213 (356)
T ss_pred             ECCCC-----------------ccHHHHHHHhhc---------CCEEEEECCCCccHHHHHH
Confidence            99998                 899998888631         1479999999999999874

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.40  E-value=2.9e-12  Score=105.28  Aligned_cols=115  Identities=17%  Similarity=0.146  Sum_probs=88.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      .++++.||++++|+|+++|++.+|..+..++.+ .++++++|+||||+.++.  ...+.+.-......+....+.|++++
T Consensus       255 ~~aI~~a~vvllviDa~~~~~~qD~~ia~~i~~-~g~~~vIvvNKWDl~~~~--~~~~~~~k~~i~~~l~~l~~a~i~~i  331 (444)
T COG1160         255 LKAIERADVVLLVIDATEGISEQDLRIAGLIEE-AGRGIVIVVNKWDLVEED--EATMEEFKKKLRRKLPFLDFAPIVFI  331 (444)
T ss_pred             HhHHhhcCEEEEEEECCCCchHHHHHHHHHHHH-cCCCeEEEEEccccCCch--hhHHHHHHHHHHHHhccccCCeEEEE
Confidence            489999999999999999999999999999887 799999999999998751  11111111111122222236789999


Q ss_pred             eecCCCCcchhh---hhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          99 SSRSQKDAQTER---DLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        99 Sa~~~~~~~~~~---~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ||.++.+..+++   ...+.+++.+.++..|++.|......
T Consensus       332 SA~~~~~i~~l~~~i~~~~~~~~~ri~Ts~LN~~l~~a~~~  372 (444)
T COG1160         332 SALTGQGLDKLFEAIKEIYECATRRISTSLLNRVLEDAVAK  372 (444)
T ss_pred             EecCCCChHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHh
Confidence            999997776654   58889999999999999999887643

>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=99.39  E-value=2.4e-12  Score=95.64  Aligned_cols=105  Identities=18%  Similarity=0.191  Sum_probs=76.7

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      .|.|.  .|+.++ ..++..+|++|+|+|+.++...+..+....+.. .+.|+++|+||+|+...     .+.+..+.+.
T Consensus        77 tPG~~--~f~~~~-~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~-~~~p~ivvlNK~D~~~~-----~~~~~~~~~~  147 (188)
T PF00009_consen   77 TPGHE--DFIKEM-IRGLRQADIAILVVDANDGIQPQTEEHLKILRE-LGIPIIVVLNKMDLIEK-----ELEEIIEEIK  147 (188)
T ss_dssp             ESSSH--HHHHHH-HHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHH-TT-SEEEEEETCTSSHH-----HHHHHHHHHH
T ss_pred             ccccc--ceeecc-cceecccccceeeeecccccccccccccccccc-cccceEEeeeeccchhh-----hHHHHHHHHH
Confidence            36664  377888 688999999999999999887777777776765 68999999999999843     1112223333


Q ss_pred             hhh----ccC--CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          85 PYN----SIQ--SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        85 ~~~----~~~--~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ..+    ...  ...|++++||.++                 .|+++|++.|.+++|
T Consensus       148 ~~l~~~~~~~~~~~~~vi~~Sa~~g-----------------~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  148 EKLLKEYGENGEEIVPVIPISALTG-----------------DGIDELLEALVELLP  187 (188)
T ss_dssp             HHHHHHTTSTTTSTEEEEEEBTTTT-----------------BTHHHHHHHHHHHS-
T ss_pred             HHhccccccCccccceEEEEecCCC-----------------CCHHHHHHHHHHhCc
Confidence            222    111  1357999999999                 999999999998876

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 ....

>TIGR00436 era GTP-binding protein Era

Probab=99.39  E-value=5.5e-12  Score=98.89  Aligned_cols=102  Identities=16%  Similarity=0.108  Sum_probs=71.8

Q ss_pred             cchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh
Q psy8220           8 EMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN   87 (161)
Q Consensus         8 ~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~   87 (161)
                      +.+.+.|.+.+..++++||++++|+|++.+... +..+.+.+.. .++|+++|+||+|+.++        +....+...+
T Consensus        63 ~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~-~~~i~~~l~~-~~~p~ilV~NK~Dl~~~--------~~~~~~~~~~  132 (270)
T TIGR00436        63 HSLNRLMMKEARSAIGGVDLILFVVDSDQWNGD-GEFVLTKLQN-LKRPVVLTRNKLDNKFK--------DKLLPLIDKY  132 (270)
T ss_pred             chHHHHHHHHHHHHHhhCCEEEEEEECCCCCch-HHHHHHHHHh-cCCCEEEEEECeeCCCH--------HHHHHHHHHH
Confidence            344555666557899999999999999876543 2555666655 57999999999999754        2222222222


Q ss_pred             ccCC-CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          88 SIQS-IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        88 ~~~~-~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .... ..+++++||+++                 .|+++|++.|.++++.
T Consensus       133 ~~~~~~~~v~~iSA~~g-----------------~gi~~L~~~l~~~l~~  165 (270)
T TIGR00436       133 AILEDFKDIVPISALTG-----------------DNTSFLAAFIEVHLPE  165 (270)
T ss_pred             HhhcCCCceEEEecCCC-----------------CCHHHHHHHHHHhCCC
Confidence            1111 236899999999                 8999999999887764

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>PRK00089 era GTPase Era; Reviewed

Probab=99.25  E-value=8.3e-11  Score=93.00  Aligned_cols=104  Identities=15%  Similarity=0.146  Sum_probs=74.7

Q ss_pred             CcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhh
Q psy8220           7 MEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus         7 ~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~   86 (161)
                      .+.+++.+.+.+..++..+|++++|+|+++++...+..+.+.+.. .+.|+++|+||+|+....       +.+......
T Consensus        67 ~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~-~~~pvilVlNKiDl~~~~-------~~l~~~~~~  138 (292)
T PRK00089         67 KRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKK-VKTPVILVLNKIDLVKDK-------EELLPLLEE  138 (292)
T ss_pred             hhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCChhHHHHHHHHhh-cCCCEEEEEECCcCCCCH-------HHHHHHHHH
Confidence            345566677776889999999999999998776666677676654 578999999999998431       222223333


Q ss_pred             hccC-CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          87 NSIQ-SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        87 ~~~~-~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +... ...+++++||+++                 .|+++|++.|.+.++
T Consensus       139 l~~~~~~~~i~~iSA~~~-----------------~gv~~L~~~L~~~l~  171 (292)
T PRK00089        139 LSELMDFAEIVPISALKG-----------------DNVDELLDVIAKYLP  171 (292)
T ss_pred             HHhhCCCCeEEEecCCCC-----------------CCHHHHHHHHHHhCC
Confidence            3211 2356899999998                 788888888877764

>PRK15494 era GTPase Era; Provisional

Probab=99.24  E-value=1.2e-10  Score=94.23  Aligned_cols=105  Identities=13%  Similarity=0.089  Sum_probs=72.8

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      |.+.++..|.+.++.++..||++|+|+|+++++...+..+.+.+.. .+.|.++|+||+|+.+.     .. .....+..
T Consensus       113 ~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~s~~~~~~~il~~l~~-~~~p~IlViNKiDl~~~-----~~-~~~~~~l~  185 (339)
T PRK15494        113 PKGSLEKAMVRCAWSSLHSADLVLLIIDSLKSFDDITHNILDKLRS-LNIVPIFLLNKIDIESK-----YL-NDIKAFLT  185 (339)
T ss_pred             CcccHHHHHHHHHHHHhhhCCEEEEEEECCCCCCHHHHHHHHHHHh-cCCCEEEEEEhhcCccc-----cH-HHHHHHHH
Confidence            3444555555555678999999999999988776665666666655 56788999999998643     11 11222222


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ...  ...+++++||+++                 .|+++|++.|.+.++.
T Consensus       186 ~~~--~~~~i~~iSAktg-----------------~gv~eL~~~L~~~l~~  217 (339)
T PRK15494        186 ENH--PDSLLFPISALSG-----------------KNIDGLLEYITSKAKI  217 (339)
T ss_pred             hcC--CCcEEEEEeccCc-----------------cCHHHHHHHHHHhCCC
Confidence            111  1346899999999                 8899999998887754

>cd01894 EngA1 EngA1 subfamily

Probab=99.17  E-value=7.3e-10  Score=78.61  Aligned_cols=91  Identities=20%  Similarity=0.156  Sum_probs=66.5

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      +.+.+...+..+|++++|+|++++....+..+..++.. .+.|+++|+||+|+.+.        .........+   ...
T Consensus        66 ~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~-~~~piiiv~nK~D~~~~--------~~~~~~~~~~---~~~  133 (157)
T cd01894          66 IREQAELAIEEADVILFVVDGREGLTPADEEIAKYLRK-SKKPVILVVNKVDNIKE--------EDEAAEFYSL---GFG  133 (157)
T ss_pred             HHHHHHHHHHhCCEEEEEEeccccCCccHHHHHHHHHh-cCCCEEEEEECcccCCh--------HHHHHHHHhc---CCC
Confidence            33333677899999999999998877666677777765 57999999999999875        2111111111   122


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +++++|++++                 .|+++|.+.|.+.
T Consensus       134 ~~~~~Sa~~~-----------------~gv~~l~~~l~~~  156 (157)
T cd01894         134 EPIPISAEHG-----------------RGIGDLLDAILEL  156 (157)
T ss_pred             CeEEEecccC-----------------CCHHHHHHHHHhh
Confidence            6789999998                 8999999988653

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.16  E-value=1.7e-10  Score=95.24  Aligned_cols=92  Identities=20%  Similarity=0.234  Sum_probs=71.0

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      .... ++++++||+||+|+|++.++...+..+.+.+ . .++|+++|+||+||.++        ......  .+.  .+.
T Consensus       287 IeRs-~~~i~~ADlvL~v~D~~~~~~~~d~~~~~~~-~-~~~~~i~v~NK~DL~~~--------~~~~~~--~~~--~~~  351 (454)
T COG0486         287 IERA-KKAIEEADLVLFVLDASQPLDKEDLALIELL-P-KKKPIIVVLNKADLVSK--------IELESE--KLA--NGD  351 (454)
T ss_pred             HHHH-HHHHHhCCEEEEEEeCCCCCchhhHHHHHhc-c-cCCCEEEEEechhcccc--------cccchh--hcc--CCC
Confidence            3444 6899999999999999998777777776633 2 57999999999999886        211111  112  355


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      +.+.+|++++                 .|++.|.+.|.+++...
T Consensus       352 ~~i~iSa~t~-----------------~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         352 AIISISAKTG-----------------EGLDALREAIKQLFGKG  378 (454)
T ss_pred             ceEEEEecCc-----------------cCHHHHHHHHHHHHhhc
Confidence            7899999999                 99999999999987643

>COG2262 HflX GTPases [General function prediction only]

Probab=99.14  E-value=2.4e-10  Score=93.00  Aligned_cols=99  Identities=20%  Similarity=0.213  Sum_probs=69.8

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHH
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQT   82 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~   82 (161)
                      |++.-.+|...+  +...+||++|+|+|+++|..... ....+.+.+.  ...|+|+|+||+|+++.        +... 
T Consensus       255 P~~LV~AFksTL--EE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~--------~~~~-  323 (411)
T COG2262         255 PHPLVEAFKSTL--EEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLED--------EEIL-  323 (411)
T ss_pred             ChHHHHHHHHHH--HHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCc--------hhhh-
Confidence            555565666665  78889999999999999843211 2233444442  46899999999998876        2211 


Q ss_pred             HhhhhccCCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          83 WIPYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        83 ~~~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                        ..+.  ... +.+++||.++                 .|++.|++.|.+.++.
T Consensus       324 --~~~~--~~~~~~v~iSA~~~-----------------~gl~~L~~~i~~~l~~  357 (411)
T COG2262         324 --AELE--RGSPNPVFISAKTG-----------------EGLDLLRERIIELLSG  357 (411)
T ss_pred             --hhhh--hcCCCeEEEEeccC-----------------cCHHHHHHHHHHHhhh
Confidence              1122  122 4899999999                 9999999999988764

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.12  E-value=6.3e-10  Score=85.20  Aligned_cols=103  Identities=15%  Similarity=0.078  Sum_probs=71.1

Q ss_pred             CCcchHHHHHHHHHHHhh--hccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHH
Q psy8220           6 PMEMRGVVVQEIERSVVE--AADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTW   83 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~--~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~   83 (161)
                      |.|.  .|.+.. ...+.  .+|++++|+|+..+....+..+..++.. .+.|+++|+||+|+.++.    .+......+
T Consensus        92 pG~~--~~~~~~-~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~-~~ip~ivvvNK~D~~~~~----~~~~~~~~l  163 (224)
T cd04165          92 AGHE--RYLKTT-LFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALA-LNIPVFVVVTKIDLAPAN----ILQETLKDL  163 (224)
T ss_pred             CCcH--HHHHHH-HHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHH-cCCCEEEEEECccccCHH----HHHHHHHHH
Confidence            5553  355666 45554  7999999999998888777787777776 689999999999997651    111222222


Q ss_pred             hhhhc-------------------------cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          84 IPYNS-------------------------IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        84 ~~~~~-------------------------~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .+.+.                         .....|++.+||.++                 .|+++|.+.|...
T Consensus       164 ~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg-----------------~Gi~~L~~~L~~l  221 (224)
T cd04165         164 KRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTG-----------------EGLDLLHAFLNLL  221 (224)
T ss_pred             HHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCc-----------------cCHHHHHHHHHhc
Confidence            22222                         001237788899998                 9999999888653

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

>PRK09866 hypothetical protein; Provisional

Probab=99.11  E-value=8e-10  Score=94.87  Aligned_cols=94  Identities=17%  Similarity=0.070  Sum_probs=66.8

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCC--CcEEEEeecCCCCCcccccccHHHHHHHHhh-hhcc-C-CCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG--KKLVIVINKAGKPSTKIQSGSMAQIFQTWIP-YNSI-Q-SIY   93 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~--k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~-~~~~-~-~~~   93 (161)
                      .+++++||+||||+|++.+.+..+..+.+.+.+ .+  .|+++|+||+|+.+..  . ...+.+..+.. .+.. . ...
T Consensus       253 ~eqL~eADvVLFVVDat~~~s~~DeeIlk~Lkk-~~K~~PVILVVNKIDl~dre--e-ddkE~Lle~V~~~L~q~~i~f~  328 (741)
T PRK09866        253 NQQLARASAVLAVLDYTQLKSISDEEVREAILA-VGQSVPLYVLVNKFDQQDRN--S-DDADQVRALISGTLMKGCITPQ  328 (741)
T ss_pred             HHHHhhCCEEEEEEeCCCCCChhHHHHHHHHHh-cCCCCCEEEEEEcccCCCcc--c-chHHHHHHHHHHHHHhcCCCCc
Confidence            457999999999999998877788888888876 45  4999999999987531  0 00122333322 1110 1 123


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .++++||+++                 .|++.|++.|.+.
T Consensus       329 eIfPVSAlkG-----------------~nid~LLdeI~~~  351 (741)
T PRK09866        329 QIFPVSSMWG-----------------YLANRARHELANN  351 (741)
T ss_pred             eEEEEeCCCC-----------------CCHHHHHHHHHhC
Confidence            4899999999                 8999999998764

>COG1162 Predicted GTPases [General function prediction only]

Probab=99.10  E-value=5.6e-10  Score=88.13  Aligned_cols=105  Identities=23%  Similarity=0.175  Sum_probs=71.4

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHH--HHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQ--TWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~--~~~~~~~~~~~~~   94 (161)
                      +-.+..+|-+++|+-+.+|..+. ..+.++|.-  ..+...++++||+||++.        +...  .+...+. ..+++
T Consensus        74 Rp~v~n~d~~iiIvs~~~P~~~~-~~ldR~Lv~ae~~gi~pvIvlnK~DL~~~--------~~~~~~~~~~~y~-~~gy~  143 (301)
T COG1162          74 RPPVANNDQAIIVVSLVDPDFNT-NLLDRYLVLAEAGGIEPVIVLNKIDLLDD--------EEAAVKELLREYE-DIGYP  143 (301)
T ss_pred             CCcccccceEEEEEeccCCCCCH-HHHHHHHHHHHHcCCcEEEEEEccccCcc--------hHHHHHHHHHHHH-hCCee
Confidence            33455678888888887775432 234444432  147777888999999987        2222  2333332 14788


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++.+|++++                 .|+++|.+.|    ..+      ...++|.++||||||++
T Consensus       144 v~~~s~~~~-----------------~~~~~l~~~l----~~~------~svl~GqSGVGKSSLiN  182 (301)
T COG1162         144 VLFVSAKNG-----------------DGLEELAELL----AGK------ITVLLGQSGVGKSTLIN  182 (301)
T ss_pred             EEEecCcCc-----------------ccHHHHHHHh----cCC------eEEEECCCCCcHHHHHH
Confidence            999999988                 8888877765    322      46778999999999986

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.10  E-value=1.4e-09  Score=81.90  Aligned_cols=102  Identities=12%  Similarity=0.063  Sum_probs=65.4

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCC-CCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc--
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPM-GTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI--   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~-~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~--   89 (161)
                      ++... ...+..+|++++|+|++++. ..........+.....+|+++|+||+|+.+..    ......+...+.+..  
T Consensus        96 ~~~~~-~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl~~~~----~~~~~~~~i~~~~~~~~  170 (203)
T cd01888          96 LMATM-LSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDLVKEE----QALENYEQIKKFVKGTI  170 (203)
T ss_pred             HHHHH-HHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhccCHH----HHHHHHHHHHHHHhccc
Confidence            44555 78888999999999999752 23333333333321235789999999998641    111111222222221  


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ....+++++||+++                 .|+++|++.|.+.++.
T Consensus       171 ~~~~~i~~vSA~~g-----------------~gi~~L~~~l~~~l~~  200 (203)
T cd01888         171 AENAPIIPISAQLK-----------------YNIDVLLEYIVKKIPT  200 (203)
T ss_pred             cCCCcEEEEeCCCC-----------------CCHHHHHHHHHHhCCC
Confidence            12467899999999                 9999999999887653

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

>cd01889 SelB_euk SelB subfamily

Probab=99.09  E-value=1.8e-09  Score=80.31  Aligned_cols=101  Identities=19%  Similarity=0.078  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh----hh
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP----YN   87 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~----~~   87 (161)
                      .++++. ...+..+|.+++|+|++++....+......... .+.|+++|+||+|+....    ......+.+.+    .+
T Consensus        80 ~~~~~~-~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~~~-~~~~~iiv~NK~Dl~~~~----~~~~~~~~~~~~l~~~~  153 (192)
T cd01889          80 SLIRTI-IGGAQIIDLMLLVVDATKGIQTQTAECLVIGEI-LCKKLIVVLNKIDLIPEE----ERERKIEKMKKKLQKTL  153 (192)
T ss_pred             HHHHHH-HHHHhhCCEEEEEEECCCCccHHHHHHHHHHHH-cCCCEEEEEECcccCCHH----HHHHHHHHHHHHHHHHH
Confidence            456777 577788999999999988654433322222222 468999999999997541    00011122211    11


Q ss_pred             c--cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          88 S--IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        88 ~--~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .  ...+.+++++||+++                 .|+++|++.|.+..+
T Consensus       154 ~~~~~~~~~vi~iSa~~g-----------------~gi~~L~~~l~~~~~  186 (192)
T cd01889         154 EKTRFKNSPIIPVSAKPG-----------------GGEAELGKDLNNLIV  186 (192)
T ss_pred             HhcCcCCCCEEEEeccCC-----------------CCHHHHHHHHHhccc
Confidence            1  012567999999999                 999999999877654

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

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.08  E-value=2e-09  Score=78.02  Aligned_cols=96  Identities=17%  Similarity=0.189  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      .+.+.+ ..++..||++|+|+|++++.......+.+.  . .++|+++++||+|+....     . +....|...+.  .
T Consensus        53 ~~~~~~-~~~~~~ad~il~v~d~~~~~s~~~~~~~~~--~-~~~~ii~v~nK~Dl~~~~-----~-~~~~~~~~~~~--~  120 (158)
T PRK15467         53 RWYHAL-ITTLQDVDMLIYVHGANDPESRLPAGLLDI--G-VSKRQIAVISKTDMPDAD-----V-AATRKLLLETG--F  120 (158)
T ss_pred             HHHHHH-HHHHhcCCEEEEEEeCCCcccccCHHHHhc--c-CCCCeEEEEEccccCccc-----H-HHHHHHHHHcC--C
Confidence            345665 567899999999999987765444444332  1 368999999999986531     1 22233333322  1


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ..|++++||+++                 .|+++|.+.|.+....
T Consensus       121 ~~p~~~~Sa~~g-----------------~gi~~l~~~l~~~~~~  148 (158)
T PRK15467        121 EEPIFELNSHDP-----------------QSVQQLVDYLASLTKQ  148 (158)
T ss_pred             CCCEEEEECCCc-----------------cCHHHHHHHHHHhchh
Confidence            248999999999                 9999999999887753

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.08  E-value=6.5e-10  Score=92.20  Aligned_cols=112  Identities=20%  Similarity=0.151  Sum_probs=74.5

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      .+++..||++|+|+|+.++.+..+..+...+.+ .++|+++|+||+|+....   ....+........+......|++++
T Consensus       249 ~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~-~~~~iiiv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~vi~~  324 (429)
T TIGR03594       249 LKAIERADVVLLVLDATEGITEQDLRIAGLILE-AGKALVIVVNKWDLVKDE---KTREEFKKELRRKLPFLDFAPIVFI  324 (429)
T ss_pred             HHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH-cCCcEEEEEECcccCCCH---HHHHHHHHHHHHhcccCCCCceEEE
Confidence            467899999999999999988777777776665 689999999999998321   0111111111122221135689999


Q ss_pred             eecCCCCcchhh---hhhhhccccccCHHHHHHHHHhHh
Q psy8220          99 SSRSQKDAQTER---DLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        99 Sa~~~~~~~~~~---~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ||+++.+....+   ...+.....+..+..|.+.|.+..
T Consensus       325 SA~~g~~v~~l~~~i~~~~~~~~~~i~t~~ln~~l~~~~  363 (429)
T TIGR03594       325 SALTGQGVDKLLDAIDEVYENANRRISTSKLNRVLEEAV  363 (429)
T ss_pred             eCCCCCCHHHHHHHHHHHHHHhcCcCCHHHHHHHHHHHH
Confidence            999985544433   345555666677777777776654

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.

>cd04163 Era Era subfamily

Probab=99.08  E-value=2.4e-09  Score=76.13  Aligned_cols=98  Identities=18%  Similarity=0.205  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          11 GVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        11 ~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ++.+...+...+..+|++++|+|++.+....+..+...+.. .+.|+++|+||+|+....       +.+..+...+...
T Consensus        69 ~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~-~~~~~iiv~nK~Dl~~~~-------~~~~~~~~~~~~~  140 (168)
T cd04163          69 GERMVKAAWSALKDVDLVLFVVDASEPIGEGDEFILELLKK-SKTPVILVLNKIDLVKDK-------EDLLPLLEKLKEL  140 (168)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEECCCccCchHHHHHHHHHH-hCCCEEEEEEchhccccH-------HHHHHHHHHHHhc
Confidence            34444444677899999999999998866666666666654 468999999999998431       3334444444422


Q ss_pred             C-CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          91 S-IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        91 ~-~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      . ..+++.+|++++                 .|+++|.+.|.+.
T Consensus       141 ~~~~~~~~~s~~~~-----------------~~~~~l~~~l~~~  167 (168)
T cd04163         141 GPFAEIFPISALKG-----------------ENVDELLEEIVKY  167 (168)
T ss_pred             cCCCceEEEEeccC-----------------CChHHHHHHHHhh
Confidence            2 357899999998                 8999999998764

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.

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.07  E-value=1.7e-09  Score=81.11  Aligned_cols=115  Identities=16%  Similarity=0.049  Sum_probs=71.7

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHHHHHHH-
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMAQIFQT-   82 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~~~~~~-   82 (161)
                      .|.|.  .|+.+. ..++..+|++++|+|+..+...++..+..++.. .+.| +|+++||+|+..+.    +..+.+.. 
T Consensus        72 tPG~~--~~~~~~-~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~-~~~~~iIvviNK~D~~~~~----~~~~~~~~~  143 (195)
T cd01884          72 CPGHA--DYIKNM-ITGAAQMDGAILVVSATDGPMPQTREHLLLARQ-VGVPYIVVFLNKADMVDDE----ELLELVEME  143 (195)
T ss_pred             CcCHH--HHHHHH-HHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHH-cCCCcEEEEEeCCCCCCcH----HHHHHHHHH
Confidence            35553  467777 789999999999999998877777777777765 5776 77899999997541    11111111 


Q ss_pred             HhhhhccC----CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          83 WIPYNSIQ----SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        83 ~~~~~~~~----~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ....+...    ...|++++||.++....+  .   ..+.  .+...|+++|.++.
T Consensus       144 i~~~l~~~g~~~~~v~iipiSa~~g~n~~~--~---~~w~--~~~~~l~~~l~~~~  192 (195)
T cd01884         144 VRELLSKYGFDGDNTPIVRGSALKALEGDD--P---NKWV--KKILELLDALDSYI  192 (195)
T ss_pred             HHHHHHHhcccccCCeEEEeeCccccCCCC--C---Ccch--hcHhHHHHHHHhCC
Confidence            11222211    236799999999832211  0   0000  14577888776543

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.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.06  E-value=1.7e-09  Score=77.14  Aligned_cols=92  Identities=20%  Similarity=0.147  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      -++..+ .-...+||+|++|.|++++.....+.+...+    ++|+|-|+||+|+.+..       +.++.-.+.+....
T Consensus        52 ~~y~aL-i~ta~dad~V~ll~dat~~~~~~pP~fa~~f----~~pvIGVITK~Dl~~~~-------~~i~~a~~~L~~aG  119 (143)
T PF10662_consen   52 RFYHAL-IVTAQDADVVLLLQDATEPRSVFPPGFASMF----NKPVIGVITKIDLPSDD-------ANIERAKKWLKNAG  119 (143)
T ss_pred             HHHHHH-HHHHhhCCEEEEEecCCCCCccCCchhhccc----CCCEEEEEECccCccch-------hhHHHHHHHHHHcC
Confidence            456666 6777899999999999999888888776543    59999999999998331       22232223332111


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      -..++.+|+.++                 .|+++|.+.|.+
T Consensus       120 ~~~if~vS~~~~-----------------eGi~eL~~~L~~  143 (143)
T PF10662_consen  120 VKEIFEVSAVTG-----------------EGIEELKDYLEE  143 (143)
T ss_pred             CCCeEEEECCCC-----------------cCHHHHHHHHhC
Confidence            234689999999                 999999998863

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

>cd01890 LepA LepA subfamily

Probab=99.04  E-value=4.4e-09  Score=76.67  Aligned_cols=97  Identities=18%  Similarity=0.100  Sum_probs=64.0

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+...+..+|++|+|+|++++....+......+.. .+.|+++|+||+|+.+..     .......+.+.+. ....+
T Consensus        81 ~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~-~~~~iiiv~NK~Dl~~~~-----~~~~~~~~~~~~~-~~~~~  153 (179)
T cd01890          81 SYEVSRSLAACEGALLLVDATQGVEAQTLANFYLALE-NNLEIIPVINKIDLPSAD-----PERVKQQIEDVLG-LDPSE  153 (179)
T ss_pred             HHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHH-cCCCEEEEEECCCCCcCC-----HHHHHHHHHHHhC-CCccc
Confidence            3444678899999999999988765444333333333 478999999999986431     0011122222222 01224


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ++.+||+++                 .|+++|.+.|.+.++
T Consensus       154 ~~~~Sa~~g-----------------~gi~~l~~~l~~~~~  177 (179)
T cd01890         154 AILVSAKTG-----------------LGVEDLLEAIVERIP  177 (179)
T ss_pred             EEEeeccCC-----------------CCHHHHHHHHHhhCC
Confidence            789999999                 999999999877653

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.04  E-value=2.9e-09  Score=77.88  Aligned_cols=99  Identities=13%  Similarity=0.135  Sum_probs=68.3

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc-----
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI-----   89 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~-----   89 (161)
                      ...+...+..+|.+++|+|+..+.......+...+.. .+.|+++|+||+|+..+.    ..........+.+..     
T Consensus        76 ~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~-~~~~i~iv~nK~D~~~~~----~~~~~~~~~~~~~~~~~~~~  150 (189)
T cd00881          76 SSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIARE-GGLPIIVAINKIDRVGEE----DLEEVLREIKELLGLIGFIS  150 (189)
T ss_pred             HHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHH-CCCCeEEEEECCCCcchh----cHHHHHHHHHHHHccccccc
Confidence            3344678889999999999998776555555555554 589999999999998631    111111111122211     


Q ss_pred             --------CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 --------QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 --------~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                              ....+++++||+++                 .|+++|.+.|.+.++
T Consensus       151 ~~~~~~~~~~~~~v~~~Sa~~g-----------------~gi~~l~~~l~~~l~  187 (189)
T cd00881         151 TKEEGTRNGLLVPIVPGSALTG-----------------IGVEELLEAIVEHLP  187 (189)
T ss_pred             hhhhhcccCCcceEEEEecccC-----------------cCHHHHHHHHHhhCC
Confidence                    12467899999998                 899999999988765

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.03  E-value=2.9e-09  Score=74.98  Aligned_cols=90  Identities=18%  Similarity=0.103  Sum_probs=60.6

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      +++.+ ...+..||++++|+|++++.+..+..+.+.    ..+|+++|+||+|+.+..   ... +....+.+..   ..
T Consensus        52 ~~~~~-~~~~~~ad~vilv~d~~~~~s~~~~~~~~~----~~~p~ilv~NK~Dl~~~~---~~~-~~~~~~~~~~---~~  119 (142)
T TIGR02528        52 LYSAL-IVTAADADVIALVQSATDPESRFPPGFASI----FVKPVIGLVTKIDLAEAD---VDI-ERAKELLETA---GA  119 (142)
T ss_pred             HHHHH-HHHhhcCCEEEEEecCCCCCcCCChhHHHh----ccCCeEEEEEeeccCCcc---cCH-HHHHHHHHHc---CC
Confidence            44555 356899999999999998877655444332    246999999999997531   011 1122332221   12


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHH
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLG  131 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~  131 (161)
                      .+++.+||+++                 .|+++|.+.|.
T Consensus       120 ~~~~~~Sa~~~-----------------~gi~~l~~~l~  141 (142)
T TIGR02528       120 EPIFEISSVDE-----------------QGLEALVDYLN  141 (142)
T ss_pred             CcEEEEecCCC-----------------CCHHHHHHHHh
Confidence            36889999999                 89999988763

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.

>cd04171 SelB SelB subfamily

Probab=99.02  E-value=3.2e-09  Score=75.90  Aligned_cols=98  Identities=14%  Similarity=0.063  Sum_probs=61.5

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC--
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ--   90 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~--   90 (161)
                      +.... ...+..||++++|+|+++++..........+.....+|+++|+||+|+.+..    ........+.+.+...  
T Consensus        64 ~~~~~-~~~~~~ad~ii~V~d~~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~----~~~~~~~~~~~~~~~~~~  138 (164)
T cd04171          64 FIKNM-LAGAGGIDLVLLVVAADEGIMPQTREHLEILELLGIKRGLVVLTKADLVDED----WLELVEEEIRELLAGTFL  138 (164)
T ss_pred             HHHHH-HhhhhcCCEEEEEEECCCCccHhHHHHHHHHHHhCCCcEEEEEECccccCHH----HHHHHHHHHHHHHHhcCc
Confidence            34444 5678899999999999875544333333333321235999999999997641    0001112222333211  


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      ...+++++||+++                 .|+++|.+.|.+
T Consensus       139 ~~~~~~~~Sa~~~-----------------~~v~~l~~~l~~  163 (164)
T cd04171         139 ADAPIFPVSAVTG-----------------EGIEELKEYLDE  163 (164)
T ss_pred             CCCcEEEEeCCCC-----------------cCHHHHHHHHhh
Confidence            2467899999999                 899999888754

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.02  E-value=2.5e-09  Score=88.91  Aligned_cols=111  Identities=21%  Similarity=0.185  Sum_probs=75.3

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      .+++..+|++|+|+|+..+...++..+..++.. .++|+++|+||+|+.+..    ...+........+......|++++
T Consensus       250 ~~~~~~ad~~ilViD~~~~~~~~~~~i~~~~~~-~~~~~ivv~NK~Dl~~~~----~~~~~~~~~~~~l~~~~~~~i~~~  324 (435)
T PRK00093        250 LKAIERADVVLLVIDATEGITEQDLRIAGLALE-AGRALVIVVNKWDLVDEK----TMEEFKKELRRRLPFLDYAPIVFI  324 (435)
T ss_pred             HHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHH-cCCcEEEEEECccCCCHH----HHHHHHHHHHHhcccccCCCEEEE
Confidence            468899999999999999988888777777765 689999999999998541    010111111122221235689999


Q ss_pred             eecCCCCcchhh---hhhhhccccccCHHHHHHHHHhHh
Q psy8220          99 SSRSQKDAQTER---DLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        99 Sa~~~~~~~~~~---~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ||+++.+....+   ...+.....+..+..|.+.|.+..
T Consensus       325 SA~~~~gv~~l~~~i~~~~~~~~~~i~t~~ln~~l~~~~  363 (435)
T PRK00093        325 SALTGQGVDKLLEAIDEAYENANRRISTSVLNRVLEEAV  363 (435)
T ss_pred             eCCCCCCHHHHHHHHHHHHHHHcCcCChHHHHHHHHHHH
Confidence            999985544433   344555666677777777777655

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.00  E-value=3e-09  Score=86.49  Aligned_cols=89  Identities=20%  Similarity=0.234  Sum_probs=60.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ++.. .+.+.+||++|+|+|++++....+ ..+.+.+...  .++|+++|+||+|+.+.        ..+..+   ..  
T Consensus       259 f~~t-le~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~--------~~v~~~---~~--  324 (351)
T TIGR03156       259 FRAT-LEEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDE--------PRIERL---EE--  324 (351)
T ss_pred             HHHH-HHHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCCh--------HhHHHH---Hh--
Confidence            4444 467899999999999998764322 1222333321  36899999999999764        222211   11  


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ...+++++||+++                 .|+++|.+.|.+.
T Consensus       325 ~~~~~i~iSAktg-----------------~GI~eL~~~I~~~  350 (351)
T TIGR03156       325 GYPEAVFVSAKTG-----------------EGLDLLLEAIAER  350 (351)
T ss_pred             CCCCEEEEEccCC-----------------CCHHHHHHHHHhh
Confidence            1245799999999                 9999999998654

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).

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.98  E-value=4.6e-09  Score=88.50  Aligned_cols=120  Identities=14%  Similarity=0.156  Sum_probs=81.3

Q ss_pred             HHHHHHH-HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          12 VVVQEIE-RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        12 ~~~~~~~-~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +++..+. ..++..||++++|+|++++.+.++..+...+.. .++|+|+|+||+|+.+.. +   ...........+...
T Consensus       280 e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~~~~~~~~~-~~~piIiV~NK~Dl~~~~-~---~~~~~~~i~~~l~~~  354 (472)
T PRK03003        280 EYYASLRTHAAIEAAEVAVVLIDASEPISEQDQRVLSMVIE-AGRALVLAFNKWDLVDED-R---RYYLEREIDRELAQV  354 (472)
T ss_pred             HHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHHHHHHHHHH-cCCCEEEEEECcccCChh-H---HHHHHHHHHHhcccC
Confidence            4444431 356789999999999999887777666666655 689999999999997641 0   001011111222211


Q ss_pred             CCCceeEEeecCCCCcchhh---hhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTER---DLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~---~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ...|++++||+++.+....+   ...+.....+..+.+|++.+.+....
T Consensus       355 ~~~~~~~~SAk~g~gv~~lf~~i~~~~~~~~~~i~t~~ln~~~~~~~~~  403 (472)
T PRK03003        355 PWAPRVNISAKTGRAVDKLVPALETALESWDTRIPTGRLNAWLGELVAA  403 (472)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHc
Confidence            34678999999996655543   35666777888999999998887643

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.97  E-value=3.2e-09  Score=85.68  Aligned_cols=93  Identities=14%  Similarity=0.095  Sum_probs=61.4

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCC----CcHHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          17 IERSVVEAADVILEVVDARDPMGT----RCKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~----~~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      .+.+.++++|++|+|+|+++...+    ....+.+.+...    .++|+++|+||+|+.+.        .....+.+.+.
T Consensus       228 ~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~--------~~~~~~~~~l~  299 (329)
T TIGR02729       228 RFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDE--------EELAELLKELK  299 (329)
T ss_pred             HHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCCh--------HHHHHHHHHHH
Confidence            335677899999999999864211    112222223210    36899999999999765        22233333333


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +..+.+++++||+++                 .|+++|.+.|.+.+
T Consensus       300 ~~~~~~vi~iSAktg-----------------~GI~eL~~~I~~~l  328 (329)
T TIGR02729       300 KALGKPVFPISALTG-----------------EGLDELLYALAELL  328 (329)
T ss_pred             HHcCCcEEEEEccCC-----------------cCHHHHHHHHHHHh
Confidence            222457899999998                 99999999987654

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.

>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=98.96  E-value=1.5e-10  Score=83.83  Aligned_cols=81  Identities=22%  Similarity=0.183  Sum_probs=57.6

Q ss_pred             hhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeec
Q psy8220          22 VEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSR  101 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~  101 (161)
                      .++.|++++|+|++..  +.+..+...+.+ .++|+++|+||+|.+.+.  ...++  .+.+.+.    .+.|++++||.
T Consensus        76 ~~~~D~ii~VvDa~~l--~r~l~l~~ql~e-~g~P~vvvlN~~D~a~~~--g~~id--~~~Ls~~----Lg~pvi~~sa~  144 (156)
T PF02421_consen   76 SEKPDLIIVVVDATNL--ERNLYLTLQLLE-LGIPVVVVLNKMDEAERK--GIEID--AEKLSER----LGVPVIPVSAR  144 (156)
T ss_dssp             HTSSSEEEEEEEGGGH--HHHHHHHHHHHH-TTSSEEEEEETHHHHHHT--TEEE---HHHHHHH----HTS-EEEEBTT
T ss_pred             hcCCCEEEEECCCCCH--HHHHHHHHHHHH-cCCCEEEEEeCHHHHHHc--CCEEC--HHHHHHH----hCCCEEEEEeC
Confidence            3689999999999863  344555556666 689999999999987651  11111  1222223    36899999999


Q ss_pred             CCCCcchhhhhhhhccccccCHHHHHHHH
Q psy8220         102 SQKDAQTERDLKAINVSSCVGAELLMLLL  130 (161)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~g~~~L~~~l  130 (161)
                      ++                 .|+++|+++|
T Consensus       145 ~~-----------------~g~~~L~~~I  156 (156)
T PF02421_consen  145 TG-----------------EGIDELKDAI  156 (156)
T ss_dssp             TT-----------------BTHHHHHHHH
T ss_pred             CC-----------------cCHHHHHhhC
Confidence            99                 9999999875

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 ....

>cd01898 Obg Obg subfamily

Probab=98.96  E-value=3.7e-09  Score=76.30  Aligned_cols=90  Identities=14%  Similarity=0.050  Sum_probs=58.7

Q ss_pred             HHHhhhccEEEEEEeCCCCC-CC-CcHHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC-C
Q psy8220          19 RSVVEAADVILEVVDARDPM-GT-RCKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ-S   91 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~-~~-~~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~   91 (161)
                      .+.+..+|++++|+|++++. .. ....+.+.+...    .++|+++|+||+|+.+.        .....+...+... .
T Consensus        73 ~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~--------~~~~~~~~~~~~~~~  144 (170)
T cd01898          73 LRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDE--------EELFELLKELLKELW  144 (170)
T ss_pred             HHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCc--------hhhHHHHHHHHhhCC
Confidence            45667899999999998762 21 112233333221    26899999999999765        2223333322211 2


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ..+++.+||+++                 .|+++|.+.|.+.
T Consensus       145 ~~~~~~~Sa~~~-----------------~gi~~l~~~i~~~  169 (170)
T cd01898         145 GKPVFPISALTG-----------------EGLDELLRKLAEL  169 (170)
T ss_pred             CCCEEEEecCCC-----------------CCHHHHHHHHHhh
Confidence            456899999998                 8999999888653

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.

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=98.95  E-value=5.1e-09  Score=74.49  Aligned_cols=84  Identities=18%  Similarity=0.098  Sum_probs=57.9

Q ss_pred             hhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecC
Q psy8220          23 EAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRS  102 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~  102 (161)
                      +.+|++++|+|++.+..  ...+...+.. .++|+++|+||+|+.+..        ....+...+....+.+++++||.+
T Consensus        73 ~~~d~vi~v~d~~~~~~--~~~~~~~~~~-~~~~~iiv~NK~Dl~~~~--------~~~~~~~~~~~~~~~~~~~iSa~~  141 (158)
T cd01879          73 EKPDLIVNVVDATNLER--NLYLTLQLLE-LGLPVVVALNMIDEAEKR--------GIKIDLDKLSELLGVPVVPTSARK  141 (158)
T ss_pred             CCCcEEEEEeeCCcchh--HHHHHHHHHH-cCCCEEEEEehhhhcccc--------cchhhHHHHHHhhCCCeEEEEccC
Confidence            59999999999987532  2333334444 579999999999997641        111111222211256789999999


Q ss_pred             CCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220         103 QKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +                 .|+++|.+.|.+++
T Consensus       142 ~-----------------~~~~~l~~~l~~~~  156 (158)
T cd01879         142 G-----------------EGIDELKDAIAELA  156 (158)
T ss_pred             C-----------------CCHHHHHHHHHHHh
Confidence            8                 89999999987764

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.95  E-value=1.4e-08  Score=88.00  Aligned_cols=107  Identities=14%  Similarity=0.067  Sum_probs=73.0

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHHHHHHHH
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMAQIFQTW   83 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~~~~~~~   83 (161)
                      .|.|.  .|.+.+ ...+..+|++++|+|+.+++..++.+....+.. .+.| +++|+||+|++++.    .+.......
T Consensus        58 tPGhe--~fi~~m-~~g~~~~D~~lLVVda~eg~~~qT~ehl~il~~-lgi~~iIVVlNKiDlv~~~----~~~~v~~ei  129 (614)
T PRK10512         58 VPGHE--KFLSNM-LAGVGGIDHALLVVACDDGVMAQTREHLAILQL-TGNPMLTVALTKADRVDEA----RIAEVRRQV  129 (614)
T ss_pred             CCCHH--HHHHHH-HHHhhcCCEEEEEEECCCCCcHHHHHHHHHHHH-cCCCeEEEEEECCccCCHH----HHHHHHHHH
Confidence            35553  356666 677899999999999998877666665565554 4566 57999999998641    111111222


Q ss_pred             hhhhccC--CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          84 IPYNSIQ--SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        84 ~~~~~~~--~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+...  ...|++++||.++                 .|+++|.+.|.++...
T Consensus       130 ~~~l~~~~~~~~~ii~VSA~tG-----------------~gI~~L~~~L~~~~~~  167 (614)
T PRK10512        130 KAVLREYGFAEAKLFVTAATEG-----------------RGIDALREHLLQLPER  167 (614)
T ss_pred             HHHHHhcCCCCCcEEEEeCCCC-----------------CCCHHHHHHHHHhhcc
Confidence            2232211  1357899999999                 9999999999887654

>cd01895 EngA2 EngA2 subfamily

Probab=98.94  E-value=1.9e-08  Score=72.14  Aligned_cols=93  Identities=25%  Similarity=0.257  Sum_probs=63.3

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh-hhhccCCCCceeE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI-PYNSIQSIYSSPR   97 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~   97 (161)
                      ...+..+|++++|+|+.++....+..+...+.. .++|+++|+||+|+.+...  ... +....+. ..+......++++
T Consensus        79 ~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~-~~~~~iiv~nK~Dl~~~~~--~~~-~~~~~~~~~~~~~~~~~~~~~  154 (174)
T cd01895          79 LKAIERADVVLLVIDATEGITEQDLRIAGLILE-EGKALVIVVNKWDLVEKDS--KTM-KEFKKEIRRKLPFLDYAPIVF  154 (174)
T ss_pred             HHHHhhcCeEEEEEeCCCCcchhHHHHHHHHHh-cCCCEEEEEeccccCCccH--HHH-HHHHHHHHhhcccccCCceEE
Confidence            356789999999999998877666666665554 5799999999999976410  011 1111111 1221112357899


Q ss_pred             EeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          98 FSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        98 iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      +||+++                 .|++++.+.+.+
T Consensus       155 ~Sa~~~-----------------~~i~~~~~~l~~  172 (174)
T cd01895         155 ISALTG-----------------QGVDKLFDAIDE  172 (174)
T ss_pred             EeccCC-----------------CCHHHHHHHHHH
Confidence            999998                 999999988765

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.94  E-value=6.7e-09  Score=83.99  Aligned_cols=94  Identities=14%  Similarity=0.059  Sum_probs=61.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      .+.++++|++++|+|++++.... ...+.+.+...    .++|+++|+||+|+.+..       +........+......
T Consensus       231 lrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~-------~~~~~~~~~~~~~~~~  303 (335)
T PRK12299        231 LKHIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEE-------EEREKRAALELAALGG  303 (335)
T ss_pred             HHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCch-------hHHHHHHHHHHHhcCC
Confidence            56788999999999998653211 12333333221    268999999999997651       1111111111111246


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +++++||+++                 .|+++|++.|.+.+..
T Consensus       304 ~i~~iSAktg-----------------~GI~eL~~~L~~~l~~  329 (335)
T PRK12299        304 PVFLISAVTG-----------------EGLDELLRALWELLEE  329 (335)
T ss_pred             CEEEEEcCCC-----------------CCHHHHHHHHHHHHHh
Confidence            7899999999                 9999999999887754

>PRK12736 elongation factor Tu; Reviewed

Probab=98.94  E-value=1.7e-08  Score=83.35  Aligned_cols=118  Identities=15%  Similarity=0.018  Sum_probs=73.6

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHHHHHHHH
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMAQIFQTW   83 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~~~~~~~   83 (161)
                      .|.|.  +|+..+ ...+..+|++++|+|++.+...++.+...++.. .+.| +|+++||+|+.+.+.....+.+.+..+
T Consensus        82 tPGh~--~f~~~~-~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~-~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~  157 (394)
T PRK12736         82 CPGHA--DYVKNM-ITGAAQMDGAILVVAATDGPMPQTREHILLARQ-VGVPYLVVFLNKVDLVDDEELLELVEMEVREL  157 (394)
T ss_pred             CCCHH--HHHHHH-HHHHhhCCEEEEEEECCCCCchhHHHHHHHHHH-cCCCEEEEEEEecCCcchHHHHHHHHHHHHHH
Confidence            36654  577777 678899999999999998877777776666665 5788 578899999975410000011111222


Q ss_pred             hhhhcc-CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          84 IPYNSI-QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        84 ~~~~~~-~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ...+.. ....|++++||.++.....         .-..++.+|++.|.++++
T Consensus       158 l~~~~~~~~~~~ii~vSa~~g~~~~~---------~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        158 LSEYDFPGDDIPVIRGSALKALEGDP---------KWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             HHHhCCCcCCccEEEeeccccccCCC---------cchhhHHHHHHHHHHhCC
Confidence            111110 0135789999998621100         001368899999988775

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=98.93  E-value=1.7e-08  Score=75.06  Aligned_cols=106  Identities=16%  Similarity=0.111  Sum_probs=65.7

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh---c---cC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN---S---IQ   90 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~---~---~~   90 (161)
                      .+...+..+|.+++|+|++++.......+...+.. .+.|+++|+||+|+....     ...........+   .   ..
T Consensus        81 ~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~-~~~p~iiv~NK~Dl~~~~-----~~~~~~~~~~~~~~~~~~~~~  154 (194)
T cd01891          81 EVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALE-LGLKPIVVINKIDRPDAR-----PEEVVDEVFDLFIELGATEEQ  154 (194)
T ss_pred             HHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHH-cCCCEEEEEECCCCCCCC-----HHHHHHHHHHHHHHhCCcccc
Confidence            34678899999999999987654433444444433 578999999999997541     111122222222   1   11


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+++++||+++.+...       ......++++|.+.|.++.|
T Consensus       155 ~~~~iv~~Sa~~g~~~~~-------~~~~~~~~~~l~~~~~~~~~  192 (194)
T cd01891         155 LDFPVLYASAKNGWASLN-------LEDPSEDLEPLFDTIIEHVP  192 (194)
T ss_pred             CccCEEEeehhccccccc-------cccchhhHHHHHHHHHhcCC
Confidence            256789999999832211       11123677888888877765

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

>CHL00071 tufA elongation factor Tu

Probab=98.91  E-value=2.1e-08  Score=83.17  Aligned_cols=123  Identities=17%  Similarity=0.024  Sum_probs=74.1

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHHHHHH-H
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMAQIFQ-T   82 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~~~~~-~   82 (161)
                      .|.|.  .|+..+ ...+..+|++++|+|+..+...++.+...++.. .+.| +|+++||+|+.+..    +..+.+. .
T Consensus        82 tPGh~--~~~~~~-~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~-~g~~~iIvvvNK~D~~~~~----~~~~~~~~~  153 (409)
T CHL00071         82 CPGHA--DYVKNM-ITGAAQMDGAILVVSAADGPMPQTKEHILLAKQ-VGVPNIVVFLNKEDQVDDE----ELLELVELE  153 (409)
T ss_pred             CCChH--HHHHHH-HHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHH-cCCCEEEEEEEccCCCCHH----HHHHHHHHH
Confidence            46654  577887 688999999999999998887777777776665 5788 67899999998641    1111111 1


Q ss_pred             HhhhhccC----CCCceeEEeecCCCCcchhhhhhhh-ccccccCHHHHHHHHHhHhh
Q psy8220          83 WIPYNSIQ----SIYSSPRFSSRSQKDAQTERDLKAI-NVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        83 ~~~~~~~~----~~~~~i~iSa~~~~~~~~~~~~~~~-~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ....+...    ...|++++||.++............ ...--.+...|++.|.++.+
T Consensus       154 l~~~l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~~~~~~~~~w~~~~~~ll~~l~~~~~  211 (409)
T CHL00071        154 VRELLSKYDFPGDDIPIVSGSALLALEALTENPKIKRGENKWVDKIYNLMDAVDSYIP  211 (409)
T ss_pred             HHHHHHHhCCCCCcceEEEcchhhcccccccCccccccCCchhhhHHHHHHHHHhhCC
Confidence            22222211    1257899999887321100000000 00000156889998887653

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=98.91  E-value=3e-08  Score=71.29  Aligned_cols=102  Identities=14%  Similarity=0.107  Sum_probs=64.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh--ccCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN--SIQS   91 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~--~~~~   91 (161)
                      +..++...+..+|++++|+|++++...........+.. .++|+++|+||+|+....  .......+.......  ....
T Consensus        63 ~~~~~~~~~~~~d~il~v~d~~~~~~~~~~~~~~~~~~-~~~p~ivv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~  139 (168)
T cd01887          63 FTNMRARGASLTDIAILVVAADDGVMPQTIEAIKLAKA-ANVPFIVALNKIDKPNAN--PERVKNELSELGLQGEDEWGG  139 (168)
T ss_pred             HHHHHHHHHhhcCEEEEEEECCCCccHHHHHHHHHHHH-cCCCEEEEEEceeccccc--HHHHHHHHHHhhccccccccC
Confidence            34454567789999999999987654333344444544 579999999999987541  000001111111000  0002


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ..+++++||.++                 .|+++|.+.|.+...
T Consensus       140 ~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~  166 (168)
T cd01887         140 DVQIVPTSAKTG-----------------EGIDDLLEAILLLAE  166 (168)
T ss_pred             cCcEEEeecccC-----------------CCHHHHHHHHHHhhh
Confidence            357899999999                 899999999987653

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.91  E-value=1e-08  Score=90.35  Aligned_cols=111  Identities=16%  Similarity=0.177  Sum_probs=75.3

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHH-HHhhhhccCCCCceeE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQ-TWIPYNSIQSIYSSPR   97 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~   97 (161)
                      ..+++.||++++|+|++++...++..+...+.. .++|+++|+||+|+.+..    .. +.+. .+...+......++++
T Consensus       527 ~~~i~~advvilViDat~~~s~~~~~i~~~~~~-~~~piIiV~NK~DL~~~~----~~-~~~~~~~~~~l~~~~~~~ii~  600 (712)
T PRK09518        527 QAAIERSELALFLFDASQPISEQDLKVMSMAVD-AGRALVLVFNKWDLMDEF----RR-QRLERLWKTEFDRVTWARRVN  600 (712)
T ss_pred             HHHhhcCCEEEEEEECCCCCCHHHHHHHHHHHH-cCCCEEEEEEchhcCChh----HH-HHHHHHHHHhccCCCCCCEEE
Confidence            456899999999999999887777666666655 589999999999998641    00 1111 1222222112457899


Q ss_pred             EeecCCCCcchhh---hhhhhccccccCHHHHHHHHHhHhh
Q psy8220          98 FSSRSQKDAQTER---DLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        98 iSa~~~~~~~~~~---~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +||+++.+...++   ...+.+...+.++.+|.+.+.+...
T Consensus       601 iSAktg~gv~~L~~~i~~~~~~~~~~i~T~~Ln~~l~~~~~  641 (712)
T PRK09518        601 LSAKTGWHTNRLAPAMQEALESWDQRIPTGKLNAFLGKIQA  641 (712)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHhcccCChHHHHHHHHHHHh
Confidence            9999996554443   3455566677788888888877653

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=98.90  E-value=1.5e-08  Score=85.10  Aligned_cols=107  Identities=9%  Similarity=0.042  Sum_probs=68.4

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCC-CCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDP-MGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~-~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      |.|.  .|++.+ ...+..+|.+++|+|+..+ ...+..+-...+....-+++|+|+||+|+.+..    ...+......
T Consensus       125 PGH~--~fi~~m-~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvlNKiDlv~~~----~~~~~~~ei~  197 (460)
T PTZ00327        125 PGHD--ILMATM-LNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLVKEA----QAQDQYEEIR  197 (460)
T ss_pred             CCHH--HHHHHH-HHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEEecccccCHH----HHHHHHHHHH
Confidence            4443  467777 6888899999999999975 333322222222221235689999999998641    1111122222


Q ss_pred             hhhcc--CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          85 PYNSI--QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        85 ~~~~~--~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +.+..  ....|++++||.++                 .|++.|++.|.+.++.
T Consensus       198 ~~l~~~~~~~~~iipVSA~~G-----------------~nI~~Ll~~L~~~lp~  234 (460)
T PTZ00327        198 NFVKGTIADNAPIIPISAQLK-----------------YNIDVVLEYICTQIPI  234 (460)
T ss_pred             HHHHhhccCCCeEEEeeCCCC-----------------CCHHHHHHHHHhhCCC
Confidence            22211  13568999999999                 8999999999976653

>PRK00049 elongation factor Tu; Reviewed

Probab=98.89  E-value=3.9e-08  Score=81.23  Aligned_cols=116  Identities=15%  Similarity=0.028  Sum_probs=74.4

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEE-EEeecCCCCCcccccccHHHHHH-H
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLV-IVINKAGKPSTKIQSGSMAQIFQ-T   82 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~i-lVlNK~Dl~~~~~~~~~~~~~~~-~   82 (161)
                      .|.|.  .|+..+ ...+..||++++|+|+..+...++.++..++.. .+.|.+ +++||+|+.+..    +..+.+. .
T Consensus        82 tPG~~--~f~~~~-~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~-~g~p~iiVvvNK~D~~~~~----~~~~~~~~~  153 (396)
T PRK00049         82 CPGHA--DYVKNM-ITGAAQMDGAILVVSAADGPMPQTREHILLARQ-VGVPYIVVFLNKCDMVDDE----ELLELVEME  153 (396)
T ss_pred             CCCHH--HHHHHH-HhhhccCCEEEEEEECCCCCchHHHHHHHHHHH-cCCCEEEEEEeecCCcchH----HHHHHHHHH
Confidence            46663  678888 688899999999999998877777777777665 578976 589999997541    1101111 1


Q ss_pred             HhhhhccC----CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          83 WIPYNSIQ----SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        83 ~~~~~~~~----~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ....+...    ...|++++||.++.....       ...-..|+..|+++|.++.+
T Consensus       154 i~~~l~~~~~~~~~~~iv~iSa~~g~~~~~-------~~~w~~~~~~ll~~l~~~~~  203 (396)
T PRK00049        154 VRELLSKYDFPGDDTPIIRGSALKALEGDD-------DEEWEKKILELMDAVDSYIP  203 (396)
T ss_pred             HHHHHHhcCCCccCCcEEEeecccccCCCC-------cccccccHHHHHHHHHhcCC
Confidence            11222210    135789999988621100       00111267899999988654

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=98.88  E-value=6.7e-08  Score=80.07  Aligned_cols=102  Identities=16%  Similarity=0.083  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCC-CCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc-
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPM-GTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI-   89 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~-~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~-   89 (161)
                      .|...+ ...+..+|.+++|+|++++. ..+..+....+.....+|+++|+||+|+.+..    ...+........+.. 
T Consensus        92 ~f~~~~-~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~gi~~iIVvvNK~Dl~~~~----~~~~~~~~i~~~l~~~  166 (406)
T TIGR03680        92 TLMATM-LSGAALMDGALLVIAANEPCPQPQTKEHLMALEIIGIKNIVIVQNKIDLVSKE----KALENYEEIKEFVKGT  166 (406)
T ss_pred             HHHHHH-HHHHHHCCEEEEEEECCCCccccchHHHHHHHHHcCCCeEEEEEEccccCCHH----HHHHHHHHHHhhhhhc
Confidence            355555 67778999999999999875 34443333333321246789999999998641    000111111122211 


Q ss_pred             -CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 -QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 -~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                       ....+++++||.++                 .|+++|++.|.+.++
T Consensus       167 ~~~~~~ii~vSA~~g-----------------~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       167 VAENAPIIPVSALHN-----------------ANIDALLEAIEKFIP  196 (406)
T ss_pred             ccCCCeEEEEECCCC-----------------CChHHHHHHHHHhCC
Confidence             02467899999999                 899999999998765

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>cd04151 Arl1 Arl1 subfamily

Probab=98.88  E-value=1.1e-08  Score=73.28  Aligned_cols=97  Identities=20%  Similarity=0.139  Sum_probs=60.5

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh-hc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY-NS   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~-~~   88 (161)
                      ++.+|...++.+|++|+|+|++++...  ....+...+...  .++|+++|+||+|+....    .. ..+...... ..
T Consensus        56 ~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~----~~-~~i~~~~~~~~~  130 (158)
T cd04151          56 IRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL----SE-AEISEKLGLSEL  130 (158)
T ss_pred             HHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC----CH-HHHHHHhCcccc
Confidence            456667778999999999999875321  122333333321  368999999999986531    00 111111110 00


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      ...+.+++++||+++                 .|+++|.+.|.+
T Consensus       131 ~~~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~  157 (158)
T cd04151         131 KDRTWSIFKTSAIKG-----------------EGLDEGMDWLVN  157 (158)
T ss_pred             CCCcEEEEEeeccCC-----------------CCHHHHHHHHhc
Confidence            011346899999999                 999999988753

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.87  E-value=1.6e-08  Score=83.37  Aligned_cols=93  Identities=14%  Similarity=0.018  Sum_probs=60.5

Q ss_pred             HHHhhhccEEEEEEeCCCC----CCCCcHHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          19 RSVVEAADVILEVVDARDP----MGTRCKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~----~~~~~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .++++++|++++|+|++..    .......+.+.+...    .++|.++|+||+|+.+.        +.+......+.+.
T Consensus       232 l~~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~--------~el~~~l~~l~~~  303 (390)
T PRK12298        232 LKHLERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDE--------EEAEERAKAIVEA  303 (390)
T ss_pred             HHHHHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCCh--------HHHHHHHHHHHHH
Confidence            4678999999999998722    111123333333321    25899999999999765        2222222222111


Q ss_pred             --CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 --SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 --~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                        ...+++++||+++                 .|+++|.+.|.++++.
T Consensus       304 ~~~~~~Vi~ISA~tg-----------------~GIdeLl~~I~~~L~~  334 (390)
T PRK12298        304 LGWEGPVYLISAASG-----------------LGVKELCWDLMTFIEE  334 (390)
T ss_pred             hCCCCCEEEEECCCC-----------------cCHHHHHHHHHHHhhh
Confidence              1136899999998                 8999999999888764

>cd04124 RabL2 RabL2 subfamily

Probab=98.87  E-value=1.6e-08  Score=72.98  Aligned_cols=96  Identities=13%  Similarity=0.014  Sum_probs=64.0

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .+..++...+..+|++|+|+|++++.+..+ ..+...+.+. .+.|+++|.||+|+.+.        . ......... .
T Consensus        61 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p~ivv~nK~Dl~~~--------~-~~~~~~~~~-~  130 (161)
T cd04124          61 RFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPEIPCIVVANKIDLDPS--------V-TQKKFNFAE-K  130 (161)
T ss_pred             hhhhhhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEECccCchh--------H-HHHHHHHHH-H
Confidence            345565678899999999999987644222 2333334331 36899999999998543        1 111111111 1


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+++.+||+++                 .|++++.+.+.+.+.
T Consensus       131 ~~~~~~~~Sa~~~-----------------~gv~~l~~~l~~~~~  158 (161)
T cd04124         131 HNLPLYYVSAADG-----------------TNVVKLFQDAIKLAV  158 (161)
T ss_pred             cCCeEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            2467899999999                 999999999887654

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

>cd00880 Era_like Era (E

Probab=98.87  E-value=3.4e-08  Score=69.19  Aligned_cols=91  Identities=23%  Similarity=0.155  Sum_probs=63.6

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh----hhhccCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI----PYNSIQSI   92 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~   92 (161)
                      .+...+..+|++++|+|+..+.......+...... .+.|+++|+||+|+...        .....+.    ........
T Consensus        68 ~~~~~~~~~d~il~v~~~~~~~~~~~~~~~~~~~~-~~~~~ivv~nK~D~~~~--------~~~~~~~~~~~~~~~~~~~  138 (163)
T cd00880          68 LARRVLERADLILFVVDADLRADEEEEKLLELLRE-RGKPVLLVLNKIDLLPE--------EEEEELLELRLLILLLLLG  138 (163)
T ss_pred             HHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHh-cCCeEEEEEEccccCCh--------hhHHHHHHHHHhhcccccC
Confidence            33677889999999999998766544442333333 57999999999999876        2222221    11111135


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .+++++||.++                 .|+.+|++.|.+.
T Consensus       139 ~~~~~~sa~~~-----------------~~v~~l~~~l~~~  162 (163)
T cd00880         139 LPVIAVSALTG-----------------EGIDELREALIEA  162 (163)
T ss_pred             CceEEEeeecc-----------------CCHHHHHHHHHhh
Confidence            67899999998                 8999999988654

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=98.87  E-value=1.3e-08  Score=72.80  Aligned_cols=97  Identities=15%  Similarity=0.167  Sum_probs=60.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHh--hhh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI--PYN   87 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~--~~~   87 (161)
                      +..+|...+..+|++++|+|++++..  .....+.+.+...  .+.|+++|+||+|+....    .. +.+....  ..+
T Consensus        57 ~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~-~~i~~~~~~~~~  131 (160)
T cd04156          57 MRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGAL----TA-EEITRRFKLKKY  131 (160)
T ss_pred             HHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCc----CH-HHHHHHcCCccc
Confidence            45566667899999999999987642  1122333333321  368999999999986430    00 1122111  111


Q ss_pred             ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          88 SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      ......+++++||+++                 .|++++++.|.+
T Consensus       132 ~~~~~~~~~~~Sa~~~-----------------~gv~~~~~~i~~  159 (160)
T cd04156         132 CSDRDWYVQPCSAVTG-----------------EGLAEAFRKLAS  159 (160)
T ss_pred             CCCCcEEEEecccccC-----------------CChHHHHHHHhc
Confidence            1111335788999999                 999999988754

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

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=98.86  E-value=2.6e-08  Score=70.48  Aligned_cols=82  Identities=21%  Similarity=0.188  Sum_probs=61.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      ...+..+|++++|+|++.+....+..+...  . .++|+++|+||+|+.+.        ...    ....  ...+++.+
T Consensus        75 ~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~--~-~~~~vi~v~nK~D~~~~--------~~~----~~~~--~~~~~~~~  137 (157)
T cd04164          75 REAIEEADLVLFVIDASRGLDEEDLEILEL--P-ADKPIIVVLNKSDLLPD--------SEL----LSLL--AGKPIIAI  137 (157)
T ss_pred             HHHHhhCCEEEEEEECCCCCCHHHHHHHHh--h-cCCCEEEEEEchhcCCc--------ccc----cccc--CCCceEEE
Confidence            467789999999999998766555444332  2 57999999999999876        211    1111  35678999


Q ss_pred             eecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          99 SSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        99 Sa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ||.++                 .|+++|.+.|.+.+
T Consensus       138 Sa~~~-----------------~~v~~l~~~l~~~~  156 (157)
T cd04164         138 SAKTG-----------------EGLDELKEALLELA  156 (157)
T ss_pred             ECCCC-----------------CCHHHHHHHHHHhh
Confidence            99998                 89999999987754

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.85  E-value=2.7e-08  Score=84.03  Aligned_cols=93  Identities=16%  Similarity=0.156  Sum_probs=60.4

Q ss_pred             HHHhhhccEEEEEEeCCCCC------CCCc---HHHHHHHh---------CCCCCcEEEEeecCCCCCcccccccHHHHH
Q psy8220          19 RSVVEAADVILEVVDARDPM------GTRC---KVAEDLVV---------GTPGKKLVIVINKAGKPSTKIQSGSMAQIF   80 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~------~~~~---~~i~~~l~---------~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~   80 (161)
                      ++.++++|++|+|+|++...      ...+   .++..+..         ...++|+|+|+||+|+.+..       +..
T Consensus       231 LrhieradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~-------el~  303 (500)
T PRK12296        231 LRHIERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDAR-------ELA  303 (500)
T ss_pred             HHHHHhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhH-------HHH
Confidence            56778999999999997532      1111   12222221         11368999999999997541       111


Q ss_pred             HHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          81 QTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        81 ~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +.....+.. .+.+++++||+++                 .|+++|.+.|.+.+..
T Consensus       304 e~l~~~l~~-~g~~Vf~ISA~tg-----------------eGLdEL~~~L~ell~~  341 (500)
T PRK12296        304 EFVRPELEA-RGWPVFEVSAASR-----------------EGLRELSFALAELVEE  341 (500)
T ss_pred             HHHHHHHHH-cCCeEEEEECCCC-----------------CCHHHHHHHHHHHHHh
Confidence            112223321 3568999999999                 9999999999877643

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=98.85  E-value=1.8e-08  Score=72.60  Aligned_cols=84  Identities=12%  Similarity=0.054  Sum_probs=55.3

Q ss_pred             hccEEEEEEeCCCCCCCC-c--HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEe
Q psy8220          24 AADVILEVVDARDPMGTR-C--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFS   99 (161)
Q Consensus        24 ~aDviL~VvD~~~~~~~~-~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iS   99 (161)
                      .+|++|+|+|+++..... +  ..+.+.+... .+.|+++|+||+|+...        ..... ...+......+++.+|
T Consensus        79 ~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~~~pvilv~NK~Dl~~~--------~~~~~-~~~~~~~~~~~~~~~S  149 (168)
T cd01897          79 LRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFKNKPVIVVLNKIDLLTF--------EDLSE-IEEEEELEGEEVLKIS  149 (168)
T ss_pred             ccCcEEEEEeCCcccccchHHHHHHHHHHHhhcCcCCeEEEEEccccCch--------hhHHH-HHHhhhhccCceEEEE
Confidence            369999999998764311 1  2333444431 27899999999999765        21221 1111111246789999


Q ss_pred             ecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220         100 SRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus       100 a~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      |+++                 .|+++|.+.|.+.
T Consensus       150 a~~~-----------------~gi~~l~~~l~~~  166 (168)
T cd01897         150 TLTE-----------------EGVDEVKNKACEL  166 (168)
T ss_pred             eccc-----------------CCHHHHHHHHHHH
Confidence            9999                 9999999988654

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.

>PLN03127 Elongation factor Tu; Provisional

Probab=98.83  E-value=6.6e-08  Score=81.03  Aligned_cols=116  Identities=17%  Similarity=0.052  Sum_probs=71.8

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcE-EEEeecCCCCCcccccccHHHHHH-H
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKL-VIVINKAGKPSTKIQSGSMAQIFQ-T   82 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~-ilVlNK~Dl~~~~~~~~~~~~~~~-~   82 (161)
                      .|.|.  .|+..+ ...+..+|++++|+|++.+...++.+...++.. .+.|. |+++||+|+++.+    +..+.+. .
T Consensus       131 tPGh~--~f~~~~-~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~-~gip~iIvviNKiDlv~~~----~~~~~i~~~  202 (447)
T PLN03127        131 CPGHA--DYVKNM-ITGAAQMDGGILVVSAPDGPMPQTKEHILLARQ-VGVPSLVVFLNKVDVVDDE----ELLELVEME  202 (447)
T ss_pred             CCCcc--chHHHH-HHHHhhCCEEEEEEECCCCCchhHHHHHHHHHH-cCCCeEEEEEEeeccCCHH----HHHHHHHHH
Confidence            46664  478888 567788999999999998887777777777765 67884 7889999998641    1111121 1


Q ss_pred             Hhhhhcc----CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          83 WIPYNSI----QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        83 ~~~~~~~----~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ..+.+..    ....|++++||.+.....+..       ....++..|++.|.++++
T Consensus       203 i~~~l~~~~~~~~~vpiip~Sa~sa~~g~n~~-------~~~~~i~~Ll~~l~~~lp  252 (447)
T PLN03127        203 LRELLSFYKFPGDEIPIIRGSALSALQGTNDE-------IGKNAILKLMDAVDEYIP  252 (447)
T ss_pred             HHHHHHHhCCCCCcceEEEeccceeecCCCcc-------cccchHHHHHHHHHHhCC
Confidence            1112210    013567888876431110000       011347889999988764

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=98.83  E-value=8.9e-08  Score=79.46  Aligned_cols=103  Identities=16%  Similarity=0.063  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCC-CCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc-
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPM-GTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI-   89 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~-~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~-   89 (161)
                      .|...+ ...+..+|.+++|+|++.+. ..+.......+.....+|+++|+||+|+.+..    ...+........+.. 
T Consensus        97 ~f~~~~-~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~~i~~iiVVlNK~Dl~~~~----~~~~~~~~i~~~l~~~  171 (411)
T PRK04000         97 TLMATM-LSGAALMDGAILVIAANEPCPQPQTKEHLMALDIIGIKNIVIVQNKIDLVSKE----RALENYEQIKEFVKGT  171 (411)
T ss_pred             HHHHHH-HHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEEeeccccch----hHHHHHHHHHHHhccc
Confidence            355565 67778899999999999875 34444444444331235789999999998651    000111112222221 


Q ss_pred             -CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          90 -QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        90 -~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                       ....+++++||+++                 .|+++|++.|.+.++.
T Consensus       172 ~~~~~~ii~vSA~~g-----------------~gI~~L~~~L~~~l~~  202 (411)
T PRK04000        172 VAENAPIIPVSALHK-----------------VNIDALIEAIEEEIPT  202 (411)
T ss_pred             cCCCCeEEEEECCCC-----------------cCHHHHHHHHHHhCCC
Confidence             12467899999999                 9999999999987653

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=98.83  E-value=1.5e-08  Score=72.92  Aligned_cols=97  Identities=15%  Similarity=0.118  Sum_probs=60.7

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc-
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS-   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~-   88 (161)
                      +..++...+..+|++++|+|++++..-.  ...+...+...  .+.|+++|+||+|+.+..    .. +.+..+..... 
T Consensus        63 ~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~~----~~-~~~~~~~~~~~~  137 (167)
T cd04160          63 LRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDAL----SV-EEIKEVFQDKAE  137 (167)
T ss_pred             hHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccCC----CH-HHHHHHhccccc
Confidence            4555567789999999999998653211  11222222211  368999999999986541    11 12233332211 


Q ss_pred             --cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          89 --IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        89 --~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                        .....+++++||+++                 .|+++++++|.+
T Consensus       138 ~~~~~~~~~~~~Sa~~g-----------------~gv~e~~~~l~~  166 (167)
T cd04160         138 EIGRRDCLVLPVSALEG-----------------TGVREGIEWLVE  166 (167)
T ss_pred             cccCCceEEEEeeCCCC-----------------cCHHHHHHHHhc
Confidence              012346899999999                 999999988753

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.

>PRK11058 GTPase HflX; Provisional

Probab=98.83  E-value=2.7e-08  Score=82.82  Aligned_cols=88  Identities=17%  Similarity=0.129  Sum_probs=59.5

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcH-HHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc-
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCK-VAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS-   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~-~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-   94 (161)
                      .+.+..||++|+|+|++++....+. .+.+.+...  .++|+++|+||+|+.+..    .  ....    ...  .+.+ 
T Consensus       271 l~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~----~--~~~~----~~~--~~~~~  338 (426)
T PRK11058        271 LQETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDF----E--PRID----RDE--ENKPI  338 (426)
T ss_pred             HHHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCch----h--HHHH----HHh--cCCCc
Confidence            5778899999999999987543222 122223221  368999999999997541    0  1111    111  2334 


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+||+++                 .|+++|.+.|.+.+.
T Consensus       339 ~v~ISAktG-----------------~GIdeL~e~I~~~l~  362 (426)
T PRK11058        339 RVWLSAQTG-----------------AGIPLLFQALTERLS  362 (426)
T ss_pred             eEEEeCCCC-----------------CCHHHHHHHHHHHhh
Confidence            488999999                 999999999988764

>PRK05433 GTP-binding protein LepA; Provisional

Probab=98.82  E-value=1.2e-07  Score=82.04  Aligned_cols=99  Identities=16%  Similarity=0.143  Sum_probs=67.0

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      |..+. ..++..+|.+|+|+|++++...+.......+.. .+.|+++|+||+|+....     .......+.+.+. ...
T Consensus        87 F~~~v-~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~-~~lpiIvViNKiDl~~a~-----~~~v~~ei~~~lg-~~~  158 (600)
T PRK05433         87 FSYEV-SRSLAACEGALLVVDASQGVEAQTLANVYLALE-NDLEIIPVLNKIDLPAAD-----PERVKQEIEDVIG-IDA  158 (600)
T ss_pred             HHHHH-HHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH-CCCCEEEEEECCCCCccc-----HHHHHHHHHHHhC-CCc
Confidence            44444 788999999999999998866544433333333 478999999999986531     1111122222222 011


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ..++++||+++                 .|+++|++.|.+.++.
T Consensus       159 ~~vi~iSAktG-----------------~GI~~Ll~~I~~~lp~  185 (600)
T PRK05433        159 SDAVLVSAKTG-----------------IGIEEVLEAIVERIPP  185 (600)
T ss_pred             ceEEEEecCCC-----------------CCHHHHHHHHHHhCcc
Confidence            24789999999                 9999999999888764

>cd04149 Arf6 Arf6 subfamily

Probab=98.82  E-value=2.1e-08  Score=73.05  Aligned_cols=96  Identities=14%  Similarity=0.085  Sum_probs=60.3

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc-
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS-   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~-   88 (161)
                      +..+|...+..||++++|+|++++..  .....+.+.+...  .+.|+++|.||+|+....    .. +.+..+...-. 
T Consensus        66 ~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~i~~~~~~~~~  140 (168)
T cd04149          66 IRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDAM----KP-HEIQEKLGLTRI  140 (168)
T ss_pred             HHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccCC----CH-HHHHHHcCCCcc
Confidence            45666677899999999999987632  1112233333221  358999999999986420    00 22333322111 


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHH
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLG  131 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~  131 (161)
                      .....+++++||+++                 .|++++++.|.
T Consensus       141 ~~~~~~~~~~SAk~g-----------------~gv~~~~~~l~  166 (168)
T cd04149         141 RDRNWYVQPSCATSG-----------------DGLYEGLTWLS  166 (168)
T ss_pred             CCCcEEEEEeeCCCC-----------------CChHHHHHHHh
Confidence            001235688999999                 89999988874

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

>PRK12735 elongation factor Tu; Reviewed

Probab=98.82  E-value=7.1e-08  Score=79.67  Aligned_cols=120  Identities=13%  Similarity=0.001  Sum_probs=72.5

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEE-EEeecCCCCCcccccccHHHHHHHH
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLV-IVINKAGKPSTKIQSGSMAQIFQTW   83 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~i-lVlNK~Dl~~~~~~~~~~~~~~~~~   83 (161)
                      .|.|.  +|+..+ ...+..+|++++|+|+..++..+..+....+.. .+.|.+ +|+||+|+.+.+.....+...+..+
T Consensus        82 tPGh~--~f~~~~-~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~-~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~  157 (396)
T PRK12735         82 CPGHA--DYVKNM-ITGAAQMDGAILVVSAADGPMPQTREHILLARQ-VGVPYIVVFLNKCDMVDDEELLELVEMEVREL  157 (396)
T ss_pred             CCCHH--HHHHHH-HhhhccCCEEEEEEECCCCCchhHHHHHHHHHH-cCCCeEEEEEEecCCcchHHHHHHHHHHHHHH
Confidence            46663  577777 688899999999999998766665555555554 578866 5799999975410000011112222


Q ss_pred             hhhhccC-CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          84 IPYNSIQ-SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        84 ~~~~~~~-~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ...+... ...|++++||.++....       ..+.-..|+..|++.|.+.++
T Consensus       158 l~~~~~~~~~~~ii~~Sa~~g~n~~-------~~~~w~~~~~~Ll~~l~~~~~  203 (396)
T PRK12735        158 LSKYDFPGDDTPIIRGSALKALEGD-------DDEEWEAKILELMDAVDSYIP  203 (396)
T ss_pred             HHHcCCCcCceeEEecchhccccCC-------CCCcccccHHHHHHHHHhcCC
Confidence            2222100 13678999998873211       001111378899999988764

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=98.82  E-value=5.9e-08  Score=83.74  Aligned_cols=109  Identities=17%  Similarity=0.083  Sum_probs=69.6

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      |.|.  .|...+ ...+..+|++++|+|+++++..+..+....+.. .+.| +++|+||+|+.+.. +.....+.+..+.
T Consensus        58 PGhe--~f~~~~-~~g~~~aD~aILVVDa~~G~~~qT~ehl~il~~-lgi~~iIVVlNK~Dlv~~~-~~~~~~~ei~~~l  132 (581)
T TIGR00475        58 PGHE--KFISNA-IAGGGGIDAALLVVDADEGVMTQTGEHLAVLDL-LGIPHTIVVITKADRVNEE-EIKRTEMFMKQIL  132 (581)
T ss_pred             CCHH--HHHHHH-HhhhccCCEEEEEEECCCCCcHHHHHHHHHHHH-cCCCeEEEEEECCCCCCHH-HHHHHHHHHHHHH
Confidence            5543  345555 677889999999999998765444444444443 4677 99999999998651 0000001112222


Q ss_pred             hhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          85 PYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        85 ~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ..+......|++++||.++                 .|+++|.+.|.+.+..
T Consensus       133 ~~~~~~~~~~ii~vSA~tG-----------------~GI~eL~~~L~~l~~~  167 (581)
T TIGR00475       133 NSYIFLKNAKIFKTSAKTG-----------------QGIGELKKELKNLLES  167 (581)
T ss_pred             HHhCCCCCCcEEEEeCCCC-----------------CCchhHHHHHHHHHHh
Confidence            1111001467999999999                 8999999998877643

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.

>cd01878 HflX HflX subfamily

Probab=98.82  E-value=7.1e-08  Score=72.12  Aligned_cols=86  Identities=20%  Similarity=0.224  Sum_probs=59.3

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      ...+..+|++++|+|++++....+ ..+.+.+...  .++|+++|+||+|+.+.        ....   .... ....++
T Consensus       115 ~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~--------~~~~---~~~~-~~~~~~  182 (204)
T cd01878         115 LEEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDD--------EELE---ERLE-AGRPDA  182 (204)
T ss_pred             HHHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCCh--------HHHH---HHhh-cCCCce
Confidence            355778999999999998754433 2233334321  36899999999999775        2222   1112 134578


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +.+||+++                 .|++++.+.|.+.
T Consensus       183 ~~~Sa~~~-----------------~gi~~l~~~L~~~  203 (204)
T cd01878         183 VFISAKTG-----------------EGLDELLEAIEEL  203 (204)
T ss_pred             EEEEcCCC-----------------CCHHHHHHHHHhh
Confidence            99999999                 8999999888653

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=98.81  E-value=1.3e-07  Score=81.85  Aligned_cols=116  Identities=17%  Similarity=0.107  Sum_probs=74.9

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      .|.|.  .|..+. ...+..+|.+++|+|+..+...+...+...+.. .+.|+|+|+||+|+....     ..+......
T Consensus        71 TPGh~--DF~~ev-~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~-~~ip~IVviNKiD~~~a~-----~~~v~~ei~  141 (594)
T TIGR01394        71 TPGHA--DFGGEV-ERVLGMVDGVLLLVDASEGPMPQTRFVLKKALE-LGLKPIVVINKIDRPSAR-----PDEVVDEVF  141 (594)
T ss_pred             CCCHH--HHHHHH-HHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHH-CCCCEEEEEECCCCCCcC-----HHHHHHHHH
Confidence            35553  355555 788999999999999988766566666665555 688999999999986531     111122222


Q ss_pred             hhhc------cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          85 PYNS------IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        85 ~~~~------~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ..+.      +...+|+++.||+++....       .......|++.|++.|.++++.
T Consensus       142 ~l~~~~g~~~e~l~~pvl~~SA~~g~~~~-------~~~~~~~gi~~Lld~Iv~~lP~  192 (594)
T TIGR01394       142 DLFAELGADDEQLDFPIVYASGRAGWASL-------DLDDPSDNMAPLFDAIVRHVPA  192 (594)
T ss_pred             HHHHhhccccccccCcEEechhhcCcccc-------cCcccccCHHHHHHHHHHhCCC
Confidence            2221      1124688999999882110       0111235899999999988864

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.

>cd04154 Arl2 Arl2 subfamily

Probab=98.81  E-value=2.1e-08  Score=73.08  Aligned_cols=96  Identities=19%  Similarity=0.193  Sum_probs=60.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc-
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS-   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~-   88 (161)
                      ++.+|...+..+|++++|+|++++..-  ....+...+...  .+.|+++|.||+|+....    .. +.+..+..... 
T Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~----~~-~~~~~~~~~~~~  145 (173)
T cd04154          71 LRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGAL----SE-EEIREALELDKI  145 (173)
T ss_pred             HHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCC----CH-HHHHHHhCcccc
Confidence            445566778999999999999876321  112233332221  468999999999996541    00 22233322210 


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHH
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLG  131 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~  131 (161)
                      .....+++.+||+++                 .|++++.++|.
T Consensus       146 ~~~~~~~~~~Sa~~g-----------------~gi~~l~~~l~  171 (173)
T cd04154         146 SSHHWRIQPCSAVTG-----------------EGLLQGIDWLV  171 (173)
T ss_pred             CCCceEEEeccCCCC-----------------cCHHHHHHHHh
Confidence            012457899999999                 89999988874

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.

>cd04157 Arl6 Arl6 subfamily

Probab=98.79  E-value=3.3e-08  Score=70.62  Aligned_cols=97  Identities=11%  Similarity=0.044  Sum_probs=59.1

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN   87 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~   87 (161)
                      ++.+|...+..+|.+++|+|++++..-.  ...+...+...    .+.|+++|+||+|+.+..    .. ..+.......
T Consensus        58 ~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~----~~-~~~~~~l~~~  132 (162)
T cd04157          58 YRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDAL----TA-VKITQLLGLE  132 (162)
T ss_pred             hHHHHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCC----CH-HHHHHHhCCc
Confidence            4556667789999999999998764211  11222222210    368999999999997541    00 1111111110


Q ss_pred             c-cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          88 S-IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        88 ~-~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      . .....+++.+||+++                 .|++++.+.|.+
T Consensus       133 ~~~~~~~~~~~~Sa~~g-----------------~gv~~~~~~l~~  161 (162)
T cd04157         133 NIKDKPWHIFASNALTG-----------------EGLDEGVQWLQA  161 (162)
T ss_pred             cccCceEEEEEeeCCCC-----------------CchHHHHHHHhc
Confidence            0 001234678999999                 999999998753

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

>PRK13768 GTPase; Provisional

Probab=98.79  E-value=5.2e-08  Score=75.90  Aligned_cols=91  Identities=16%  Similarity=0.096  Sum_probs=60.3

Q ss_pred             ccEEEEEEeCCCCCCCCcHHHHHHHh-----CCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh--------------
Q psy8220          25 ADVILEVVDARDPMGTRCKVAEDLVV-----GTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP--------------   85 (161)
Q Consensus        25 aDviL~VvD~~~~~~~~~~~i~~~l~-----~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~--------------   85 (161)
                      ++++++|+|++.+....+.....++.     . .++|+++|+||+|+.+.. +.    +....+..              
T Consensus       129 ~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~-~~~~~i~v~nK~D~~~~~-~~----~~~~~~l~~~~~~~~~l~~~~~  202 (253)
T PRK13768        129 KSVVVFLIDAVLAKTPSDFVSLLLLALSVQLR-LGLPQIPVLNKADLLSEE-EL----ERILKWLEDPEYLLEELKLEKG  202 (253)
T ss_pred             CeEEEEEechHHhCCHHHHHHHHHHHHHHHHH-cCCCEEEEEEhHhhcCch-hH----HHHHHHHhCHHHHHHHHhcccc
Confidence            89999999998765544443333332     2 579999999999998752 00    11111111              


Q ss_pred             -----------hhccC-CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC
Q psy8220          86 -----------YNSIQ-SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD  138 (161)
Q Consensus        86 -----------~~~~~-~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~  138 (161)
                                 .+... ...+++++|+.++                 .|+++|.+.|.++++..+
T Consensus       203 ~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~-----------------~gl~~L~~~I~~~l~~~~  250 (253)
T PRK13768        203 LQGLLSLELLRALEETGLPVRVIPVSAKTG-----------------EGFDELYAAIQEVFCGGE  250 (253)
T ss_pred             hHHHHHHHHHHHHHHHCCCCcEEEEECCCC-----------------cCHHHHHHHHHHHcCCCC
Confidence                       01111 1246899999998                 999999999999887543

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=98.79  E-value=5.8e-08  Score=70.01  Aligned_cols=96  Identities=15%  Similarity=0.091  Sum_probs=58.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHh-hhhc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI-PYNS   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~-~~~~   88 (161)
                      .+.+|...++.||++++|+|++++.+  .....+.+.+...  .+.|+++|.||+|+.+..    ...+....+. ..+.
T Consensus        57 ~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~----~~~~i~~~~~~~~~~  132 (159)
T cd04150          57 IRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAM----SAAEVTDKLGLHSLR  132 (159)
T ss_pred             HHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCC----CHHHHHHHhCccccC
Confidence            55666777899999999999987532  1112233333221  258999999999996431    0011112221 1111


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHH
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLG  131 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~  131 (161)
                       .....++.+||+++                 .|++++.++|.
T Consensus       133 -~~~~~~~~~Sak~g-----------------~gv~~~~~~l~  157 (159)
T cd04150         133 -NRNWYIQATCATSG-----------------DGLYEGLDWLS  157 (159)
T ss_pred             -CCCEEEEEeeCCCC-----------------CCHHHHHHHHh
Confidence             01233567899999                 99999998874

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

>cd04112 Rab26 Rab26 subfamily

Probab=98.79  E-value=2.4e-08  Score=74.13  Aligned_cols=101  Identities=9%  Similarity=0.024  Sum_probs=64.5

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+..++...+..+|++++|+|++.+.+-. -..+...+.+.  .+.|+++|.||+|+....  ... .+....+...   
T Consensus        62 ~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~--~~~-~~~~~~l~~~---  135 (191)
T cd04112          62 RFRSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGER--VVK-REDGERLAKE---  135 (191)
T ss_pred             HHHHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhcc--ccC-HHHHHHHHHH---
Confidence            34555566788999999999998753211 12222333321  368999999999996431  000 0111222111   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                       .+.+.+.+||+++                 .|+++|.+.|.+.+...
T Consensus       136 -~~~~~~e~Sa~~~-----------------~~v~~l~~~l~~~~~~~  165 (191)
T cd04112         136 -YGVPFMETSAKTG-----------------LNVELAFTAVAKELKHR  165 (191)
T ss_pred             -cCCeEEEEeCCCC-----------------CCHHHHHHHHHHHHHHh
Confidence             3467899999999                 99999999998877543

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.

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=98.78  E-value=3.9e-08  Score=72.04  Aligned_cols=99  Identities=13%  Similarity=0.078  Sum_probs=60.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc-
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS-   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~-   88 (161)
                      .+.+|...++.||++|+|+|++++.+  .....+...+...  .+.|+++|.||+|+....    .. +.+........ 
T Consensus        70 ~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~i~~~~~~~~~  144 (175)
T smart00177       70 IRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAM----KA-AEITEKLGLHSI  144 (175)
T ss_pred             hHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCC----CH-HHHHHHhCcccc
Confidence            45566667899999999999987632  1122333333221  257999999999986431    00 11221111110 


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ......++++||+++                 .|++++.++|.+.+
T Consensus       145 ~~~~~~~~~~Sa~~g-----------------~gv~e~~~~l~~~~  173 (175)
T smart00177      145 RDRNWYIQPTCATSG-----------------DGLYEGLTWLSNNL  173 (175)
T ss_pred             CCCcEEEEEeeCCCC-----------------CCHHHHHHHHHHHh
Confidence            001223557899999                 99999999987654

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).

>cd01865 Rab3 Rab3 subfamily

Probab=98.78  E-value=3.7e-08  Score=71.17  Aligned_cols=98  Identities=9%  Similarity=-0.005  Sum_probs=63.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...++.+|.+++|+|.+++.+-. -..+.+.+...  .+.|+++|.||+|+.+..  .... +....+...    
T Consensus        63 ~~~~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~--~~~~-~~~~~~~~~----  135 (165)
T cd01865          63 YRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDER--VVSS-ERGRQLADQ----  135 (165)
T ss_pred             HHHHHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCccc--ccCH-HHHHHHHHH----
Confidence            4556677889999999999997653211 12223333321  357899999999997541  0000 111222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+.+.+||+++                 .|+++|.+.|.+.+.
T Consensus       136 ~~~~~~~~Sa~~~-----------------~gv~~l~~~l~~~~~  163 (165)
T cd01865         136 LGFEFFEASAKEN-----------------INVKQVFERLVDIIC  163 (165)
T ss_pred             cCCEEEEEECCCC-----------------CCHHHHHHHHHHHHH
Confidence            2467899999999                 999999999877654

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=98.77  E-value=3.9e-08  Score=72.57  Aligned_cols=100  Identities=15%  Similarity=0.095  Sum_probs=61.3

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhh--
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY--   86 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~--   86 (161)
                      .++.+|...+..||++++|+|++++..-.  ...+.+....  ..++|+++|+||+|+....    .. +.+..+...  
T Consensus        64 ~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~~----~~-~~~~~~~~~~~  138 (183)
T cd04152          64 KLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNAL----SV-SEVEKLLALHE  138 (183)
T ss_pred             hHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccccC----CH-HHHHHHhCccc
Confidence            35666666788999999999998753211  1111222111  0468999999999986420    00 112222221  


Q ss_pred             hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          87 NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +......+++++||+++                 .|+++|.+.|.+.+
T Consensus       139 ~~~~~~~~~~~~SA~~~-----------------~gi~~l~~~l~~~l  169 (183)
T cd04152         139 LSASTPWHVQPACAIIG-----------------EGLQEGLEKLYEMI  169 (183)
T ss_pred             cCCCCceEEEEeecccC-----------------CCHHHHHHHHHHHH
Confidence            11001235788999999                 99999999988665

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=98.77  E-value=4.3e-08  Score=70.33  Aligned_cols=96  Identities=17%  Similarity=0.056  Sum_probs=60.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      ...++...++++|++++|+|.+++.+-. ...+.+.+... .+.|+++|.||+|+.+..  .... .....+...    .
T Consensus        65 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~  137 (164)
T cd04101          65 YSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTASKHMPGVLVGNKMDLADKA--EVTD-AQAQAFAQA----N  137 (164)
T ss_pred             HHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccccccc--CCCH-HHHHHHHHH----c
Confidence            3444567889999999999998653211 12222323221 358999999999996541  0000 111111111    2


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +.+.+.+||+++                 .|++++++.|.+.
T Consensus       138 ~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~  162 (164)
T cd04101         138 QLKFFKTSALRG-----------------VGYEEPFESLARA  162 (164)
T ss_pred             CCeEEEEeCCCC-----------------CChHHHHHHHHHH
Confidence            467889999999                 9999999988764

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=98.77  E-value=3.8e-08  Score=71.94  Aligned_cols=96  Identities=8%  Similarity=0.039  Sum_probs=59.7

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh--hh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP--YN   87 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~--~~   87 (161)
                      ....|...++.+|++++|+|++++...  ....+.+.+...  .+.|+++++||+|+....    .. +.+.....  ..
T Consensus        72 ~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~----~~-~~i~~~l~~~~~  146 (174)
T cd04153          72 LRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAM----TP-AEISESLGLTSI  146 (174)
T ss_pred             HHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCCC----CH-HHHHHHhCcccc
Confidence            445556778999999999999876321  112233333321  358999999999986431    00 11111111  11


Q ss_pred             ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          88 SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      . ....+++++||+++                 .|++++.+.|.+
T Consensus       147 ~-~~~~~~~~~SA~~g-----------------~gi~e~~~~l~~  173 (174)
T cd04153         147 R-DHTWHIQGCCALTG-----------------EGLPEGLDWIAS  173 (174)
T ss_pred             c-CCceEEEecccCCC-----------------CCHHHHHHHHhc
Confidence            1 12346789999999                 899999988753

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.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=98.76  E-value=1.4e-07  Score=77.91  Aligned_cols=118  Identities=14%  Similarity=0.009  Sum_probs=69.8

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEE-EEeecCCCCCcccccccHHHHHHHH
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLV-IVINKAGKPSTKIQSGSMAQIFQTW   83 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~i-lVlNK~Dl~~~~~~~~~~~~~~~~~   83 (161)
                      .|.|.  .|+..+ ...+..+|.+++|+|++.+...+..+...++.. .+.|.+ +|+||+|+.+.........+.+..+
T Consensus        82 tpGh~--~f~~~~-~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~-~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~  157 (394)
T TIGR00485        82 CPGHA--DYVKNM-ITGAAQMDGAILVVSATDGPMPQTREHILLARQ-VGVPYIVVFLNKCDMVDDEELLELVEMEVREL  157 (394)
T ss_pred             CCchH--HHHHHH-HHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHH-cCCCEEEEEEEecccCCHHHHHHHHHHHHHHH
Confidence            36663  467777 677889999999999998776666666666654 567765 6899999986410000011112222


Q ss_pred             hhhhcc-CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          84 IPYNSI-QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        84 ~~~~~~-~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ...+.. ....|++++||.++.....         .-..++..|++.|.++.+
T Consensus       158 l~~~~~~~~~~~ii~vSa~~g~~g~~---------~~~~~~~~ll~~l~~~~~  201 (394)
T TIGR00485       158 LSEYDFPGDDTPIIRGSALKALEGDA---------EWEAKILELMDAVDEYIP  201 (394)
T ss_pred             HHhcCCCccCccEEECccccccccCC---------chhHhHHHHHHHHHhcCC
Confidence            222210 0126789999988621110         001255678888776543

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.76  E-value=7.2e-08  Score=80.19  Aligned_cols=90  Identities=14%  Similarity=0.142  Sum_probs=60.2

Q ss_pred             HHHhhhccEEEEEEeCCCCCC----CCcHHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          19 RSVVEAADVILEVVDARDPMG----TRCKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~----~~~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .+.++++|++++|+|++....    .....+.+.+...    .++|.++|+||+|+....       +.+..+.+.+   
T Consensus       231 Lrhier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~~-------e~l~~l~~~l---  300 (424)
T PRK12297        231 LRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEAE-------ENLEEFKEKL---  300 (424)
T ss_pred             HHHHhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCCH-------HHHHHHHHHh---
Confidence            567789999999999975421    1112333333321    368999999999984331       2223333332   


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                       ..+++++||+++                 .|+++|.+.|.+.+..
T Consensus       301 -~~~i~~iSA~tg-----------------eGI~eL~~~L~~~l~~  328 (424)
T PRK12297        301 -GPKVFPISALTG-----------------QGLDELLYAVAELLEE  328 (424)
T ss_pred             -CCcEEEEeCCCC-----------------CCHHHHHHHHHHHHHh
Confidence             256899999999                 8999999999877643

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=98.76  E-value=7.1e-08  Score=80.88  Aligned_cols=83  Identities=22%  Similarity=0.251  Sum_probs=61.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      ++.+..||++++|+|++++....+..+...  . .++|+++|+||+|+.+.        ....    . .  ...+++.+
T Consensus       289 ~~~~~~aD~il~VvD~s~~~s~~~~~~l~~--~-~~~piiiV~NK~DL~~~--------~~~~----~-~--~~~~~i~i  350 (449)
T PRK05291        289 REAIEEADLVLLVLDASEPLTEEDDEILEE--L-KDKPVIVVLNKADLTGE--------IDLE----E-E--NGKPVIRI  350 (449)
T ss_pred             HHHHHhCCEEEEEecCCCCCChhHHHHHHh--c-CCCCcEEEEEhhhcccc--------chhh----h-c--cCCceEEE
Confidence            567899999999999988765443333222  2 47999999999999765        2111    1 1  24568999


Q ss_pred             eecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          99 SSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        99 Sa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ||+++                 .|+++|.+.|.+.+..
T Consensus       351 SAktg-----------------~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        351 SAKTG-----------------EGIDELREAIKELAFG  371 (449)
T ss_pred             EeeCC-----------------CCHHHHHHHHHHHHhh
Confidence            99999                 8999999999887653

>cd01861 Rab6 Rab6 subfamily

Probab=98.73  E-value=4.5e-08  Score=69.95  Aligned_cols=96  Identities=14%  Similarity=0.021  Sum_probs=60.5

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+..+|++++|+|+.++.+-.+ ..+...+...  .+.|+++|+||+|+....  .... +....    +...
T Consensus        62 ~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~--~~~~-~~~~~----~~~~  134 (161)
T cd01861          62 FRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKR--QVST-EEGEK----KAKE  134 (161)
T ss_pred             HHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccC--ccCH-HHHHH----HHHH
Confidence            45555677899999999999987632111 2222223221  248999999999995431  0000 11111    1111


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .+.+.+.+||+++                 .|+++|.+.|.+.
T Consensus       135 ~~~~~~~~Sa~~~-----------------~~v~~l~~~i~~~  160 (161)
T cd01861         135 LNAMFIETSAKAG-----------------HNVKELFRKIASA  160 (161)
T ss_pred             hCCEEEEEeCCCC-----------------CCHHHHHHHHHHh
Confidence            2467899999998                 9999999998664

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

>TIGR01393 lepA GTP-binding protein LepA

Probab=98.73  E-value=1.5e-07  Score=81.50  Aligned_cols=99  Identities=16%  Similarity=0.138  Sum_probs=66.8

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      |..+. ...+..||.+|+|+|++++...+.......... .+.|+++|+||+|+....     .......+.+.+. ...
T Consensus        83 F~~~v-~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~-~~ipiIiViNKiDl~~~~-----~~~~~~el~~~lg-~~~  154 (595)
T TIGR01393        83 FSYEV-SRSLAACEGALLLVDAAQGIEAQTLANVYLALE-NDLEIIPVINKIDLPSAD-----PERVKKEIEEVIG-LDA  154 (595)
T ss_pred             HHHHH-HHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH-cCCCEEEEEECcCCCccC-----HHHHHHHHHHHhC-CCc
Confidence            44444 788999999999999998765544333222333 478999999999986431     0111223333332 011


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+++++||+++                 .|+++|++.|.+.++.
T Consensus       155 ~~vi~vSAktG-----------------~GI~~Lle~I~~~lp~  181 (595)
T TIGR01393       155 SEAILASAKTG-----------------IGIEEILEAIVKRVPP  181 (595)
T ss_pred             ceEEEeeccCC-----------------CCHHHHHHHHHHhCCC
Confidence            24789999999                 9999999999888764

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.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=98.73  E-value=6.4e-08  Score=71.51  Aligned_cols=98  Identities=15%  Similarity=0.111  Sum_probs=61.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+.+|...+..+|.+++|+|++++..  .....+.+.+...  .+.|+++|+||+|+....    .. +.+.........
T Consensus        74 ~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~----~~-~~i~~~l~l~~~  148 (184)
T smart00178       74 ARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYAA----SE-DELRYALGLTNT  148 (184)
T ss_pred             HHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCC----CH-HHHHHHcCCCcc
Confidence            45566778899999999999987632  1122333333211  468999999999985320    00 223333221110


Q ss_pred             C--------CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          90 Q--------SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        90 ~--------~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .        ....++++||+++                 .|+++++++|.+.
T Consensus       149 ~~~~~~~~~~~~~i~~~Sa~~~-----------------~g~~~~~~wl~~~  183 (184)
T smart00178      149 TGSKGKVGVRPLEVFMCSVVRR-----------------MGYGEGFKWLSQY  183 (184)
T ss_pred             cccccccCCceeEEEEeecccC-----------------CChHHHHHHHHhh
Confidence            0        1223788999998                 9999999998653

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

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

Probab=98.73  E-value=5.6e-08  Score=69.59  Aligned_cols=95  Identities=12%  Similarity=0.007  Sum_probs=59.1

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ..++...+..+|.+++|+|++++.+-.. ..+...+..   ..+.|+++|.||+|+....  .... +....+...    
T Consensus        64 ~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~--~~~~-~~~~~~~~~----  136 (164)
T cd04145          64 SAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQR--KVSR-EEGQELARK----  136 (164)
T ss_pred             hHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccc--eecH-HHHHHHHHH----
Confidence            3344567789999999999987542111 111111211   0368999999999996541  0000 111222221    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .+.+.+.+||+++                 .|++++.+.|.+.
T Consensus       137 ~~~~~~~~Sa~~~-----------------~~i~~l~~~l~~~  162 (164)
T cd04145         137 LKIPYIETSAKDR-----------------LNVDKAFHDLVRV  162 (164)
T ss_pred             cCCcEEEeeCCCC-----------------CCHHHHHHHHHHh
Confidence            2467899999998                 8999999888654

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=98.73  E-value=8.9e-08  Score=70.73  Aligned_cols=98  Identities=13%  Similarity=0.072  Sum_probs=61.4

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      ..+.+|...+..||.+++|+|++++..-.  ...+...+...  .+.|+++|.||+|+....    .    .+...+.+.
T Consensus        73 ~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~----~----~~~~~~~l~  144 (181)
T PLN00223         73 KIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM----N----AAEITDKLG  144 (181)
T ss_pred             HHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCC----C----HHHHHHHhC
Confidence            45667777789999999999998764211  12233333221  368999999999986541    1    111112221


Q ss_pred             cC----CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          89 IQ----SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        89 ~~----~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      -.    .....+.+||+++                 .|+.++.+.|.+.+.
T Consensus       145 l~~~~~~~~~~~~~Sa~~g-----------------~gv~e~~~~l~~~~~  178 (181)
T PLN00223        145 LHSLRQRHWYIQSTCATSG-----------------EGLYEGLDWLSNNIA  178 (181)
T ss_pred             ccccCCCceEEEeccCCCC-----------------CCHHHHHHHHHHHHh
Confidence            00    1112446799999                 999999999876654

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=98.72  E-value=5.8e-08  Score=70.20  Aligned_cols=89  Identities=17%  Similarity=0.161  Sum_probs=56.8

Q ss_pred             HHHhhhccEEEEEEeCCCCC-----CCCc--HHHHHHHhCC---------CCCcEEEEeecCCCCCcccccccHHHHHHH
Q psy8220          19 RSVVEAADVILEVVDARDPM-----GTRC--KVAEDLVVGT---------PGKKLVIVINKAGKPSTKIQSGSMAQIFQT   82 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~-----~~~~--~~i~~~l~~~---------~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~   82 (161)
                      ...+..+|++++|+|++++.     ...+  ..+...+...         .++|+++|+||+|+...        .....
T Consensus        69 ~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~--------~~~~~  140 (176)
T cd01881          69 LAHIRRADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDA--------EELEE  140 (176)
T ss_pred             HHHHhccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCch--------hHHHH
Confidence            45678899999999998763     1111  1122122110         26899999999999765        22233


Q ss_pred             Hh-hhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          83 WI-PYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        83 ~~-~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      +. .........+++.+||.++                 .|+++|.+.|..
T Consensus       141 ~~~~~~~~~~~~~~~~~Sa~~~-----------------~gl~~l~~~l~~  174 (176)
T cd01881         141 ELVRELALEEGAEVVPISAKTE-----------------EGLDELIRAIYE  174 (176)
T ss_pred             HHHHHHhcCCCCCEEEEehhhh-----------------cCHHHHHHHHHh
Confidence            21 1111113456899999998                 999999988754

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

>cd01892 Miro2 Miro2 subfamily

Probab=98.72  E-value=6.2e-08  Score=70.60  Aligned_cols=95  Identities=16%  Similarity=0.057  Sum_probs=57.4

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      ++...+++||++|+|+|++++.+-.. ..+.+.+....+.|+++|.||+|+.+.....  . .....+.+.+.   ..+.
T Consensus        70 ~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~--~-~~~~~~~~~~~---~~~~  143 (169)
T cd01892          70 LNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFMLGEIPCLFVAAKADLDEQQQRY--E-VQPDEFCRKLG---LPPP  143 (169)
T ss_pred             cchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccCCCCeEEEEEEccccccccccc--c-cCHHHHHHHcC---CCCC
Confidence            33445689999999999987632111 1222323221368999999999996541000  0 01122222221   1135


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +.+||+++                 .|+++|.+.|.+.+
T Consensus       144 ~~~Sa~~~-----------------~~v~~lf~~l~~~~  165 (169)
T cd01892         144 LHFSSKLG-----------------DSSNELFTKLATAA  165 (169)
T ss_pred             EEEEeccC-----------------ccHHHHHHHHHHHh
Confidence            88999999                 89999999887654

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.

>cd04127 Rab27A Rab27a subfamily

Probab=98.72  E-value=5.8e-08  Score=70.86  Aligned_cols=98  Identities=11%  Similarity=-0.028  Sum_probs=63.4

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      .++.++...+..+|++++|.|++++.+-.+ ..+...+...   .+.|+++|.||+|+.+..  .... +....+...  
T Consensus        75 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~--~v~~-~~~~~~~~~--  149 (180)
T cd04127          75 RFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQR--QVSE-EQAKALADK--  149 (180)
T ss_pred             HHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcC--ccCH-HHHHHHHHH--
Confidence            355666778899999999999987543211 1222223221   357899999999997531  0010 122333332  


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                        .+.+.+.+||+++                 .|++++.+.|.+.+
T Consensus       150 --~~~~~~e~Sak~~-----------------~~v~~l~~~l~~~~  176 (180)
T cd04127         150 --YGIPYFETSAATG-----------------TNVEKAVERLLDLV  176 (180)
T ss_pred             --cCCeEEEEeCCCC-----------------CCHHHHHHHHHHHH
Confidence              2467899999999                 89999999987644

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

>cd01864 Rab19 Rab19 subfamily

Probab=98.72  E-value=1.6e-07  Score=67.73  Aligned_cols=98  Identities=14%  Similarity=0.054  Sum_probs=61.7

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+..++...+..+|++++|+|++++.+-. ...+...+...  .+.|+++|.||+|+....  .... +....+.+.+. 
T Consensus        64 ~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~--~~~~-~~~~~~~~~~~-  139 (165)
T cd01864          64 RFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQR--EVLF-EEACTLAEKNG-  139 (165)
T ss_pred             HHHHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECccccccc--ccCH-HHHHHHHHHcC-
Confidence            34555567788999999999998764321 12333333221  368999999999997541  0000 11122222221 


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                        ..+.+.+||+++                 .|++++.+.+.+.
T Consensus       140 --~~~~~e~Sa~~~-----------------~~v~~~~~~l~~~  164 (165)
T cd01864         140 --MLAVLETSAKES-----------------QNVEEAFLLMATE  164 (165)
T ss_pred             --CcEEEEEECCCC-----------------CCHHHHHHHHHHh
Confidence              235789999998                 8999999887653

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.

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

Probab=98.71  E-value=5.3e-08  Score=69.29  Aligned_cols=95  Identities=13%  Similarity=0.029  Sum_probs=60.0

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++...+..+|.+++|+|..+..+-.+ ..+...+..   ..+.|+++|.||+|+.+..   .. ......+...   
T Consensus        62 ~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~~---~~-~~~~~~~~~~---  134 (162)
T cd04138          62 YSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAART---VS-SRQGQDLAKS---  134 (162)
T ss_pred             hHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccce---ec-HHHHHHHHHH---
Confidence            55565667889999999999876432111 111112211   1368999999999997541   00 0112222222   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                       .+.+.+.+||+++                 .|++++.+.|.+.
T Consensus       135 -~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~  160 (162)
T cd04138         135 -YGIPYIETSAKTR-----------------QGVEEAFYTLVRE  160 (162)
T ss_pred             -hCCeEEEecCCCC-----------------CCHHHHHHHHHHH
Confidence             2457899999999                 8999999888653

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.

>cd01862 Rab7 Rab7 subfamily

Probab=98.71  E-value=1.7e-07  Score=67.62  Aligned_cols=99  Identities=16%  Similarity=0.157  Sum_probs=62.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHH-HhCC-----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDL-VVGT-----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~-l~~~-----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~   86 (161)
                      +..++...++.+|.+|+|+|+.++.+-.. ..+... +...     .+.|+++|+||+|+..+.  ... .+....+.+.
T Consensus        62 ~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~--~~~-~~~~~~~~~~  138 (172)
T cd01862          62 FQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKR--QVS-TKKAQQWCQS  138 (172)
T ss_pred             HHhHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECccccccc--ccC-HHHHHHHHHH
Confidence            45566778899999999999987643111 112111 1110     268999999999997421  000 0222333332


Q ss_pred             hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          87 NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .   ...+++.+||+++                 .|++++++.|.+.+-
T Consensus       139 ~---~~~~~~~~Sa~~~-----------------~gv~~l~~~i~~~~~  167 (172)
T cd01862         139 N---GNIPYFETSAKEA-----------------INVEQAFETIARKAL  167 (172)
T ss_pred             c---CCceEEEEECCCC-----------------CCHHHHHHHHHHHHH
Confidence            2   2357899999999                 999999999887654

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-

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=98.70  E-value=6.4e-08  Score=69.10  Aligned_cols=97  Identities=18%  Similarity=0.141  Sum_probs=60.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh-c
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN-S   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~-~   88 (161)
                      +...|...+..+|++++|+|++.+..-.  ...+.......  .+.|+++|.||+|+....    .. +.+..+.... .
T Consensus        56 ~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~----~~-~~~~~~~~~~~~  130 (158)
T cd00878          56 IRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL----SV-SELIEKLGLEKI  130 (158)
T ss_pred             hHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc----CH-HHHHHhhChhhc
Confidence            3455667889999999999998763211  11222222211  478999999999987641    11 1222222211 0


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .....+++.+||+++                 .|++++.+.|..
T Consensus       131 ~~~~~~~~~~Sa~~~-----------------~gv~~~~~~l~~  157 (158)
T cd00878         131 LGRRWHIQPCSAVTG-----------------DGLDEGLDWLLQ  157 (158)
T ss_pred             cCCcEEEEEeeCCCC-----------------CCHHHHHHHHhh
Confidence            012346889999998                 899999888754

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

>cd04158 ARD1 ARD1 subfamily

Probab=98.69  E-value=7.1e-08  Score=70.12  Aligned_cols=101  Identities=13%  Similarity=0.095  Sum_probs=62.0

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+.+|...+..+|.+++|+|++++..  .....+...+...  .+.|+++|.||+|+....    .. +.+..+......
T Consensus        56 ~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~~~~~~~~~~~  130 (169)
T cd04158          56 LRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGAL----SV-EEMTELLSLHKL  130 (169)
T ss_pred             cchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccCC----CH-HHHHHHhCCccc
Confidence            34455677899999999999987632  1222333333221  247999999999986431    01 222333222110


Q ss_pred             --CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          90 --QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        90 --~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                        .....++.+||+++                 .|++++.+.|.+.+..
T Consensus       131 ~~~~~~~~~~~Sa~~g-----------------~gv~~~f~~l~~~~~~  162 (169)
T cd04158         131 CCGRSWYIQGCDARSG-----------------MGLYEGLDWLSRQLVA  162 (169)
T ss_pred             cCCCcEEEEeCcCCCC-----------------CCHHHHHHHHHHHHhh
Confidence              01124567799999                 8999999999776543

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

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=98.69  E-value=1.4e-07  Score=71.79  Aligned_cols=92  Identities=20%  Similarity=0.158  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCC-------CCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPM-------GTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~-------~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      .|+.+. ...+..+|++++|+|+.++.       ..+.............+|+++|+||+|+.+.......+........
T Consensus        89 ~~~~~~-~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiivvNK~Dl~~~~~~~~~~~~i~~~l~  167 (219)
T cd01883          89 DFVPNM-ITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDDVTVNWSEERYDEIKKELS  167 (219)
T ss_pred             HHHHHH-HHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHcCCCeEEEEEEccccccccccHHHHHHHHHHHH
Confidence            356666 67888999999999998742       2222232233322123789999999999732000001111111111


Q ss_pred             hhhccC----CCCceeEEeecCCC
Q psy8220          85 PYNSIQ----SIYSSPRFSSRSQK  104 (161)
Q Consensus        85 ~~~~~~----~~~~~i~iSa~~~~  104 (161)
                      ..+...    ...+++++||.++.
T Consensus       168 ~~l~~~~~~~~~~~ii~iSA~tg~  191 (219)
T cd01883         168 PFLKKVGYNPKDVPFIPISGLTGD  191 (219)
T ss_pred             HHHHHcCCCcCCceEEEeecCcCC
Confidence            122211    13568999999983

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

>cd01893 Miro1 Miro1 subfamily

Probab=98.68  E-value=1.5e-07  Score=68.04  Aligned_cols=97  Identities=11%  Similarity=0.053  Sum_probs=60.4

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      +...+..+|++++|+|++++.+-..  ..+...+... .+.|+++|.||+|+.+... .....+.+......+.  ...+
T Consensus        64 ~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~--~~~~  140 (166)
T cd01893          64 LAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLRDGSS-QAGLEEEMLPIMNEFR--EIET  140 (166)
T ss_pred             HhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhcccccc-hhHHHHHHHHHHHHHh--cccE
Confidence            3566789999999999987654222  1233334321 4689999999999976520 0000011111112222  1136


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ++.+||+++                 .|+++|.+.+.+.+
T Consensus       141 ~~e~Sa~~~-----------------~~v~~lf~~~~~~~  163 (166)
T cd01893         141 CVECSAKTL-----------------INVSEVFYYAQKAV  163 (166)
T ss_pred             EEEeccccc-----------------cCHHHHHHHHHHHh
Confidence            789999998                 99999999887764

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=98.68  E-value=8.5e-08  Score=69.09  Aligned_cols=98  Identities=14%  Similarity=0.018  Sum_probs=62.4

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+..++...+..+|.+++|+|++++.+-.. ..+...+...  .+.|+++|.||+|+....  .... +....+...   
T Consensus        63 ~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--~~~~-~~~~~~~~~---  136 (166)
T cd01869          63 RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKR--VVDY-SEAQEFADE---  136 (166)
T ss_pred             hHHHHHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhccccc--CCCH-HHHHHHHHH---
Confidence            355565677889999999999987532111 1122222211  358999999999986541  0010 112222222   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       .+.+.+.+||+++                 .|++++.+.|.+.+
T Consensus       137 -~~~~~~~~Sa~~~-----------------~~v~~~~~~i~~~~  163 (166)
T cd01869         137 -LGIPFLETSAKNA-----------------TNVEQAFMTMAREI  163 (166)
T ss_pred             -cCCeEEEEECCCC-----------------cCHHHHHHHHHHHH
Confidence             3567899999998                 89999999887654

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

>cd04136 Rap_like Rap-like subfamily

Probab=98.68  E-value=5.8e-08  Score=69.46  Aligned_cols=96  Identities=10%  Similarity=-0.003  Sum_probs=60.1

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++...+..+|.+++|+|..++.+-.+ ..+.+.+...   .+.|+++|.||+|+.+..  .... +....+.+.   
T Consensus        62 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~---  135 (163)
T cd04136          62 FTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDER--VVSR-EEGQALARQ---  135 (163)
T ss_pred             cchHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc--eecH-HHHHHHHHH---
Confidence            44555556789999999999987543211 1222223221   368999999999996531  0010 111112221   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                       .+.+++.+||+++                 .|++++.+.|.+.
T Consensus       136 -~~~~~~~~Sa~~~-----------------~~v~~l~~~l~~~  161 (163)
T cd04136         136 -WGCPFYETSAKSK-----------------INVDEVFADLVRQ  161 (163)
T ss_pred             -cCCeEEEecCCCC-----------------CCHHHHHHHHHHh
Confidence             2467899999999                 8999999888653

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=98.67  E-value=1.6e-07  Score=69.35  Aligned_cols=100  Identities=14%  Similarity=0.092  Sum_probs=61.6

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh--h
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP--Y   86 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~--~   86 (161)
                      .++.+|...+..||++|+|+|++++.+  .....+.+.+...  .+.|+++|.||.|+....    .. +.+.....  .
T Consensus        73 ~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~i~~~l~~~~  147 (182)
T PTZ00133         73 KLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAM----ST-TEVTEKLGLHS  147 (182)
T ss_pred             hHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCC----CH-HHHHHHhCCCc
Confidence            466677778899999999999986532  1122333333321  358999999999986431    00 11111111  1


Q ss_pred             hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          87 NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +. ....+++.+||+++                 .|++++.+.|.+.+.
T Consensus       148 ~~-~~~~~~~~~Sa~tg-----------------~gv~e~~~~l~~~i~  178 (182)
T PTZ00133        148 VR-QRNWYIQGCCATTA-----------------QGLYEGLDWLSANIK  178 (182)
T ss_pred             cc-CCcEEEEeeeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            11 01123456799999                 999999999987654

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=98.67  E-value=7.2e-08  Score=69.19  Aligned_cols=97  Identities=14%  Similarity=0.041  Sum_probs=60.6

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ..++...+..+|.+++|+|+.++.+-.. ..+...+...   .+.|+++|.||+|+.+..  ... .+....+...    
T Consensus        62 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~--~~~-~~~~~~~~~~----  134 (164)
T smart00173       62 SAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESER--VVS-TEEGKELARQ----  134 (164)
T ss_pred             hHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc--eEc-HHHHHHHHHH----
Confidence            3444556789999999999987533111 1111222111   368999999999997531  000 0111222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+.+.+||+++                 .|+++|.+.|.+.+.
T Consensus       135 ~~~~~~~~Sa~~~-----------------~~i~~l~~~l~~~~~  162 (164)
T smart00173      135 WGCPFLETSAKER-----------------VNVDEAFYDLVREIR  162 (164)
T ss_pred             cCCEEEEeecCCC-----------------CCHHHHHHHHHHHHh
Confidence            2467899999998                 899999999877654

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

>cd01866 Rab2 Rab2 subfamily

Probab=98.67  E-value=1.1e-07  Score=68.88  Aligned_cols=99  Identities=13%  Similarity=-0.015  Sum_probs=62.1

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+..++...++.+|++|+|+|++++.+-.+ ..+...+...  .+.|+++|.||+|+.+..  .... +....+...   
T Consensus        65 ~~~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~--~~~~-~~~~~~~~~---  138 (168)
T cd01866          65 SFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRR--EVSY-EEGEAFAKE---  138 (168)
T ss_pred             HHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccccc--CCCH-HHHHHHHHH---
Confidence            455555678899999999999986533211 1222222221  368999999999997431  0010 111111111   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                       .+.+.+.+||.++                 .|++++.+.+.+.+.
T Consensus       139 -~~~~~~e~Sa~~~-----------------~~i~~~~~~~~~~~~  166 (168)
T cd01866         139 -HGLIFMETSAKTA-----------------SNVEEAFINTAKEIY  166 (168)
T ss_pred             -cCCEEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence             3567889999998                 899999888876553

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

>PLN03126 Elongation factor Tu; Provisional

Probab=98.67  E-value=3.7e-07  Score=77.10  Aligned_cols=120  Identities=16%  Similarity=0.022  Sum_probs=70.7

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHHHHHH-HH
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMAQIFQ-TW   83 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~~~~~-~~   83 (161)
                      |.|.  .|+.++ ...+..+|++++|+|+..+...+..+....+.. .+.| +|+++||+|+.+.+    +..+.+. ..
T Consensus       152 PGh~--~f~~~~-~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~-~gi~~iIvvvNK~Dl~~~~----~~~~~i~~~i  223 (478)
T PLN03126        152 PGHA--DYVKNM-ITGAAQMDGAILVVSGADGPMPQTKEHILLAKQ-VGVPNMVVFLNKQDQVDDE----ELLELVELEV  223 (478)
T ss_pred             CCHH--HHHHHH-HHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHH-cCCCeEEEEEecccccCHH----HHHHHHHHHH
Confidence            5554  367777 688899999999999998877666666665554 5777 67889999998641    1111111 12


Q ss_pred             hhhhcc----CCCCceeEEeecCCCCcchhhhhhhhccccc--cCHHHHHHHHHhHh
Q psy8220          84 IPYNSI----QSIYSSPRFSSRSQKDAQTERDLKAINVSSC--VGAELLMLLLGNYT  134 (161)
Q Consensus        84 ~~~~~~----~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~--~g~~~L~~~l~~~~  134 (161)
                      ...+..    ....|++++||.++.......... ......  .++..|++.|.++.
T Consensus       224 ~~~l~~~g~~~~~~~~vp~Sa~~g~n~~~~~~~~-~~g~~~wy~~i~~Ll~~l~~~~  279 (478)
T PLN03126        224 RELLSSYEFPGDDIPIISGSALLALEALMENPNI-KRGDNKWVDKIYELMDAVDSYI  279 (478)
T ss_pred             HHHHHhcCCCcCcceEEEEEcccccccccccccc-ccCCCchhhhHHHHHHHHHHhC
Confidence            222221    024578999998872211000000 000000  14678888888764

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=98.67  E-value=2.3e-07  Score=76.85  Aligned_cols=94  Identities=13%  Similarity=0.112  Sum_probs=57.9

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      .|.|.  .|...+ ...+..+|++|+|+|+..++..+..+....+.....+++++|+||+|+.+..  ...+.+......
T Consensus        87 tPGh~--~f~~~~-~~~~~~aD~allVVda~~G~~~qt~~~~~~~~~~~~~~iivviNK~D~~~~~--~~~~~~i~~~~~  161 (406)
T TIGR02034        87 TPGHE--QYTRNM-ATGASTADLAVLLVDARKGVLEQTRRHSYIASLLGIRHVVLAVNKMDLVDYD--EEVFENIKKDYL  161 (406)
T ss_pred             CCCHH--HHHHHH-HHHHhhCCEEEEEEECCCCCccccHHHHHHHHHcCCCcEEEEEEecccccch--HHHHHHHHHHHH
Confidence            35553  366677 5788999999999999988877766555444431235688899999997531  000111111111


Q ss_pred             hhhcc--CCCCceeEEeecCC
Q psy8220          85 PYNSI--QSIYSSPRFSSRSQ  103 (161)
Q Consensus        85 ~~~~~--~~~~~~i~iSa~~~  103 (161)
                      ..+..  ....+++++||.++
T Consensus       162 ~~~~~~~~~~~~iipiSA~~g  182 (406)
T TIGR02034       162 AFAEQLGFRDVTFIPLSALKG  182 (406)
T ss_pred             HHHHHcCCCCccEEEeecccC
Confidence            11111  11346899999998

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).

>cd04142 RRP22 RRP22 subfamily

Probab=98.66  E-value=2.9e-07  Score=69.03  Aligned_cols=94  Identities=13%  Similarity=0.069  Sum_probs=59.7

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-----CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-----TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-----~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      ...++.||++++|+|++++.+-.. ..+.+.+..     ..+.|+++|.||+|+....  ... .+....+...   ..+
T Consensus        75 ~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~--~~~-~~~~~~~~~~---~~~  148 (198)
T cd04142          75 FRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHR--FAP-RHVLSVLVRK---SWK  148 (198)
T ss_pred             HhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccc--ccc-HHHHHHHHHH---hcC
Confidence            567899999999999987643211 122222211     1468999999999996531  101 0112222221   125


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+.+||+++                 .|+++|.+.+.+.+-
T Consensus       149 ~~~~e~Sak~g-----------------~~v~~lf~~i~~~~~  174 (198)
T cd04142         149 CGYLECSAKYN-----------------WHILLLFKELLISAT  174 (198)
T ss_pred             CcEEEecCCCC-----------------CCHHHHHHHHHHHhh
Confidence            67899999999                 899999888876543

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=98.66  E-value=1.3e-07  Score=67.58  Aligned_cols=98  Identities=15%  Similarity=0.006  Sum_probs=63.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...++.+|++++|+|++++.+... ..+...+...  .+.|+++|.||+|+.+..  .... +....+...    
T Consensus        62 ~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~--~~~~-~~~~~~~~~----  134 (164)
T smart00175       62 FRSITSSYYRGAVGALLVYDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQR--QVSR-EEAEAFAEE----  134 (164)
T ss_pred             HHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhccccc--CCCH-HHHHHHHHH----
Confidence            34444677889999999999987644221 1122222211  368999999999987531  0011 122333222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+.+.+||.++                 .|++++.+.|.+.+.
T Consensus       135 ~~~~~~e~Sa~~~-----------------~~i~~l~~~i~~~~~  162 (164)
T smart00175      135 HGLPFFETSAKTN-----------------TNVEEAFEELAREIL  162 (164)
T ss_pred             cCCeEEEEeCCCC-----------------CCHHHHHHHHHHHHh
Confidence            3567899999998                 899999999987654

Rab GTPases are implicated in vesicle trafficking.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=98.65  E-value=1e-07  Score=68.19  Aligned_cols=96  Identities=13%  Similarity=0.042  Sum_probs=61.6

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .+..++...+..+|.+++|.|+.++.+-.. ..+...+... .+.|+++|.||+|+....  .... +....+...    
T Consensus        63 ~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~v~~-~~~~~~~~~----  135 (162)
T cd04106          63 EFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIPMVLVQTKIDLLDQA--VITN-EEAEALAKR----  135 (162)
T ss_pred             HHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhccccc--CCCH-HHHHHHHHH----
Confidence            355566678899999999999987642111 1222222211 378999999999997541  0010 112222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+
T Consensus       136 ~~~~~~~~Sa~~~-----------------~~v~~l~~~l~~  160 (162)
T cd04106         136 LQLPLFRTSVKDD-----------------FNVTELFEYLAE  160 (162)
T ss_pred             cCCeEEEEECCCC-----------------CCHHHHHHHHHH
Confidence            2567899999998                 899999988864

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=98.65  E-value=1.6e-07  Score=67.95  Aligned_cols=97  Identities=13%  Similarity=0.004  Sum_probs=61.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...++.||++++|.|+.++.+-.. ..+...+...  .+.|+++|.||+|+.+..  .... +....+...    
T Consensus        65 ~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~--~~~~-~~~~~~~~~----  137 (167)
T cd01867          65 FRTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKR--VVSK-EEGEALADE----  137 (167)
T ss_pred             HHHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECccccccc--CCCH-HHHHHHHHH----
Confidence            44555677899999999999977543111 1222222221  368999999999997531  0011 111222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.+.+.+||+++                 .|++++.+.+.+.+
T Consensus       138 ~~~~~~~~Sa~~~-----------------~~v~~~~~~i~~~~  164 (167)
T cd01867         138 YGIKFLETSAKAN-----------------INVEEAFFTLAKDI  164 (167)
T ss_pred             cCCEEEEEeCCCC-----------------CCHHHHHHHHHHHH
Confidence            2467899999998                 89999998887654

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

>PTZ00099 rab6; Provisional

Probab=98.65  E-value=1e-07  Score=70.28  Aligned_cols=99  Identities=11%  Similarity=0.027  Sum_probs=63.1

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ...++...+..||++|+|+|.+++.+  .....+...+... .+.|+++|.||+||....  .... +....+...    
T Consensus        42 ~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~piilVgNK~DL~~~~--~v~~-~e~~~~~~~----  114 (176)
T PTZ00099         42 FRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLR--KVTY-EEGMQKAQE----  114 (176)
T ss_pred             hhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECccccccc--CCCH-HHHHHHHHH----
Confidence            34455667899999999999987533  1112222322221 357889999999996421  0011 111222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+...+.+||+++                 .|++++.+.|.+.++.
T Consensus       115 ~~~~~~e~SAk~g-----------------~nV~~lf~~l~~~l~~  143 (176)
T PTZ00099        115 YNTMFHETSAKAG-----------------HNIKVLFKKIAAKLPN  143 (176)
T ss_pred             cCCEEEEEECCCC-----------------CCHHHHHHHHHHHHHh
Confidence            2345678999999                 9999999999988865

>cd00154 Rab Rab family

Probab=98.65  E-value=1.5e-07  Score=66.28  Aligned_cols=94  Identities=15%  Similarity=0.012  Sum_probs=59.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCC-CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGT-RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~-~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +...+...++++|++++|+|++++..- ....+...+...  .+.|+++|+||+|+..+.  ... .+....+...    
T Consensus        62 ~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~--~~~-~~~~~~~~~~----  134 (159)
T cd00154          62 FRSITPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQR--QVS-TEEAQQFAKE----  134 (159)
T ss_pred             HHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccc--ccc-HHHHHHHHHH----
Confidence            445567888999999999999875321 112233333321  258999999999996221  000 0112222221    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHH
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLG  131 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~  131 (161)
                      ...+++.+||.++                 .|++++.+.|.
T Consensus       135 ~~~~~~~~sa~~~-----------------~~i~~~~~~i~  158 (159)
T cd00154         135 NGLLFFETSAKTG-----------------ENVEELFQSLA  158 (159)
T ss_pred             cCCeEEEEecCCC-----------------CCHHHHHHHHh
Confidence            3567899999998                 89999988874

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

>PRK04213 GTP-binding protein; Provisional

Probab=98.65  E-value=5.3e-07  Score=67.16  Aligned_cols=91  Identities=13%  Similarity=0.068  Sum_probs=56.9

Q ss_pred             HhhhccEEEEEEeCCCCCCC-----------CcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          21 VVEAADVILEVVDARDPMGT-----------RCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~-----------~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+..+|++++|+|+......           .+..+...+.. .+.|+++|+||+|+.+..      .+....+.+.+..
T Consensus        87 ~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~p~iiv~NK~Dl~~~~------~~~~~~~~~~~~~  159 (201)
T PRK04213         87 NADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRE-LGIPPIVAVNKMDKIKNR------DEVLDEIAERLGL  159 (201)
T ss_pred             hhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHH-cCCCeEEEEECccccCcH------HHHHHHHHHHhcC
Confidence            45678999999998653211           12334455544 579999999999997541      0122333333320


Q ss_pred             C-----CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          90 Q-----SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        90 ~-----~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .     .+.+++++||+++                  |+++|.+.|.+.++.
T Consensus       160 ~~~~~~~~~~~~~~SA~~g------------------gi~~l~~~l~~~~~~  193 (201)
T PRK04213        160 YPPWRQWQDIIAPISAKKG------------------GIEELKEAIRKRLHE  193 (201)
T ss_pred             CccccccCCcEEEEecccC------------------CHHHHHHHHHHhhcC
Confidence            0     0125788998864                  789999998876654

>CHL00189 infB translation initiation factor 2; Provisional

Probab=98.65  E-value=3.9e-07  Score=80.31  Aligned_cols=96  Identities=10%  Similarity=0.116  Sum_probs=65.9

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhh---hccC-
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY---NSIQ-   90 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~---~~~~-   90 (161)
                      ..++...+..+|++|+|+|+.++...+..+....+.. .+.|+|+|+||+|+....     . +.+..+...   +.+. 
T Consensus       309 ~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~~~k~-~~iPiIVViNKiDl~~~~-----~-e~v~~eL~~~~ll~e~~  381 (742)
T CHL00189        309 SSMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQA-ANVPIIVAINKIDKANAN-----T-ERIKQQLAKYNLIPEKW  381 (742)
T ss_pred             HHHHHHHHHHCCEEEEEEECcCCCChhhHHHHHHHHh-cCceEEEEEECCCccccC-----H-HHHHHHHHHhccchHhh
Confidence            3444678899999999999988765555555555554 589999999999997541     1 111111111   1100 


Q ss_pred             -CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          91 -SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        91 -~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       ...|++++||+++                 .|+++|++.|..++
T Consensus       382 g~~vpvv~VSAktG-----------------~GIdeLle~I~~l~  409 (742)
T CHL00189        382 GGDTPMIPISASQG-----------------TNIDKLLETILLLA  409 (742)
T ss_pred             CCCceEEEEECCCC-----------------CCHHHHHHhhhhhh
Confidence             1257899999999                 99999999987654

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=98.64  E-value=3.6e-07  Score=77.15  Aligned_cols=95  Identities=13%  Similarity=0.122  Sum_probs=57.0

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      .|.|.  .|...+ ...+..+|++|+|+|+..+...+..+...++....-+++|+|+||+|+.+..  ...+.+......
T Consensus       114 TPGh~--~f~~~~-~~~l~~aD~allVVDa~~G~~~qt~~~~~l~~~lg~~~iIvvvNKiD~~~~~--~~~~~~i~~~l~  188 (474)
T PRK05124        114 TPGHE--QYTRNM-ATGASTCDLAILLIDARKGVLDQTRRHSFIATLLGIKHLVVAVNKMDLVDYS--EEVFERIREDYL  188 (474)
T ss_pred             CCCcH--HHHHHH-HHHHhhCCEEEEEEECCCCccccchHHHHHHHHhCCCceEEEEEeeccccch--hHHHHHHHHHHH
Confidence            46654  356666 5678999999999999988766554433333321236789999999997531  000111111111


Q ss_pred             hhhcc---CCCCceeEEeecCCC
Q psy8220          85 PYNSI---QSIYSSPRFSSRSQK  104 (161)
Q Consensus        85 ~~~~~---~~~~~~i~iSa~~~~  104 (161)
                      ..+..   ....+++++||+++.
T Consensus       189 ~~~~~~~~~~~~~iipvSA~~g~  211 (474)
T PRK05124        189 TFAEQLPGNLDIRFVPLSALEGD  211 (474)
T ss_pred             HHHHhcCCCCCceEEEEEeecCC
Confidence            11111   124678999999983

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.64  E-value=5.9e-07  Score=67.16  Aligned_cols=103  Identities=15%  Similarity=0.130  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHhh---hccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          12 VVVQEIERSVVE---AADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        12 ~~~~~~~~~~i~---~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      +.|.++..+-++   +-..+++++|++.++...|.++.+++.. .+.|+++|+||+|-++...    ....+....+.+.
T Consensus        91 e~w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~em~~~l~~-~~i~~~vv~tK~DKi~~~~----~~k~l~~v~~~l~  165 (200)
T COG0218          91 EKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLDREMIEFLLE-LGIPVIVVLTKADKLKKSE----RNKQLNKVAEELK  165 (200)
T ss_pred             HHHHHHHHHHHhhchhheEEEEEEECCCCCcHHHHHHHHHHHH-cCCCeEEEEEccccCChhH----HHHHHHHHHHHhc
Confidence            345555444443   2346889999999999889999999987 7999999999999887520    0011122222222


Q ss_pred             cCCCCc--eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          89 IQSIYS--SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        89 ~~~~~~--~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ......  ++.+|+.++                 .|+++|...|.+.+..
T Consensus       166 ~~~~~~~~~~~~ss~~k-----------------~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         166 KPPPDDQWVVLFSSLKK-----------------KGIDELKAKILEWLKE  198 (200)
T ss_pred             CCCCccceEEEEecccc-----------------cCHHHHHHHHHHHhhc
Confidence            101111  788898888                 9999999999887653

>cd04109 Rab28 Rab28 subfamily

Probab=98.64  E-value=1.3e-07  Score=71.59  Aligned_cols=98  Identities=13%  Similarity=0.043  Sum_probs=61.5

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN   87 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~   87 (161)
                      ...++...+..||++|+|+|++++.+-.. ..+...+.+.     .+.|+++|.||+|+....  ... .+....+... 
T Consensus        63 ~~~l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~--~v~-~~~~~~~~~~-  138 (215)
T cd04109          63 GGKMLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNR--TVK-DDKHARFAQA-  138 (215)
T ss_pred             HHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECccccccc--ccC-HHHHHHHHHH-
Confidence            34455567889999999999987643211 1222333221     135789999999997431  000 0112222222 


Q ss_pred             ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          88 SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                         .+.+.+.+||+++                 .|++++.+.|.+.+.
T Consensus       139 ---~~~~~~~iSAktg-----------------~gv~~lf~~l~~~l~  166 (215)
T cd04109         139 ---NGMESCLVSAKTG-----------------DRVNLLFQQLAAELL  166 (215)
T ss_pred             ---cCCEEEEEECCCC-----------------CCHHHHHHHHHHHHH
Confidence               2457889999999                 899999999887654

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

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=98.64  E-value=2e-07  Score=70.30  Aligned_cols=89  Identities=12%  Similarity=0.106  Sum_probs=52.6

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCC-CcEEEEeecCCCCCcccc-cccHHHHHHHHhhhhccC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGKPSTKIQ-SGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~   90 (161)
                      |..++ ..++..||++|+|+|++.++...+.....++.. .+ +++|+|+||+|+...... ...+...+..+...+. .
T Consensus        90 ~~~~~-~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~~~-~~~~~iIvviNK~D~~~~~~~~~~~i~~~~~~~~~~~~-~  166 (208)
T cd04166          90 YTRNM-VTGASTADLAILLVDARKGVLEQTRRHSYILSL-LGIRHVVVAVNKMDLVDYSEEVFEEIVADYLAFAAKLG-I  166 (208)
T ss_pred             HHHHH-HHhhhhCCEEEEEEECCCCccHhHHHHHHHHHH-cCCCcEEEEEEchhcccCCHHHHHHHHHHHHHHHHHcC-C
Confidence            45555 577899999999999998876555554444443 34 457889999998753100 0000011112222221 0


Q ss_pred             CCCceeEEeecCCC
Q psy8220          91 SIYSSPRFSSRSQK  104 (161)
Q Consensus        91 ~~~~~i~iSa~~~~  104 (161)
                      ...+++++||.++.
T Consensus       167 ~~~~ii~iSA~~g~  180 (208)
T cd04166         167 EDITFIPISALDGD  180 (208)
T ss_pred             CCceEEEEeCCCCC
Confidence            12458999999983

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.

>cd01868 Rab11_like Rab11-like

Probab=98.64  E-value=1.4e-07  Score=67.74  Aligned_cols=97  Identities=12%  Similarity=-0.058  Sum_probs=60.8

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+..++...++.+|.+++|+|++++.+-.+ ..+...+...  .+.|+++|.||+|+....  .... +....+...   
T Consensus        64 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~--~~~~-~~~~~~~~~---  137 (165)
T cd01868          64 RYRAITSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLR--AVPT-EEAKAFAEK---  137 (165)
T ss_pred             HHHHHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc--cCCH-HHHHHHHHH---
Confidence            345555667889999999999986543211 1222222221  258999999999986531  0000 111221111   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                       .+.+.+.+||+++                 .|+++|.+.|.+.
T Consensus       138 -~~~~~~~~Sa~~~-----------------~~v~~l~~~l~~~  163 (165)
T cd01868         138 -NGLSFIETSALDG-----------------TNVEEAFKQLLTE  163 (165)
T ss_pred             -cCCEEEEEECCCC-----------------CCHHHHHHHHHHH
Confidence             3567899999999                 8999999988654

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=98.63  E-value=1.7e-07  Score=69.97  Aligned_cols=99  Identities=11%  Similarity=0.047  Sum_probs=59.9

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ..++...+..||++++|+|+.++.+-.. ..+...+...   .+.|+++|+||+|+.+.. +...  .  ....+.....
T Consensus        61 ~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~-~~v~--~--~~~~~~~~~~  135 (198)
T cd04147          61 PAMRKLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEE-RQVP--A--KDALSTVELD  135 (198)
T ss_pred             hHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEcccccccc-cccc--H--HHHHHHHHhh
Confidence            3344457789999999999987532111 1111112111   368999999999997531 0000  0  1111111101


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ...+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       136 ~~~~~~~~Sa~~g-----------------~gv~~l~~~l~~~~~  163 (198)
T cd04147         136 WNCGFVETSAKDN-----------------ENVLEVFKELLRQAN  163 (198)
T ss_pred             cCCcEEEecCCCC-----------------CCHHHHHHHHHHHhh
Confidence            2356789999999                 999999999887653

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=98.63  E-value=4e-07  Score=67.27  Aligned_cols=93  Identities=16%  Similarity=0.131  Sum_probs=63.0

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEee
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSS  100 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa  100 (161)
                      ..+.++++++|+|+..+....+..+.+++.. .+.|+++++||+|+.+..    ............+.. ...+++++||
T Consensus       103 ~~~~~~~~~~v~d~~~~~~~~~~~i~~~l~~-~~~~~iiv~nK~Dl~~~~----~~~~~~~~i~~~l~~-~~~~~~~~Sa  176 (196)
T PRK00454        103 TRENLKGVVLLIDSRHPLKELDLQMIEWLKE-YGIPVLIVLTKADKLKKG----ERKKQLKKVRKALKF-GDDEVILFSS  176 (196)
T ss_pred             hCccceEEEEEEecCCCCCHHHHHHHHHHHH-cCCcEEEEEECcccCCHH----HHHHHHHHHHHHHHh-cCCceEEEEc
Confidence            3345578999999988766555555666654 578999999999997651    000111112223321 1457889999


Q ss_pred             cCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220         101 RSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +++                 .|++++.+.|.+++.+
T Consensus       177 ~~~-----------------~gi~~l~~~i~~~~~~  195 (196)
T PRK00454        177 LKK-----------------QGIDELRAAIAKWLAE  195 (196)
T ss_pred             CCC-----------------CCHHHHHHHHHHHhcC
Confidence            998                 8999999999887753

>cd04128 Spg1 Spg1p

Probab=98.63  E-value=1.4e-07  Score=69.80  Aligned_cols=103  Identities=10%  Similarity=-0.070  Sum_probs=61.0

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+..||++++|+|.+++.+-.+ ..+.+.+...  ...| |+|.||+|+.........  .........+...
T Consensus        62 ~~~~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~--~~~~~~~~~~a~~  138 (182)
T cd04128          62 FINMLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQ--EEITKQARKYAKA  138 (182)
T ss_pred             HHHhhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhh--hhhHHHHHHHHHH
Confidence            45555667899999999999987643222 1222333221  2345 789999999632000000  0011111112111


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       139 ~~~~~~e~SAk~g-----------------~~v~~lf~~l~~~l~~  167 (182)
T cd04128         139 MKAPLIFCSTSHS-----------------INVQKIFKIVLAKAFD  167 (182)
T ss_pred             cCCEEEEEeCCCC-----------------CCHHHHHHHHHHHHHh
Confidence            2467899999999                 9999999998876643

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

>cd04114 Rab30 Rab30 subfamily

Probab=98.63  E-value=1.7e-07  Score=67.51  Aligned_cols=96  Identities=16%  Similarity=0.003  Sum_probs=59.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +...+...+..+|++++|+|++++.+.. -..+...+...  .+.|.++|.||+|+.+..       +........+...
T Consensus        69 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~-------~i~~~~~~~~~~~  141 (169)
T cd04114          69 FRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERR-------EVSQQRAEEFSDA  141 (169)
T ss_pred             HHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc-------ccCHHHHHHHHHH
Confidence            4444467889999999999987653211 11222222211  368899999999987541       1001111122211


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ...+.+.+||+++                 .|++++.+.|.+.
T Consensus       142 ~~~~~~~~Sa~~~-----------------~gv~~l~~~i~~~  167 (169)
T cd04114         142 QDMYYLETSAKES-----------------DNVEKLFLDLACR  167 (169)
T ss_pred             cCCeEEEeeCCCC-----------------CCHHHHHHHHHHH
Confidence            2456889999998                 8999999988654

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=98.63  E-value=1.8e-07  Score=66.91  Aligned_cols=97  Identities=13%  Similarity=0.046  Sum_probs=61.1

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC-------CCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT-------PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~-------~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      ...++...+..+|++|+|+|++++.+-. ...+...+...       .+.|+++|.||+|+.++.  .... +....|..
T Consensus        62 ~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~  138 (168)
T cd04119          62 YLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHR--AVSE-DEGRLWAE  138 (168)
T ss_pred             HHHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhccccc--ccCH-HHHHHHHH
Confidence            4455566789999999999998763211 11222222210       257999999999997431  0000 11222322


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .    .+.+.+.+||+++                 .|++++.+.|.+.+
T Consensus       139 ~----~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~l  166 (168)
T cd04119         139 S----KGFKYFETSACTG-----------------EGVNEMFQTLFSSI  166 (168)
T ss_pred             H----cCCeEEEEECCCC-----------------CCHHHHHHHHHHHH
Confidence            2    2467899999999                 99999999987543

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=98.63  E-value=1.8e-07  Score=68.68  Aligned_cols=76  Identities=18%  Similarity=0.149  Sum_probs=51.7

Q ss_pred             hhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC-CCCceeEEeec
Q psy8220          23 EAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ-SIYSSPRFSSR  101 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~iSa~  101 (161)
                      ..+|.+++|+|++.+....+..+.+.+.. .++|+++|+||+|+.+..    ........+.+.+... ...+++++||+
T Consensus        99 ~~~~~ii~vvd~~~~~~~~~~~~~~~~~~-~~~pviiv~nK~D~~~~~----~~~~~~~~i~~~l~~~~~~~~v~~~Sa~  173 (179)
T TIGR03598        99 ENLKGVVLLMDIRHPLKELDLEMLEWLRE-RGIPVLIVLTKADKLKKS----ELNKQLKKIKKALKKDADDPSVQLFSSL  173 (179)
T ss_pred             hhhcEEEEEecCCCCCCHHHHHHHHHHHH-cCCCEEEEEECcccCCHH----HHHHHHHHHHHHHhhccCCCceEEEECC
Confidence            35689999999998877666666666655 579999999999997541    1111223333344311 12368999999


Q ss_pred             CC
Q psy8220         102 SQ  103 (161)
Q Consensus       102 ~~  103 (161)
                      ++
T Consensus       174 ~g  175 (179)
T TIGR03598       174 KK  175 (179)
T ss_pred             CC
Confidence            98

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.

>cd04122 Rab14 Rab14 subfamily

Probab=98.62  E-value=1.9e-07  Score=67.45  Aligned_cols=97  Identities=13%  Similarity=0.016  Sum_probs=61.2

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .++.++...++.+|.+++|+|.+++.+-.. ..+...+...  .+.|+++|.||+|+....  .... +....+...   
T Consensus        63 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~--~~~~-~~~~~~~~~---  136 (166)
T cd04122          63 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQR--DVTY-EEAKQFADE---  136 (166)
T ss_pred             HHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc--CcCH-HHHHHHHHH---
Confidence            345555678899999999999987643111 1222222111  367999999999996541  0000 122233222   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                       .+.+.+.+||+++                 .|++++.+.+...
T Consensus       137 -~~~~~~e~Sa~~~-----------------~~i~e~f~~l~~~  162 (166)
T cd04122         137 -NGLLFLECSAKTG-----------------ENVEDAFLETAKK  162 (166)
T ss_pred             -cCCEEEEEECCCC-----------------CCHHHHHHHHHHH
Confidence             2467899999999                 8999987776543

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

>cd04120 Rab12 Rab12 subfamily

Probab=98.62  E-value=3.1e-07  Score=69.22  Aligned_cols=100  Identities=14%  Similarity=0.013  Sum_probs=64.2

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      +.++.+|...+..||.+++|+|.+++.+-.. ..+.+.+...  .+.|+++|.||+|+....  .... +....+...+ 
T Consensus        60 e~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~--~v~~-~~~~~~a~~~-  135 (202)
T cd04120          60 ERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDR--EISR-QQGEKFAQQI-  135 (202)
T ss_pred             hhhHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccccc--ccCH-HHHHHHHHhc-
Confidence            3466677778899999999999987643211 1223333321  368999999999996431  0000 1112222222 


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                        .+.+.+.+||+++                 .|++++.+.|.+.+
T Consensus       136 --~~~~~~etSAktg-----------------~gV~e~F~~l~~~~  162 (202)
T cd04120         136 --TGMRFCEASAKDN-----------------FNVDEIFLKLVDDI  162 (202)
T ss_pred             --CCCEEEEecCCCC-----------------CCHHHHHHHHHHHH
Confidence              1456789999999                 89999988887654

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=98.62  E-value=4.3e-07  Score=63.99  Aligned_cols=97  Identities=18%  Similarity=0.199  Sum_probs=59.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHh-hhhc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI-PYNS   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~-~~~~   88 (161)
                      ++.+|...+..+|++++|+|++++..-.  ...+...+...  .++|+++|+||+|+.+..    ........+. ....
T Consensus        57 ~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~----~~~~~~~~~~~~~~~  132 (159)
T cd04159          57 FRSMWERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGAL----SVDELIEQMNLKSIT  132 (159)
T ss_pred             HHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCc----CHHHHHHHhCccccc
Confidence            5556678889999999999998653211  11222222211  368999999999987541    1101111110 1111


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                       ....+.+.+||+++                 .|++++++.|.+
T Consensus       133 -~~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~  158 (159)
T cd04159         133 -DREVSCYSISCKEK-----------------TNIDIVLDWLIK  158 (159)
T ss_pred             -CCceEEEEEEeccC-----------------CChHHHHHHHhh
Confidence             12346789999998                 999999998854

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.

>cd00879 Sar1 Sar1 subfamily

Probab=98.61  E-value=2.5e-07  Score=68.19  Aligned_cols=98  Identities=17%  Similarity=0.141  Sum_probs=61.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+.+|...+..+|.+++|+|++++..-  ....+...+...  .+.|+++|.||+|+....    .. +.+..+......
T Consensus        76 ~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~~----~~-~~~~~~~~~~~~  150 (190)
T cd00879          76 ARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPGAV----SE-EELRQALGLYGT  150 (190)
T ss_pred             HHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCCCc----CH-HHHHHHhCcccc
Confidence            455667778999999999999865221  112333333211  368999999999986431    00 223333321110


Q ss_pred             ----------C--CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          90 ----------Q--SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        90 ----------~--~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                                .  ...+++.+||+++                 .|++++.+.|.++
T Consensus       151 ~~~~~~~~~~~~~~~~~~~~~Sa~~~-----------------~gv~e~~~~l~~~  189 (190)
T cd00879         151 TTGKGVSLKVSGIRPIEVFMCSVVKR-----------------QGYGEAFRWLSQY  189 (190)
T ss_pred             cccccccccccCceeEEEEEeEecCC-----------------CChHHHHHHHHhh
Confidence                      0  1234788999999                 9999999998764

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.61  E-value=2.1e-07  Score=82.63  Aligned_cols=86  Identities=17%  Similarity=0.130  Sum_probs=59.1

Q ss_pred             hhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeec
Q psy8220          22 VEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSR  101 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~  101 (161)
                      .+++|++++|+|+++..  .+..+...+.+ .+.|+++|+||+|+.++.    ......+.    +.+..+.|++++||.
T Consensus        83 ~~~aD~vI~VvDat~le--r~l~l~~ql~e-~giPvIvVlNK~Dl~~~~----~i~id~~~----L~~~LG~pVvpiSA~  151 (772)
T PRK09554         83 SGDADLLINVVDASNLE--RNLYLTLQLLE-LGIPCIVALNMLDIAEKQ----NIRIDIDA----LSARLGCPVIPLVST  151 (772)
T ss_pred             ccCCCEEEEEecCCcch--hhHHHHHHHHH-cCCCEEEEEEchhhhhcc----CcHHHHHH----HHHHhCCCEEEEEee
Confidence            45899999999998753  33444445555 689999999999987541    11111222    222246789999999


Q ss_pred             CCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220         102 SQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ++                 .|+++|.+.+.+..+
T Consensus       152 ~g-----------------~GIdeL~~~I~~~~~  168 (772)
T PRK09554        152 RG-----------------RGIEALKLAIDRHQA  168 (772)
T ss_pred             cC-----------------CCHHHHHHHHHHhhh
Confidence            98                 788888888776643

>cd01863 Rab18 Rab18 subfamily

Probab=98.61  E-value=1.4e-07  Score=67.51  Aligned_cols=95  Identities=12%  Similarity=-0.007  Sum_probs=59.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++...++.+|.+++|+|+.++.+-.. ..+...+...   .+.|+++|.||+|+.....   .. +....+..    
T Consensus        62 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~~---~~-~~~~~~~~----  133 (161)
T cd01863          62 FRTLTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENREV---TR-EEGLKFAR----  133 (161)
T ss_pred             hhhhhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccccccc---CH-HHHHHHHH----
Confidence            33444667889999999999987643211 1122222211   4689999999999974311   00 11112111    


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ..+.+.+.+||+++                 .|++++.+.+.+.
T Consensus       134 ~~~~~~~~~Sa~~~-----------------~gi~~~~~~~~~~  160 (161)
T cd01863         134 KHNMLFIETSAKTR-----------------DGVQQAFEELVEK  160 (161)
T ss_pred             HcCCEEEEEecCCC-----------------CCHHHHHHHHHHh
Confidence            13567899999999                 8999999887653

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

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=98.61  E-value=4e-07  Score=75.78  Aligned_cols=94  Identities=16%  Similarity=0.090  Sum_probs=54.7

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCC--CCCCCcHHHHHHHhCCCC-CcEEEEeecCCCCCccc-ccccHHHHHH
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARD--PMGTRCKVAEDLVVGTPG-KKLVIVINKAGKPSTKI-QSGSMAQIFQ   81 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~--~~~~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~~~~~-~~~~~~~~~~   81 (161)
                      |.|.  .|+..+ ...+..||++|+|+|+++  +...+..+...++.. .+ .|+++|+||+|+.+... +.....+.+.
T Consensus        92 pG~~--~~~~~~-~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~-~~~~~iivviNK~Dl~~~~~~~~~~~~~~i~  167 (425)
T PRK12317         92 PGHR--DFVKNM-ITGASQADAAVLVVAADDAGGVMPQTREHVFLART-LGINQLIVAINKMDAVNYDEKRYEEVKEEVS  167 (425)
T ss_pred             CCcc--cchhhH-hhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHH-cCCCeEEEEEEccccccccHHHHHHHHHHHH
Confidence            5553  355666 466789999999999998  555555554444443 34 46899999999975310 0000111122


Q ss_pred             HHhhhhcc-CCCCceeEEeecCC
Q psy8220          82 TWIPYNSI-QSIYSSPRFSSRSQ  103 (161)
Q Consensus        82 ~~~~~~~~-~~~~~~i~iSa~~~  103 (161)
                      .+...+.. ....+++++||.++
T Consensus       168 ~~l~~~g~~~~~~~ii~iSA~~g  190 (425)
T PRK12317        168 KLLKMVGYKPDDIPFIPVSAFEG  190 (425)
T ss_pred             HHHHhhCCCcCcceEEEeecccC
Confidence            22222110 01246899999998

>KOG1489|consensus

Probab=98.59  E-value=3.2e-07  Score=72.85  Aligned_cols=89  Identities=18%  Similarity=0.106  Sum_probs=57.7

Q ss_pred             HHHhhhccEEEEEEeCCCCCC---CCc-HHHHHHH---hC-CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          19 RSVVEAADVILEVVDARDPMG---TRC-KVAEDLV---VG-TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~---~~~-~~i~~~l---~~-~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .+.++++++++||+|.+.+..   .+. ..+...+   .+ ...+|.++|.||+|+.+.+      ...+....+++.  
T Consensus       269 LrHiER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae------~~~l~~L~~~lq--  340 (366)
T KOG1489|consen  269 LRHIERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAE------KNLLSSLAKRLQ--  340 (366)
T ss_pred             HHHHHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHH------HHHHHHHHHHcC--
Confidence            355679999999999987622   111 1111111   11 1479999999999996431      011244444443  


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                       ...++++||+++                 .|+.+|++.|++.
T Consensus       341 -~~~V~pvsA~~~-----------------egl~~ll~~lr~~  365 (366)
T KOG1489|consen  341 -NPHVVPVSAKSG-----------------EGLEELLNGLREL  365 (366)
T ss_pred             -CCcEEEeeeccc-----------------cchHHHHHHHhhc
Confidence             334899999999                 9999999988753

>cd01860 Rab5_related Rab5-related subfamily

Probab=98.59  E-value=2.6e-07  Score=66.13  Aligned_cols=98  Identities=14%  Similarity=0.033  Sum_probs=61.6

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCC-CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGT-RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~-~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+...+...+..+|.+++|+|+.++.+- ....+...+...  .+.|+++|.||+|+.+..  .... +....+...   
T Consensus        62 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~--~~~~-~~~~~~~~~---  135 (163)
T cd01860          62 RYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKR--QVST-EEAQEYADE---  135 (163)
T ss_pred             HHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccC--cCCH-HHHHHHHHH---
Confidence            3455555677889999999999866321 112233333221  357899999999987431  0010 111211111   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       .+.+.+.+||+++                 .|++++++.|.+.+
T Consensus       136 -~~~~~~~~Sa~~~-----------------~~v~~l~~~l~~~l  162 (163)
T cd01860         136 -NGLLFFETSAKTG-----------------ENVNELFTEIAKKL  162 (163)
T ss_pred             -cCCEEEEEECCCC-----------------CCHHHHHHHHHHHh
Confidence             2467899999998                 89999999987654

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

>cd04144 Ras2 Ras2 subfamily

Probab=98.59  E-value=2.5e-07  Score=68.61  Aligned_cols=98  Identities=12%  Similarity=0.009  Sum_probs=62.5

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN   87 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~   87 (161)
                      ++.++...+..+|++|+|+|.+++.+-.. ..+...+...     .+.|+++|.||+|+....  .... .....+... 
T Consensus        60 ~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~--~v~~-~~~~~~~~~-  135 (190)
T cd04144          60 YTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYER--EVST-EEGAALARR-  135 (190)
T ss_pred             hHHHHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccC--ccCH-HHHHHHHHH-
Confidence            44555677889999999999977543211 2222223210     357999999999996531  0000 111222222 


Q ss_pred             ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          88 SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                         .+.+.+.+||+++                 .|++++.+.+.+.+.
T Consensus       136 ---~~~~~~e~SAk~~-----------------~~v~~l~~~l~~~l~  163 (190)
T cd04144         136 ---LGCEFIEASAKTN-----------------VNVERAFYTLVRALR  163 (190)
T ss_pred             ---hCCEEEEecCCCC-----------------CCHHHHHHHHHHHHH
Confidence               2457899999999                 899999999987654

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.

>PTZ00369 Ras-like protein; Provisional

Probab=98.58  E-value=1.3e-07  Score=70.11  Aligned_cols=98  Identities=12%  Similarity=0.006  Sum_probs=61.3

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..+|...+..+|++++|+|++++.+-. ...+...+...   .+.|+++|.||+|+.+..  .... .....+.+.   
T Consensus        66 ~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~--~i~~-~~~~~~~~~---  139 (189)
T PTZ00369         66 YSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSER--QVST-GEGQELAKS---  139 (189)
T ss_pred             chhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc--ccCH-HHHHHHHHH---
Confidence            4455566788999999999998764311 11222222211   367999999999986431  0010 111222222   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                       .+.+++.+||+++                 .|++++++.|.+.+.
T Consensus       140 -~~~~~~e~Sak~~-----------------~gi~~~~~~l~~~l~  167 (189)
T PTZ00369        140 -FGIPFLETSAKQR-----------------VNVDEAFYELVREIR  167 (189)
T ss_pred             -hCCEEEEeeCCCC-----------------CCHHHHHHHHHHHHH
Confidence             2457899999999                 899999888876553

>cd04110 Rab35 Rab35 subfamily

Probab=98.58  E-value=2.7e-07  Score=69.02  Aligned_cols=98  Identities=13%  Similarity=0.020  Sum_probs=62.6

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .++.++...+..+|.+++|+|++++.+-.+ ..+.+.+... ...|+++|.||+|+.+..  .... +....+...    
T Consensus        67 ~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~piivVgNK~Dl~~~~--~~~~-~~~~~~~~~----  139 (199)
T cd04110          67 RFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVCKVLVGNKNDDPERK--VVET-EDAYKFAGQ----  139 (199)
T ss_pred             hHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccccccc--ccCH-HHHHHHHHH----
Confidence            355566678889999999999987643111 1222223221 358999999999997541  0000 111111111    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+
T Consensus       140 ~~~~~~e~Sa~~~-----------------~gi~~lf~~l~~~~  166 (199)
T cd04110         140 MGISLFETSAKEN-----------------INVEEMFNCITELV  166 (199)
T ss_pred             cCCEEEEEECCCC-----------------cCHHHHHHHHHHHH
Confidence            2467889999999                 89999999987655

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

>PRK10218 GTP-binding protein; Provisional

Probab=98.58  E-value=6.1e-07  Score=77.75  Aligned_cols=110  Identities=17%  Similarity=0.107  Sum_probs=71.2

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc----
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS----   88 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~----   88 (161)
                      |..+. ...+..+|.+|+|+|+.++...+...+...+.. .+.|.++++||+|+....     ..+.+......+.    
T Consensus        81 f~~~v-~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~-~gip~IVviNKiD~~~a~-----~~~vl~ei~~l~~~l~~  153 (607)
T PRK10218         81 FGGEV-ERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFA-YGLKPIVVINKVDRPGAR-----PDWVVDQVFDLFVNLDA  153 (607)
T ss_pred             hHHHH-HHHHHhCCEEEEEEecccCccHHHHHHHHHHHH-cCCCEEEEEECcCCCCCc-----hhHHHHHHHHHHhccCc
Confidence            34444 678899999999999998766666666665554 689999999999986541     1122222222221    


Q ss_pred             --cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          89 --IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        89 --~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                        ....+|+++.||.++....       .......|+..|++.|.+++|.
T Consensus       154 ~~~~~~~PVi~~SA~~G~~~~-------~~~~~~~~i~~Lld~Ii~~iP~  196 (607)
T PRK10218        154 TDEQLDFPIVYASALNGIAGL-------DHEDMAEDMTPLYQAIVDHVPA  196 (607)
T ss_pred             cccccCCCEEEeEhhcCcccC-------CccccccchHHHHHHHHHhCCC
Confidence              1135789999999982110       0001123788999999988864

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=98.58  E-value=2.7e-07  Score=65.84  Aligned_cols=97  Identities=13%  Similarity=0.016  Sum_probs=61.7

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++...++.+|.+++|+|..++.+-  ....+..+...  ..+.|+++|+||+|+.+..  .... .....+...   
T Consensus        61 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~--~~~~-~~~~~~~~~---  134 (164)
T cd04139          61 YAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKR--QVSS-EEAANLARQ---  134 (164)
T ss_pred             hhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEcccccccc--ccCH-HHHHHHHHH---
Confidence            445556788899999999998765321  11222222221  1369999999999997621  0000 111122221   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       .+.+++.+||+++                 .|+++|.+.|.+.+
T Consensus       135 -~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~  161 (164)
T cd04139         135 -WGVPYVETSAKTR-----------------QNVEKAFYDLVREI  161 (164)
T ss_pred             -hCCeEEEeeCCCC-----------------CCHHHHHHHHHHHH
Confidence             2467899999999                 99999999987655

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

>cd04175 Rap1 Rap1 subgroup

Probab=98.58  E-value=1.7e-07  Score=67.34  Aligned_cols=97  Identities=8%  Similarity=-0.012  Sum_probs=60.7

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++...+..+|.+++|+|..++.+-.+ ..+...+..   ..+.|+++|.||+|+.+..  .... .....+.+.   
T Consensus        62 ~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~---  135 (164)
T cd04175          62 FTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDER--VVGK-EQGQNLARQ---  135 (164)
T ss_pred             chhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhcc--EEcH-HHHHHHHHH---
Confidence            34444557789999999999876532111 122222221   1468999999999997531  0000 111222222   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       .+.+++.+||+++                 .|++++...|.+.+
T Consensus       136 -~~~~~~~~Sa~~~-----------------~~v~~~~~~l~~~l  162 (164)
T cd04175         136 -WGCAFLETSAKAK-----------------INVNEIFYDLVRQI  162 (164)
T ss_pred             -hCCEEEEeeCCCC-----------------CCHHHHHHHHHHHh
Confidence             2467899999999                 99999999987644

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>cd04132 Rho4_like Rho4-like subfamily

Probab=98.57  E-value=3.6e-07  Score=67.20  Aligned_cols=101  Identities=12%  Similarity=-0.018  Sum_probs=61.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcH--HHHHHHhCC-CCCcEEEEeecCCCCCcccccccH-HHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCK--VAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSM-AQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~--~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~-~~~~~~~~~~~~~   89 (161)
                      +..++...++.||++++|+|.+++.+-.+.  .+...+... .+.|+++|.||+|+.+........ .+....+...+  
T Consensus        62 ~~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~--  139 (187)
T cd04132          62 YDRLRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHFCPGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQ--  139 (187)
T ss_pred             HHHHHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHc--
Confidence            445555678899999999999876432211  122222211 368999999999986531000000 01122222222  


Q ss_pred             CCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 QSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 ~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                        +. +.+.+||+++                 .|++++.+.+.+.+.
T Consensus       140 --~~~~~~e~Sa~~~-----------------~~v~~~f~~l~~~~~  167 (187)
T cd04132         140 --GAFAYLECSAKTM-----------------ENVEEVFDTAIEEAL  167 (187)
T ss_pred             --CCcEEEEccCCCC-----------------CCHHHHHHHHHHHHH
Confidence              33 6789999998                 899999998877653

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.

>cd04121 Rab40 Rab40 subfamily

Probab=98.57  E-value=2.5e-07  Score=69.05  Aligned_cols=100  Identities=14%  Similarity=-0.006  Sum_probs=66.4

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +.++.++......||.+|+|.|.+++.+-.. ..+.+.+... .+.|+|+|.||.||....  ... .+....|.+.   
T Consensus        66 ~~~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~~~~piilVGNK~DL~~~~--~v~-~~~~~~~a~~---  139 (189)
T cd04121          66 GRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAFKR--QVA-TEQAQAYAER---  139 (189)
T ss_pred             HHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccchhcc--CCC-HHHHHHHHHH---
Confidence            3466676677799999999999988754221 2233333321 478999999999996431  001 1223333332   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                       .+.+.+.+||+++                 .|++++.+.|.+.+.
T Consensus       140 -~~~~~~e~SAk~g-----------------~~V~~~F~~l~~~i~  167 (189)
T cd04121         140 -NGMTFFEVSPLCN-----------------FNITESFTELARIVL  167 (189)
T ss_pred             -cCCEEEEecCCCC-----------------CCHHHHHHHHHHHHH
Confidence             3567899999999                 999999998876543

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

>cd04123 Rab21 Rab21 subfamily

Probab=98.57  E-value=2.8e-07  Score=65.51  Aligned_cols=96  Identities=20%  Similarity=0.050  Sum_probs=59.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+..+|.+++|+|.+++..-.. ..+...+...  .+.|+++|+||+|+....  .... +........    
T Consensus        62 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~--~~~~-~~~~~~~~~----  134 (162)
T cd04123          62 YHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQR--VVSK-SEAEEYAKS----  134 (162)
T ss_pred             HHHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc--CCCH-HHHHHHHHH----
Confidence            44455556789999999999877642111 1122222221  268999999999987531  0000 111222111    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .+.+.+.+||+++                 .|++++.+.|.+.
T Consensus       135 ~~~~~~~~s~~~~-----------------~gi~~~~~~l~~~  160 (162)
T cd04123         135 VGAKHFETSAKTG-----------------KGIEELFLSLAKR  160 (162)
T ss_pred             cCCEEEEEeCCCC-----------------CCHHHHHHHHHHH
Confidence            2566889999998                 8999999998654

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

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.56  E-value=1.2e-06  Score=62.32  Aligned_cols=89  Identities=18%  Similarity=0.125  Sum_probs=59.5

Q ss_pred             hhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc-cCCCCceeEEeec
Q psy8220          23 EAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS-IQSIYSSPRFSSR  101 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~iSa~  101 (161)
                      +.++.+++|+|...+.......+.+++.. .+.|+++|+||+|+.+...    ...........+. .....+++++||+
T Consensus        80 ~~~~~~~~v~d~~~~~~~~~~~~~~~l~~-~~~~vi~v~nK~D~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~Sa~  154 (170)
T cd01876          80 ENLKGVVLLIDSRHGPTEIDLEMLDWLEE-LGIPFLVVLTKADKLKKSE----LAKALKEIKKELKLFEIDPPIILFSSL  154 (170)
T ss_pred             hhhhEEEEEEEcCcCCCHhHHHHHHHHHH-cCCCEEEEEEchhcCChHH----HHHHHHHHHHHHHhccCCCceEEEecC
Confidence            45788999999987765555566666665 5789999999999975410    0000111111111 0124568899999


Q ss_pred             CCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220         102 SQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ++                 .|++++.+.|.++
T Consensus       155 ~~-----------------~~~~~l~~~l~~~  169 (170)
T cd01876         155 KG-----------------QGIDELRALIEKW  169 (170)
T ss_pred             CC-----------------CCHHHHHHHHHHh
Confidence            98                 8999999998765

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.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=98.56  E-value=3.3e-07  Score=66.95  Aligned_cols=98  Identities=12%  Similarity=-0.030  Sum_probs=63.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      ++.++...+..+|.+++|+|.+++.+-.. ..+...+..   ..+.|+++|.||+|+....  .... +....+.+.   
T Consensus        63 ~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~--~v~~-~~~~~~a~~---  136 (172)
T cd04141          63 FTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQR--QVTT-EEGRNLARE---  136 (172)
T ss_pred             hHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcC--ccCH-HHHHHHHHH---
Confidence            55566677889999999999987754222 122222222   1468999999999986431  0010 111222222   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                       .+.+.+.+||+++                 .|++++.+.|...+.
T Consensus       137 -~~~~~~e~Sa~~~-----------------~~v~~~f~~l~~~~~  164 (172)
T cd04141         137 -FNCPFFETSAALR-----------------HYIDDAFHGLVREIR  164 (172)
T ss_pred             -hCCEEEEEecCCC-----------------CCHHHHHHHHHHHHH
Confidence             2567889999999                 899999998876543

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=98.55  E-value=4.4e-07  Score=66.18  Aligned_cols=101  Identities=17%  Similarity=0.034  Sum_probs=61.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCC-CcHHHHHHH-hCC-C-CCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGT-RCKVAEDLV-VGT-P-GKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~-~~~~i~~~l-~~~-~-~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++...+..||++++|.|++++.+. ....+...+ ... . ..|+++|.||+|+.+.. +.....+....+...   
T Consensus        62 ~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~-~~~~~~~~~~~~~~~---  137 (170)
T cd04108          62 FKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPA-QYALMEQDAIKLAAE---  137 (170)
T ss_pred             HHhhHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccc-cccccHHHHHHHHHH---
Confidence            455556678899999999999774221 112233222 221 1 35689999999986541 000000111222222   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                       .+.+.+.+||+++                 .|+++|.+.|.+.+.+
T Consensus       138 -~~~~~~e~Sa~~g-----------------~~v~~lf~~l~~~~~~  166 (170)
T cd04108         138 -MQAEYWSVSALSG-----------------ENVREFFFRVAALTFE  166 (170)
T ss_pred             -cCCeEEEEECCCC-----------------CCHHHHHHHHHHHHHH
Confidence             2456788999998                 9999999998877643

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

>cd04176 Rap2 Rap2 subgroup

Probab=98.55  E-value=1.3e-07  Score=67.91  Aligned_cols=95  Identities=13%  Similarity=-0.004  Sum_probs=58.6

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ..++...+..||.+++|.|..++.+-.+ ..+...+...   .+.|+++|.||+|+.+..  .... .....+...    
T Consensus        63 ~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~--~~~~-~~~~~~~~~----  135 (163)
T cd04176          63 ASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESER--EVSS-AEGRALAEE----  135 (163)
T ss_pred             cchHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcC--ccCH-HHHHHHHHH----
Confidence            3444556789999999999987642111 2222222221   368999999999986531  0010 111111111    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .+.+++++||+++                 .|++++.+.|.+.
T Consensus       136 ~~~~~~~~Sa~~~-----------------~~v~~l~~~l~~~  161 (163)
T cd04176         136 WGCPFMETSAKSK-----------------TMVNELFAEIVRQ  161 (163)
T ss_pred             hCCEEEEecCCCC-----------------CCHHHHHHHHHHh
Confidence            2457889999998                 8999998887653

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

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=98.55  E-value=1e-06  Score=76.91  Aligned_cols=94  Identities=14%  Similarity=0.106  Sum_probs=57.0

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      .|.|.  .|...+ ...+..+|++|+|+|+..+...++.+....+.....+++|+|+||+|+.+..  ...+.+......
T Consensus       111 tPG~~--~f~~~~-~~~~~~aD~~llVvda~~g~~~~t~e~~~~~~~~~~~~iivvvNK~D~~~~~--~~~~~~i~~~i~  185 (632)
T PRK05506        111 TPGHE--QYTRNM-VTGASTADLAIILVDARKGVLTQTRRHSFIASLLGIRHVVLAVNKMDLVDYD--QEVFDEIVADYR  185 (632)
T ss_pred             CCChH--HHHHHH-HHHHHhCCEEEEEEECCCCccccCHHHHHHHHHhCCCeEEEEEEecccccch--hHHHHHHHHHHH
Confidence            36653  355555 5688999999999999988776665555444431236788999999997521  001111111111


Q ss_pred             hhhcc--CCCCceeEEeecCC
Q psy8220          85 PYNSI--QSIYSSPRFSSRSQ  103 (161)
Q Consensus        85 ~~~~~--~~~~~~i~iSa~~~  103 (161)
                      +.+..  ....+++++||.++
T Consensus       186 ~~~~~~~~~~~~iipiSA~~g  206 (632)
T PRK05506        186 AFAAKLGLHDVTFIPISALKG  206 (632)
T ss_pred             HHHHHcCCCCccEEEEecccC
Confidence            11111  01346899999998

>cd04118 Rab24 Rab24 subfamily

Probab=98.53  E-value=3.9e-07  Score=67.39  Aligned_cols=100  Identities=11%  Similarity=-0.013  Sum_probs=61.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHH-HHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMA-QIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~-~~~~~~~~~~~~~   90 (161)
                      +..++...+..+|++++|+|++++.+-.. ..+.+.+... .+.|+++|.||+|+.+......... .....+...    
T Consensus        63 ~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~----  138 (193)
T cd04118          63 YEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADE----  138 (193)
T ss_pred             hhhhhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcCCCCCEEEEEEcccccccccccCccCHHHHHHHHHH----
Confidence            34444456779999999999987632211 2233334331 3689999999999865310000100 111222211    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+
T Consensus       139 ~~~~~~~~Sa~~~-----------------~gv~~l~~~i~~~~  165 (193)
T cd04118         139 IKAQHFETSSKTG-----------------QNVDELFQKVAEDF  165 (193)
T ss_pred             cCCeEEEEeCCCC-----------------CCHHHHHHHHHHHH
Confidence            2456789999999                 89999999998765

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

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=98.53  E-value=2.7e-07  Score=79.79  Aligned_cols=85  Identities=16%  Similarity=0.058  Sum_probs=57.0

Q ss_pred             hhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeec
Q psy8220          22 VEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSR  101 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~  101 (161)
                      .+.+|++++|+|+++..  .+..+...+.+ .++|+++|+||+|+.++.  ..+  ...+    .+.+..+.|++++||+
T Consensus        70 ~~~aDvvI~VvDat~le--r~l~l~~ql~~-~~~PiIIVlNK~Dl~~~~--~i~--~d~~----~L~~~lg~pvv~tSA~  138 (591)
T TIGR00437        70 NEKPDLVVNVVDASNLE--RNLYLTLQLLE-LGIPMILALNLVDEAEKK--GIR--IDEE----KLEERLGVPVVPTSAT  138 (591)
T ss_pred             hcCCCEEEEEecCCcch--hhHHHHHHHHh-cCCCEEEEEehhHHHHhC--CCh--hhHH----HHHHHcCCCEEEEECC
Confidence            35799999999998642  22333333444 589999999999986531  000  1112    2222236789999999


Q ss_pred             CCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220         102 SQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ++                 .|+++|.+.+.+.+
T Consensus       139 tg-----------------~Gi~eL~~~i~~~~  154 (591)
T TIGR00437       139 EG-----------------RGIERLKDAIRKAI  154 (591)
T ss_pred             CC-----------------CCHHHHHHHHHHHh
Confidence            99                 89999998887653

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.

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

Probab=98.53  E-value=3.4e-07  Score=66.34  Aligned_cols=100  Identities=12%  Similarity=-0.006  Sum_probs=60.0

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCccccccc--------H-HHHHHH
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGS--------M-AQIFQT   82 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~--------~-~~~~~~   82 (161)
                      ..++...++.+|++|+|.|.+++.+-..  ..+...+... .+.|+++|.||+|+.+.......        . .+....
T Consensus        60 ~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~  139 (174)
T smart00174       60 DRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEA  139 (174)
T ss_pred             chhchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHH
Confidence            3444456789999999999987632211  1233333321 47999999999999753100000        0 000111


Q ss_pred             HhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          83 WIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        83 ~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +...+   ...+.+.+||+++                 .|+++|.+.+.+.+
T Consensus       140 ~~~~~---~~~~~~e~Sa~~~-----------------~~v~~lf~~l~~~~  171 (174)
T smart00174      140 LAKRI---GAVKYLECSALTQ-----------------EGVREVFEEAIRAA  171 (174)
T ss_pred             HHHHc---CCcEEEEecCCCC-----------------CCHHHHHHHHHHHh
Confidence            22221   1236789999999                 99999999887654

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

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=98.52  E-value=1.6e-06  Score=72.71  Aligned_cols=95  Identities=16%  Similarity=0.105  Sum_probs=56.7

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCC-------CCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccH
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMG-------TRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSM   76 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~-------~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~   76 (161)
                      .|.|.  .|..++ ...+..+|++++|+|+..+..       .+..+...++.. .+.| +|+++||+|.....+....+
T Consensus        92 tPGh~--~f~~~~-~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~-~gi~~iiv~vNKmD~~~~~~~~~~~  167 (446)
T PTZ00141         92 APGHR--DFIKNM-ITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFT-LGVKQMIVCINKMDDKTVNYSQERY  167 (446)
T ss_pred             CCChH--HHHHHH-HHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHH-cCCCeEEEEEEccccccchhhHHHH
Confidence            36655  478888 688999999999999998752       334444444443 4666 57899999943210001112


Q ss_pred             HHHHHHHhhhhccC----CCCceeEEeecCC
Q psy8220          77 AQIFQTWIPYNSIQ----SIYSSPRFSSRSQ  103 (161)
Q Consensus        77 ~~~~~~~~~~~~~~----~~~~~i~iSa~~~  103 (161)
                      .+........+...    ...|++++||.++
T Consensus       168 ~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g  198 (446)
T PTZ00141        168 DEIKKEVSAYLKKVGYNPEKVPFIPISGWQG  198 (446)
T ss_pred             HHHHHHHHHHHHhcCCCcccceEEEeecccC
Confidence            12222222222210    1367899999998

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=98.52  E-value=3.2e-07  Score=66.51  Aligned_cols=102  Identities=17%  Similarity=0.118  Sum_probs=60.3

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHH--hhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTW--IPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~--~~~~~~   89 (161)
                      ++.+|...+..||.+++|+|++++..-  ....+.+++....+.|+++|.||+|+....    .. +.+...  ...+..
T Consensus        57 ~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~i~~~~~~~~~~~  131 (164)
T cd04162          57 LRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHPPDLPLVVLANKQDLPAAR----SV-QEIHKELELEPIAR  131 (164)
T ss_pred             hhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCCCCCcEEEEEeCcCCcCCC----CH-HHHHHHhCChhhcC
Confidence            456667789999999999999876421  112233333221479999999999986541    11 111111  122221


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHH
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLG  131 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~  131 (161)
                      ..+.+++..||++.           -|+....|+.++.+.+.
T Consensus       132 ~~~~~~~~~Sa~~~-----------~s~~~~~~v~~~~~~~~  162 (164)
T cd04162         132 GRRWILQGTSLDDD-----------GSPSRMEAVKDLLSQLI  162 (164)
T ss_pred             CCceEEEEeeecCC-----------CChhHHHHHHHHHHHHh
Confidence            12455677888874           12333488888877764

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.

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=98.52  E-value=9e-07  Score=76.48  Aligned_cols=53  Identities=15%  Similarity=0.195  Sum_probs=41.4

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPS   68 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~   68 (161)
                      ..++......+|++++|+|++++...+..+...++.. .+.|+++|+||+|+.+
T Consensus        83 ~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l~~-~~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        83 TNLRKRGGALADLAILIVDINEGFKPQTQEALNILRM-YKTPFVVAANKIDRIP  135 (590)
T ss_pred             HHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHHHH-cCCCEEEEEECCCccc
Confidence            3444567789999999999998766666665666655 5899999999999974

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.

>cd04125 RabA_like RabA-like subfamily

Probab=98.51  E-value=5.1e-07  Score=66.61  Aligned_cols=98  Identities=18%  Similarity=0.081  Sum_probs=61.7

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...++.+|.+++|+|++++.+-.. ..+...+...  ...|+++|.||+|+.+..  .... +....+...    
T Consensus        62 ~~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~--~v~~-~~~~~~~~~----  134 (188)
T cd04125          62 FRSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNK--VVDS-NIAKSFCDS----  134 (188)
T ss_pred             HHhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccc--cCCH-HHHHHHHHH----
Confidence            44455678899999999999987632111 1122222221  357899999999987431  0000 111222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+.+.+||+++                 .|++++.+.|.+.+.
T Consensus       135 ~~~~~~evSa~~~-----------------~~i~~~f~~l~~~~~  162 (188)
T cd04125         135 LNIPFFETSAKQS-----------------INVEEAFILLVKLII  162 (188)
T ss_pred             cCCeEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            2457899999998                 899999988876654

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.

>cd04143 Rhes_like Rhes_like subfamily

Probab=98.51  E-value=1.1e-06  Score=68.26  Aligned_cols=115  Identities=12%  Similarity=0.055  Sum_probs=68.3

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhC----------C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh
Q psy8220          19 RSVVEAADVILEVVDARDPMGTR-CKVAEDLVVG----------T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~----------~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~   86 (161)
                      ...+..+|++|+|+|..++.+-. ...+.+.+..          . .+.|+|+|.||+|+....  .... +.+..   .
T Consensus        66 ~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~--~v~~-~ei~~---~  139 (247)
T cd04143          66 RLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPR--EVQR-DEVEQ---L  139 (247)
T ss_pred             HHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhcc--ccCH-HHHHH---H
Confidence            34567899999999998753211 1122222211          0 368999999999997521  0011 11222   2


Q ss_pred             hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC---CCCceEEEEE-eecCCCcc
Q psy8220          87 NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD---IKTSITVGVV-GECNIAGS  156 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~---~~~~~~v~vv-G~pNVGKS  156 (161)
                      +......+.+.+||+++                 .|+++|.+.|.+.+....   .....++.++ |-|.-+||
T Consensus       140 ~~~~~~~~~~evSAktg-----------------~gI~elf~~L~~~~~~p~e~~~~~~~~~~~~~~~~~~~~~  196 (247)
T cd04143         140 VGGDENCAYFEVSAKKN-----------------SNLDEMFRALFSLAKLPNEMSPSLHRKISVQYGDALHKKS  196 (247)
T ss_pred             HHhcCCCEEEEEeCCCC-----------------CCHHHHHHHHHHHhccccccCccccceeeeeecccccccc
Confidence            22112456899999998                 999999999988763221   1223455553 66666665

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=98.51  E-value=1e-06  Score=65.87  Aligned_cols=100  Identities=13%  Similarity=0.043  Sum_probs=62.7

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-----HHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-----KVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-----~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      .++.++...+..||.+++|+|.+++.+-..     ..+...+..  ..+.|+++|.||+|+.+..  ... .+....+..
T Consensus        62 ~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~-~~~~~~~~~  138 (201)
T cd04107          62 RFGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRL--AKD-GEQMDQFCK  138 (201)
T ss_pred             hhhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCccccc--ccC-HHHHHHHHH
Confidence            355566677899999999999987643111     111111111  0357999999999997321  000 122233332


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ..   ...+.+.+||+++                 .|++++.+.|.+.+.
T Consensus       139 ~~---~~~~~~e~Sak~~-----------------~~v~e~f~~l~~~l~  168 (201)
T cd04107         139 EN---GFIGWFETSAKEG-----------------INIEEAMRFLVKNIL  168 (201)
T ss_pred             Hc---CCceEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            21   1246889999998                 899999999887653

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.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=98.51  E-value=7.3e-07  Score=71.46  Aligned_cols=94  Identities=16%  Similarity=0.149  Sum_probs=60.1

Q ss_pred             HHHhhhccEEEEEEeCCCCCCC----CcHHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          19 RSVVEAADVILEVVDARDPMGT----RCKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~----~~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .+.++++-++++|+|.+.....    ....+...+..-    .++|.++|+||+|+....       +..+...+++.+.
T Consensus       232 LrHIERt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~-------e~~~~~~~~l~~~  304 (369)
T COG0536         232 LRHIERTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDE-------EELEELKKALAEA  304 (369)
T ss_pred             HHHHHhhheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCH-------HHHHHHHHHHHHh
Confidence            3556789999999998744321    112233333221    479999999999965431       3344444454422


Q ss_pred             CCCc-eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYS-SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~-~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+ ..++||.++                 .|+++|.+.+.+++..
T Consensus       305 ~~~~~~~~ISa~t~-----------------~g~~~L~~~~~~~l~~  334 (369)
T COG0536         305 LGWEVFYLISALTR-----------------EGLDELLRALAELLEE  334 (369)
T ss_pred             cCCCcceeeehhcc-----------------cCHHHHHHHHHHHHHH
Confidence            2333 233999998                 8999999998887654

>cd04113 Rab4 Rab4 subfamily

Probab=98.51  E-value=4.4e-07  Score=64.94  Aligned_cols=95  Identities=14%  Similarity=0.023  Sum_probs=60.5

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+..+|.+++|+|++++.+-.. ..+...+...  .+.|+++|.||+|+.+..  .... +....+...    
T Consensus        62 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~--~~~~-~~~~~~~~~----  134 (161)
T cd04113          62 FRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQR--EVTF-LEASRFAQE----  134 (161)
T ss_pred             HHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhc--cCCH-HHHHHHHHH----
Confidence            44555677889999999999987643211 1222222211  478999999999997531  0000 111222221    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .+.+.+.+||+++                 .|++++.+.+.+
T Consensus       135 ~~~~~~~~Sa~~~-----------------~~i~~~~~~~~~  159 (161)
T cd04113         135 NGLLFLETSALTG-----------------ENVEEAFLKCAR  159 (161)
T ss_pred             cCCEEEEEECCCC-----------------CCHHHHHHHHHH
Confidence            3467899999998                 999999888754

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

>cd04111 Rab39 Rab39 subfamily

Probab=98.51  E-value=4.1e-07  Score=68.83  Aligned_cols=100  Identities=14%  Similarity=-0.011  Sum_probs=62.6

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      .+..++...+..+|.+++|+|.+++.+-.+ ..+...+...   ...|+++|.||+|+.+..  .... +....+.+.  
T Consensus        64 ~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~--~v~~-~~~~~~~~~--  138 (211)
T cd04111          64 RFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQR--QVTR-EEAEKLAKD--  138 (211)
T ss_pred             hHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcccccccc--ccCH-HHHHHHHHH--
Confidence            355665677899999999999987642111 1222222211   246788999999997531  0000 112222222  


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                        .+.+.+.+||+++                 .|++++.+.|.+.+..
T Consensus       139 --~~~~~~e~Sak~g-----------------~~v~e~f~~l~~~~~~  167 (211)
T cd04111         139 --LGMKYIETSARTG-----------------DNVEEAFELLTQEIYE  167 (211)
T ss_pred             --hCCEEEEEeCCCC-----------------CCHHHHHHHHHHHHHH
Confidence              2467899999998                 8999999999876543

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.

>PLN03110 Rab GTPase; Provisional

Probab=98.51  E-value=5e-07  Score=68.57  Aligned_cols=99  Identities=12%  Similarity=-0.103  Sum_probs=63.2

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+..++...+..+|.+|+|+|.+++.+-.. ..+...+...  .+.|+++|.||+|+....  .... +....+..    
T Consensus        73 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~--~~~~-~~~~~l~~----  145 (216)
T PLN03110         73 RYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLR--SVAE-EDGQALAE----  145 (216)
T ss_pred             HHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhccccc--CCCH-HHHHHHHH----
Confidence            345565677899999999999987643211 1222223221  368999999999986431  0000 11122211    


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ..+.+++.+||+++                 .|++++.+.|.+.+.
T Consensus       146 ~~~~~~~e~SA~~g-----------------~~v~~lf~~l~~~i~  174 (216)
T PLN03110        146 KEGLSFLETSALEA-----------------TNVEKAFQTILLEIY  174 (216)
T ss_pred             HcCCEEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            13578899999999                 899999998876553

>cd00876 Ras Ras family

Probab=98.50  E-value=5.7e-07  Score=63.80  Aligned_cols=96  Identities=13%  Similarity=0.054  Sum_probs=59.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++...++.+|++++|+|..++....+ ..+...+...   .+.|+++|+||+|+.+..  .... +....   ... 
T Consensus        60 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~--~~~~-~~~~~---~~~-  132 (160)
T cd00876          60 FSAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENER--QVSK-EEGKA---LAK-  132 (160)
T ss_pred             HHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccc--eecH-HHHHH---HHH-
Confidence            44445677889999999999877542111 1122222211   369999999999987631  0000 11111   111 


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ..+.+.+.+||+++                 .|++++.+.|.+.
T Consensus       133 ~~~~~~~~~S~~~~-----------------~~i~~l~~~l~~~  159 (160)
T cd00876         133 EWGCPFIETSAKDN-----------------INIDEVFKLLVRE  159 (160)
T ss_pred             HcCCcEEEeccCCC-----------------CCHHHHHHHHHhh
Confidence            12467899999998                 8999999988653

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=98.50  E-value=5.1e-07  Score=66.16  Aligned_cols=99  Identities=12%  Similarity=-0.053  Sum_probs=59.5

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccccc---------cHHHHHH
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSG---------SMAQIFQ   81 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~---------~~~~~~~   81 (161)
                      +..++...+..+|++|+|.|.+++.+-..  ..+...+... .+.|+++|.||+|+.+......         -..+...
T Consensus        62 ~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~  141 (174)
T cd01871          62 YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGL  141 (174)
T ss_pred             hhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHH
Confidence            44555567889999999999987643222  1233323321 3689999999999964310000         0001111


Q ss_pred             HHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          82 TWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        82 ~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .+...+.   ..+.+.+||+++                 .|++++.+.+.+
T Consensus       142 ~~~~~~~---~~~~~e~Sa~~~-----------------~~i~~~f~~l~~  172 (174)
T cd01871         142 AMAKEIG---AVKYLECSALTQ-----------------KGLKTVFDEAIR  172 (174)
T ss_pred             HHHHHcC---CcEEEEeccccc-----------------CCHHHHHHHHHH
Confidence            1222211   236789999999                 999999888754

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

>cd04140 ARHI_like ARHI subfamily

Probab=98.50  E-value=4.1e-07  Score=65.67  Aligned_cols=94  Identities=13%  Similarity=0.057  Sum_probs=58.6

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .++...+..+|.+++|.|.+++.+-.. ..+.+.+...     .+.|+++|.||+|+.+..  ... .+....+...   
T Consensus        64 ~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~--~v~-~~~~~~~~~~---  137 (165)
T cd04140          64 AMQRLSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKR--EVS-SNEGAACATE---  137 (165)
T ss_pred             HHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccC--eec-HHHHHHHHHH---
Confidence            343456789999999999987643211 2222223220     358999999999996531  000 0111112111   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                       ...+.+.+||+++                 .|++++.+.|.++
T Consensus       138 -~~~~~~e~SA~~g-----------------~~v~~~f~~l~~~  163 (165)
T cd04140         138 -WNCAFMETSAKTN-----------------HNVQELFQELLNL  163 (165)
T ss_pred             -hCCcEEEeecCCC-----------------CCHHHHHHHHHhc
Confidence             2456789999999                 9999999998765

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

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

Probab=98.50  E-value=1.2e-06  Score=73.70  Aligned_cols=106  Identities=19%  Similarity=0.170  Sum_probs=70.2

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      +|.|.-=..|+.   +=.+-+|++++|+|+.++.-.+..+..++++. .+.|+++++||+|..+.+...  ....+..+ 
T Consensus        62 TPGHeAFt~mRa---RGa~vtDIaILVVa~dDGv~pQTiEAI~hak~-a~vP~iVAiNKiDk~~~np~~--v~~el~~~-  134 (509)
T COG0532          62 TPGHEAFTAMRA---RGASVTDIAILVVAADDGVMPQTIEAINHAKA-AGVPIVVAINKIDKPEANPDK--VKQELQEY-  134 (509)
T ss_pred             CCcHHHHHHHHh---cCCccccEEEEEEEccCCcchhHHHHHHHHHH-CCCCEEEEEecccCCCCCHHH--HHHHHHHc-
Confidence            466544332333   34467999999999999988877777787877 799999999999987652111  00001110 


Q ss_pred             hhhccC--CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          85 PYNSIQ--SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        85 ~~~~~~--~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ....+.  ....++++||+++                 .|+++|++.|.-.+
T Consensus       135 gl~~E~~gg~v~~VpvSA~tg-----------------~Gi~eLL~~ill~a  169 (509)
T COG0532         135 GLVPEEWGGDVIFVPVSAKTG-----------------EGIDELLELILLLA  169 (509)
T ss_pred             CCCHhhcCCceEEEEeeccCC-----------------CCHHHHHHHHHHHH
Confidence            000100  1235799999999                 99999999986443

>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=98.50  E-value=3.9e-07  Score=66.98  Aligned_cols=98  Identities=19%  Similarity=0.196  Sum_probs=63.0

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh--hh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP--YN   87 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~--~~   87 (161)
                      ++.+|......+|.++||+|++++..  +....+.+.+...  .+.|+++++||.|+.+.-    .. +.+.....  .+
T Consensus        71 ~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~----~~-~~i~~~l~l~~l  145 (175)
T PF00025_consen   71 FRPLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAM----SE-EEIKEYLGLEKL  145 (175)
T ss_dssp             GGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSS----TH-HHHHHHTTGGGT
T ss_pred             ccccceeeccccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCcc----hh-hHHHhhhhhhhc
Confidence            55677778889999999999987532  1112334444321  479999999999986541    00 22222221  22


Q ss_pred             ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          88 SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .......++..||.++                 .|+.+-+++|.+.
T Consensus       146 ~~~~~~~v~~~sa~~g-----------------~Gv~e~l~WL~~~  174 (175)
T PF00025_consen  146 KNKRPWSVFSCSAKTG-----------------EGVDEGLEWLIEQ  174 (175)
T ss_dssp             TSSSCEEEEEEBTTTT-----------------BTHHHHHHHHHHH
T ss_pred             ccCCceEEEeeeccCC-----------------cCHHHHHHHHHhc
Confidence            2112345778899998                 9999999998764

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 ....

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=98.49  E-value=1.2e-06  Score=75.81  Aligned_cols=101  Identities=15%  Similarity=0.105  Sum_probs=65.4

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      .|.|..  | ..++.+....+|++++|+|+.++...+..+...++.. .+.|+++++||+|+.....      +.+..+.
T Consensus       142 TPGhe~--F-~~~r~rga~~aDiaILVVda~dgv~~qT~e~i~~~~~-~~vPiIVviNKiDl~~~~~------e~v~~~L  211 (587)
T TIGR00487       142 TPGHEA--F-TSMRARGAKVTDIVVLVVAADDGVMPQTIEAISHAKA-ANVPIIVAINKIDKPEANP------DRVKQEL  211 (587)
T ss_pred             CCCCcc--h-hhHHHhhhccCCEEEEEEECCCCCCHhHHHHHHHHHH-cCCCEEEEEECcccccCCH------HHHHHHH
Confidence            366543  2 2333467889999999999988765555554554444 5799999999999864310      1122221


Q ss_pred             hhh---ccC--CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          85 PYN---SIQ--SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        85 ~~~---~~~--~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      ..+   ...  ...+++++||+++                 .|+++|++.|..
T Consensus       212 ~~~g~~~~~~~~~~~~v~iSAktG-----------------eGI~eLl~~I~~  247 (587)
T TIGR00487       212 SEYGLVPEDWGGDTIFVPVSALTG-----------------DGIDELLDMILL  247 (587)
T ss_pred             HHhhhhHHhcCCCceEEEEECCCC-----------------CChHHHHHhhhh
Confidence            111   000  1246899999999                 899999998854

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=98.48  E-value=1.3e-06  Score=77.55  Aligned_cols=93  Identities=16%  Similarity=0.152  Sum_probs=63.0

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh---hhccC--C
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP---YNSIQ--S   91 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~---~~~~~--~   91 (161)
                      ++...+..+|++|+|+|+.++...+..+...++.. .+.|+|+++||+|+....     . +.+...+.   .+.+.  .
T Consensus       353 m~~rga~~aDiaILVVdAddGv~~qT~e~i~~a~~-~~vPiIVviNKiDl~~a~-----~-e~V~~eL~~~~~~~e~~g~  425 (787)
T PRK05306        353 MRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKA-AGVPIIVAINKIDKPGAN-----P-DRVKQELSEYGLVPEEWGG  425 (787)
T ss_pred             HHHhhhhhCCEEEEEEECCCCCCHhHHHHHHHHHh-cCCcEEEEEECccccccC-----H-HHHHHHHHHhcccHHHhCC
Confidence            33567788999999999998766555555555544 589999999999996431     0 11111111   11100  1


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ..+++++||+++                 .|+++|++.|...
T Consensus       426 ~vp~vpvSAktG-----------------~GI~eLle~I~~~  450 (787)
T PRK05306        426 DTIFVPVSAKTG-----------------EGIDELLEAILLQ  450 (787)
T ss_pred             CceEEEEeCCCC-----------------CCchHHHHhhhhh
Confidence            357899999999                 8999999998643

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=98.48  E-value=9.6e-07  Score=69.47  Aligned_cols=61  Identities=13%  Similarity=0.108  Sum_probs=48.0

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      .|.|.  .|..+. ..++..+|++++|+|+..+...++..+.+.+.. .++|+++++||+|+...
T Consensus        71 TPG~~--df~~~~-~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~-~~~p~ivviNK~D~~~a  131 (270)
T cd01886          71 TPGHV--DFTIEV-ERSLRVLDGAVAVFDAVAGVEPQTETVWRQADR-YNVPRIAFVNKMDRTGA  131 (270)
T ss_pred             CCCcH--HHHHHH-HHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHH-cCCCEEEEEECCCCCCC
Confidence            35543  355555 789999999999999998877766777776665 68999999999998753

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

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=98.47  E-value=3e-06  Score=70.65  Aligned_cols=95  Identities=14%  Similarity=0.064  Sum_probs=51.7

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCC---CCCcHHHHHHHhCCCCCcEEEEeecCCCCCcc-cccccHHHHHH
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPM---GTRCKVAEDLVVGTPGKKLVIVINKAGKPSTK-IQSGSMAQIFQ   81 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~---~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~-~~~~~~~~~~~   81 (161)
                      |.|.  .|+..+ ...+..+|++++|+|++++.   ..+..+...+.......++|+|+||+|+.+.. .+.......+.
T Consensus        93 pGh~--~f~~~~-~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~~~~iIVviNK~Dl~~~~~~~~~~~~~ei~  169 (426)
T TIGR00483        93 PGHR--DFIKNM-ITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTLGINQLIVAINKMDSVNYDEEEFEAIKKEVS  169 (426)
T ss_pred             CCHH--HHHHHH-HhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHcCCCeEEEEEEChhccCccHHHHHHHHHHHH
Confidence            4443  355666 56778999999999999873   22222212222221235789999999997421 00000111122


Q ss_pred             HHhhhhcc-CCCCceeEEeecCC
Q psy8220          82 TWIPYNSI-QSIYSSPRFSSRSQ  103 (161)
Q Consensus        82 ~~~~~~~~-~~~~~~i~iSa~~~  103 (161)
                      .+.+.+.. ....+++++||+++
T Consensus       170 ~~~~~~g~~~~~~~~i~iSA~~g  192 (426)
T TIGR00483       170 NLIKKVGYNPDTVPFIPISAWNG  192 (426)
T ss_pred             HHHHHcCCCcccceEEEeecccc
Confidence            22222110 01256899999998

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.

>KOG1423|consensus

Probab=98.47  E-value=6.9e-07  Score=70.79  Aligned_cols=57  Identities=23%  Similarity=0.225  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      .+...- +.++..||+|+.|+|++++-....+.+...+..-...|-|+|+||+|..+.
T Consensus       144 s~lq~~-~~a~q~AD~vvVv~Das~tr~~l~p~vl~~l~~ys~ips~lvmnkid~~k~  200 (379)
T KOG1423|consen  144 SVLQNP-RDAAQNADCVVVVVDASATRTPLHPRVLHMLEEYSKIPSILVMNKIDKLKQ  200 (379)
T ss_pred             HhhhCH-HHHHhhCCEEEEEEeccCCcCccChHHHHHHHHHhcCCceeeccchhcchh
Confidence            334444 789999999999999987544455655554443136899999999997654

>PRK00007 elongation factor G; Reviewed

Probab=98.45  E-value=1e-06  Score=77.56  Aligned_cols=61  Identities=13%  Similarity=0.104  Sum_probs=51.7

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +|.|.  .|+.+. ..++..+|++++|+|+..++..++..+..++.. .++|+|+++||+|+.+.
T Consensus        82 TPG~~--~f~~ev-~~al~~~D~~vlVvda~~g~~~qt~~~~~~~~~-~~~p~iv~vNK~D~~~~  142 (693)
T PRK00007         82 TPGHV--DFTIEV-ERSLRVLDGAVAVFDAVGGVEPQSETVWRQADK-YKVPRIAFVNKMDRTGA  142 (693)
T ss_pred             CCCcH--HHHHHH-HHHHHHcCEEEEEEECCCCcchhhHHHHHHHHH-cCCCEEEEEECCCCCCC
Confidence            46653  467777 789999999999999999988888888887776 68999999999999865

>KOG0462|consensus

Probab=98.45  E-value=9.1e-07  Score=74.66  Aligned_cols=102  Identities=18%  Similarity=0.183  Sum_probs=69.2

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHH--hCCCCCcEEEEeecCCCCCcccccccHHHHHHH
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLV--VGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQT   82 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l--~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~   82 (161)
                      +|.|.=  |--|. .+.+..+|=+|+|+||.+++..+  .+.++.  .+ .+-.+|.|+||+|+....     . +.++.
T Consensus       132 TPGHvD--Fs~EV-sRslaac~G~lLvVDA~qGvqAQ--T~anf~lAfe-~~L~iIpVlNKIDlp~ad-----p-e~V~~  199 (650)
T KOG0462|consen  132 TPGHVD--FSGEV-SRSLAACDGALLVVDASQGVQAQ--TVANFYLAFE-AGLAIIPVLNKIDLPSAD-----P-ERVEN  199 (650)
T ss_pred             CCCccc--cccee-hehhhhcCceEEEEEcCcCchHH--HHHHHHHHHH-cCCeEEEeeeccCCCCCC-----H-HHHHH
Confidence            355432  34455 67888999999999999887543  333332  22 578999999999997652     1 22222


Q ss_pred             -HhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          83 -WIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        83 -~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                       ..+.|. ....+++.+||++|                 .|+++|+++|.+..|.
T Consensus       200 q~~~lF~-~~~~~~i~vSAK~G-----------------~~v~~lL~AII~rVPp  236 (650)
T KOG0462|consen  200 QLFELFD-IPPAEVIYVSAKTG-----------------LNVEELLEAIIRRVPP  236 (650)
T ss_pred             HHHHHhc-CCccceEEEEeccC-----------------ccHHHHHHHHHhhCCC
Confidence             222332 13446899999999                 8999999999887653

>cd04168 TetM_like Tet(M)-like subfamily

Probab=98.44  E-value=2.7e-06  Score=65.63  Aligned_cols=55  Identities=15%  Similarity=0.235  Sum_probs=43.7

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      |..+. ..++..+|.+++|+|+.++...+...+.+.+.. .+.|+++++||+|+...
T Consensus        77 f~~~~-~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~-~~~P~iivvNK~D~~~a  131 (237)
T cd04168          77 FIAEV-ERSLSVLDGAILVISAVEGVQAQTRILWRLLRK-LNIPTIIFVNKIDRAGA  131 (237)
T ss_pred             hHHHH-HHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHH-cCCCEEEEEECccccCC
Confidence            44455 688999999999999998876555666666655 68999999999998754

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.

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=98.43  E-value=5.1e-07  Score=65.52  Aligned_cols=91  Identities=13%  Similarity=0.020  Sum_probs=58.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      ...+..+|++++|+|.+++.+-.. ..+...+... .+.|+++|.||+|+....  . .  .....+.   . ....+.+
T Consensus        67 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~piiiv~nK~Dl~~~~--~-~--~~~~~~~---~-~~~~~~~  137 (166)
T cd00877          67 DGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCGNIPIVLCGNKVDIKDRK--V-K--AKQITFH---R-KKNLQYY  137 (166)
T ss_pred             HHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhccccc--C-C--HHHHHHH---H-HcCCEEE
Confidence            345678999999999987643211 1222333221 369999999999997431  0 0  1111111   1 1355689


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+||+++                 .|++++.+.|.+.+.
T Consensus       138 e~Sa~~~-----------------~~v~~~f~~l~~~~~  159 (166)
T cd00877         138 EISAKSN-----------------YNFEKPFLWLARKLL  159 (166)
T ss_pred             EEeCCCC-----------------CChHHHHHHHHHHHH
Confidence            9999999                 899999999987654

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

>PLN03118 Rab family protein; Provisional

Probab=98.43  E-value=1.1e-06  Score=66.20  Aligned_cols=98  Identities=15%  Similarity=-0.041  Sum_probs=60.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcH--HHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCK--VAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~--~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      +..++...+..+|.+|+|+|+.++.+-.+.  .+...+..   ..+.|+++|.||+|+....  .... +....+..  .
T Consensus        75 ~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~--~i~~-~~~~~~~~--~  149 (211)
T PLN03118         75 FRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESER--DVSR-EEGMALAK--E  149 (211)
T ss_pred             hHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccC--ccCH-HHHHHHHH--H
Confidence            444556778899999999999876432111  12122211   0357899999999997541  0000 11111111  1


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                        .+.+++.+||+++                 .|++++.+.|.+.+.
T Consensus       150 --~~~~~~e~SAk~~-----------------~~v~~l~~~l~~~~~  177 (211)
T PLN03118        150 --HGCLFLECSAKTR-----------------ENVEQCFEELALKIM  177 (211)
T ss_pred             --cCCEEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence              2456789999998                 899999999987664

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=98.43  E-value=2.2e-06  Score=71.85  Aligned_cols=70  Identities=17%  Similarity=0.261  Sum_probs=47.3

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      ...++.||++++|+|++++.+..+. +...+.. .++|+++|+||+|+.+.        + ...+...    .+.+++.+
T Consensus       277 ~~~~~~aD~il~V~D~s~~~s~~~~-~l~~~~~-~~~piIlV~NK~Dl~~~--------~-~~~~~~~----~~~~~~~v  341 (442)
T TIGR00450       277 FKAIKQADLVIYVLDASQPLTKDDF-LIIDLNK-SKKPFILVLNKIDLKIN--------S-LEFFVSS----KVLNSSNL  341 (442)
T ss_pred             HHHHhhCCEEEEEEECCCCCChhHH-HHHHHhh-CCCCEEEEEECccCCCc--------c-hhhhhhh----cCCceEEE
Confidence            5678899999999999887654333 3343433 47899999999999643        1 1111111    24567889


Q ss_pred             eecCC
Q psy8220          99 SSRSQ  103 (161)
Q Consensus        99 Sa~~~  103 (161)
                      ||+++
T Consensus       342 Sak~~  346 (442)
T TIGR00450       342 SAKQL  346 (442)
T ss_pred             EEecC
Confidence            99873

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.

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

Probab=98.41  E-value=1e-06  Score=66.32  Aligned_cols=97  Identities=12%  Similarity=0.014  Sum_probs=63.5

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .++.++...+..+|++++|+|.++..+-.. ..+...+... .+.|+++|.||+|+....  . .. +. ..+...    
T Consensus        56 ~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~~~--v-~~-~~-~~~~~~----  126 (200)
T smart00176       56 KFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCENIPIVLCGNKVDVKDRK--V-KA-KS-ITFHRK----  126 (200)
T ss_pred             hhhhhhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCEEEEEECccccccc--C-CH-HH-HHHHHH----
Confidence            355666678899999999999987643211 1233333321 368999999999985431  0 10 11 122111    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+.+.+||+++                 .|++++.+.|.+.+.
T Consensus       127 ~~~~~~e~SAk~~-----------------~~v~~~F~~l~~~i~  154 (200)
T smart00176      127 KNLQYYDISAKSN-----------------YNFEKPFLWLARKLI  154 (200)
T ss_pred             cCCEEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            3567889999999                 899999999886554

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

>cd04116 Rab9 Rab9 subfamily

Probab=98.40  E-value=2.8e-06  Score=61.33  Aligned_cols=96  Identities=14%  Similarity=0.123  Sum_probs=59.4

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHH-HHhC--C---CCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAED-LVVG--T---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~-~l~~--~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      .++.++...+..+|.+++|.|..++.+-.. ..+.. .+..  .   .+.|+++|.||+|+.+...   . .+....+.+
T Consensus        66 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~---~-~~~~~~~~~  141 (170)
T cd04116          66 RFRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPERQV---S-TEEAQAWCR  141 (170)
T ss_pred             HHHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccccccc---C-HHHHHHHHH
Confidence            345566677889999999999886642111 11222 2111  0   2579999999999864310   1 122233333


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .+   ...+.+.+||+++                 .|+.++.+.+.+
T Consensus       142 ~~---~~~~~~e~Sa~~~-----------------~~v~~~~~~~~~  168 (170)
T cd04116         142 EN---GDYPYFETSAKDA-----------------TNVAAAFEEAVR  168 (170)
T ss_pred             HC---CCCeEEEEECCCC-----------------CCHHHHHHHHHh
Confidence            22   1346889999998                 899999887754

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

>KOG1145|consensus

Probab=98.40  E-value=2.7e-06  Score=71.92  Aligned_cols=104  Identities=15%  Similarity=0.099  Sum_probs=72.4

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      +|.|+-=+.|+.   +=..-+|+|++|+-+.++.-.+..+.+.+.+. .+.|+++++||||-...+++     .......
T Consensus       208 TPGHaAF~aMRa---RGA~vtDIvVLVVAadDGVmpQT~EaIkhAk~-A~VpiVvAinKiDkp~a~pe-----kv~~eL~  278 (683)
T KOG1145|consen  208 TPGHAAFSAMRA---RGANVTDIVVLVVAADDGVMPQTLEAIKHAKS-ANVPIVVAINKIDKPGANPE-----KVKRELL  278 (683)
T ss_pred             CCcHHHHHHHHh---ccCccccEEEEEEEccCCccHhHHHHHHHHHh-cCCCEEEEEeccCCCCCCHH-----HHHHHHH
Confidence            588876555665   35567999999999999988777777777776 79999999999997654211     1111111


Q ss_pred             hh---hccC-CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          85 PY---NSIQ-SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        85 ~~---~~~~-~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+   .+.. ....+++|||+++                 .|++.|.+++.-.+
T Consensus       279 ~~gi~~E~~GGdVQvipiSAl~g-----------------~nl~~L~eaill~A  315 (683)
T KOG1145|consen  279 SQGIVVEDLGGDVQVIPISALTG-----------------ENLDLLEEAILLLA  315 (683)
T ss_pred             HcCccHHHcCCceeEEEeecccC-----------------CChHHHHHHHHHHH
Confidence            10   0101 1235899999999                 99999999986554

>cd04155 Arl3 Arl3 subfamily

Probab=98.40  E-value=1.8e-06  Score=62.48  Aligned_cols=96  Identities=14%  Similarity=0.153  Sum_probs=56.7

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc-c
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS-I   89 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~-~   89 (161)
                      ...|...++.+|.+++|+|+.++..-.  ...+...+...  .+.|+++++||+|+....    .. +.+........ .
T Consensus        72 ~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~----~~-~~i~~~l~~~~~~  146 (173)
T cd04155          72 RPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAA----PA-EEIAEALNLHDLR  146 (173)
T ss_pred             HHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCC----CH-HHHHHHcCCcccC
Confidence            344566788999999999998642211  11222222211  368999999999986541    01 11111111100 0


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      ....+++.+||+++                 .|++++.++|.+
T Consensus       147 ~~~~~~~~~Sa~~~-----------------~gi~~~~~~l~~  172 (173)
T cd04155         147 DRTWHIQACSAKTG-----------------EGLQEGMNWVCK  172 (173)
T ss_pred             CCeEEEEEeECCCC-----------------CCHHHHHHHHhc
Confidence            01224678999999                 999999988753

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.40  E-value=2.8e-06  Score=77.28  Aligned_cols=49  Identities=18%  Similarity=0.140  Sum_probs=39.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPS   68 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~   68 (161)
                      ......+|++++|+|+++++..+..+....+.. .+.|+++|+||+|+.+
T Consensus       544 ~~g~~~aDivlLVVDa~~Gi~~qT~e~I~~lk~-~~iPiIVViNKiDL~~  592 (1049)
T PRK14845        544 KRGGSLADLAVLVVDINEGFKPQTIEAINILRQ-YKTPFVVAANKIDLIP  592 (1049)
T ss_pred             HhhcccCCEEEEEEECcccCCHhHHHHHHHHHH-cCCCEEEEEECCCCcc
Confidence            345678999999999998776666666666665 5789999999999975

>cd01882 BMS1 Bms1

Probab=98.40  E-value=2.2e-06  Score=65.64  Aligned_cols=84  Identities=11%  Similarity=-0.017  Sum_probs=54.5

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEE-EEeecCCCCCcccccccHHHHHHHHhhhhc--cCC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLV-IVINKAGKPSTKIQSGSMAQIFQTWIPYNS--IQS   91 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~i-lVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~--~~~   91 (161)
                      ..+ .+.++.+|++++|+|++.+....+..+.+.+.. .+.|.+ +|+||+|+.++.   +.+.+........+.  ...
T Consensus        95 ~~~-l~~ak~aDvVllviDa~~~~~~~~~~i~~~l~~-~g~p~vi~VvnK~D~~~~~---~~~~~~~~~l~~~~~~~~~~  169 (225)
T cd01882          95 NAM-IDIAKVADLVLLLIDASFGFEMETFEFLNILQV-HGFPRVMGVLTHLDLFKKN---KTLRKTKKRLKHRFWTEVYQ  169 (225)
T ss_pred             HHH-HHHHHhcCEEEEEEecCcCCCHHHHHHHHHHHH-cCCCeEEEEEeccccCCcH---HHHHHHHHHHHHHHHHhhCC
Confidence            444 567899999999999998877777777777765 567854 599999997541   011111111111111  013


Q ss_pred             CCceeEEeecCC
Q psy8220          92 IYSSPRFSSRSQ  103 (161)
Q Consensus        92 ~~~~i~iSa~~~  103 (161)
                      +.+++++||++.
T Consensus       170 ~~ki~~iSa~~~  181 (225)
T cd01882         170 GAKLFYLSGIVH  181 (225)
T ss_pred             CCcEEEEeeccC
Confidence            567999999986

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.

>cd04148 RGK RGK subfamily

Probab=98.39  E-value=7.2e-07  Score=68.00  Aligned_cols=91  Identities=13%  Similarity=0.026  Sum_probs=58.3

Q ss_pred             Hhh-hccEEEEEEeCCCCCCCC-cHHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          21 VVE-AADVILEVVDARDPMGTR-CKVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        21 ~i~-~aDviL~VvD~~~~~~~~-~~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      .+. .+|++++|+|++++.+-. ...+...+...   .+.|+|+|.||+|+.+..  .... +....+...    .+.++
T Consensus        68 ~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~--~v~~-~~~~~~a~~----~~~~~  140 (221)
T cd04148          68 CMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSR--EVSV-QEGRACAVV----FDCKF  140 (221)
T ss_pred             HhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccc--eecH-HHHHHHHHH----cCCeE
Confidence            345 899999999998764321 12233333221   368999999999996541  0000 111122211    24578


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+||+++                 .|+++|.+.|.+.+.
T Consensus       141 ~e~SA~~~-----------------~gv~~l~~~l~~~~~  163 (221)
T cd04148         141 IETSAGLQ-----------------HNVDELLEGIVRQIR  163 (221)
T ss_pred             EEecCCCC-----------------CCHHHHHHHHHHHHH
Confidence            89999999                 899999999987764

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

>COG2229 Predicted GTPase [General function prediction only]

Probab=98.38  E-value=3.9e-06  Score=61.83  Aligned_cols=101  Identities=16%  Similarity=0.057  Sum_probs=71.5

Q ss_pred             CCCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCC-CcEEEEeecCCCCCcccccccHHHHHHH
Q psy8220           4 VKPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGKPSTKIQSGSMAQIFQT   82 (161)
Q Consensus         4 ~~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~~~~~~~~~~~~~~~~   82 (161)
                      ..|.|.+-.||.++   ..+.++-.++++|++.+.......+.+++.. .. .|+++++||.||.+.        ...+.
T Consensus        74 gtPGq~RF~fm~~~---l~~ga~gaivlVDss~~~~~~a~~ii~f~~~-~~~ip~vVa~NK~DL~~a--------~ppe~  141 (187)
T COG2229          74 GTPGQERFKFMWEI---LSRGAVGAIVLVDSSRPITFHAEEIIDFLTS-RNPIPVVVAINKQDLFDA--------LPPEK  141 (187)
T ss_pred             cCCCcHHHHHHHHH---HhCCcceEEEEEecCCCcchHHHHHHHHHhh-ccCCCEEEEeeccccCCC--------CCHHH
Confidence            46888887788777   5677999999999999987666778887765 44 899999999999764        11122


Q ss_pred             HhhhhccC-CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          83 WIPYNSIQ-SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        83 ~~~~~~~~-~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ..+++... ...|++..+|..+                 .|..+.++.+...
T Consensus       142 i~e~l~~~~~~~~vi~~~a~e~-----------------~~~~~~L~~ll~~  176 (187)
T COG2229         142 IREALKLELLSVPVIEIDATEG-----------------EGARDQLDVLLLK  176 (187)
T ss_pred             HHHHHHhccCCCceeeeecccc-----------------hhHHHHHHHHHhh
Confidence            22333211 2567899999877                 6766666665443

>cd01874 Cdc42 Cdc42 subfamily

Probab=98.38  E-value=1.3e-06  Score=64.03  Aligned_cols=99  Identities=9%  Similarity=-0.029  Sum_probs=59.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCccccc--------ccH-HHHHH
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQS--------GSM-AQIFQ   81 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~--------~~~-~~~~~   81 (161)
                      +..++...+..+|++++|.|.+++.+-..  ..+...+... .+.|+++|.||+|+.+...-.        ... .+...
T Consensus        62 ~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~  141 (175)
T cd01874          62 YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGE  141 (175)
T ss_pred             hhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHH
Confidence            34444457789999999999987643222  1233334321 468999999999986531000        000 00011


Q ss_pred             HHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          82 TWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        82 ~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .+...+   ...+++.+||+++                 .|++++.+.+.+
T Consensus       142 ~~a~~~---~~~~~~e~SA~tg-----------------~~v~~~f~~~~~  172 (175)
T cd01874         142 KLARDL---KAVKYVECSALTQ-----------------KGLKNVFDEAIL  172 (175)
T ss_pred             HHHHHh---CCcEEEEecCCCC-----------------CCHHHHHHHHHH
Confidence            111111   1246889999999                 899999888765

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

>PRK04004 translation initiation factor IF-2; Validated

Probab=98.37  E-value=4e-06  Score=72.56  Aligned_cols=53  Identities=17%  Similarity=0.215  Sum_probs=40.7

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPS   68 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~   68 (161)
                      ..++...+..+|++++|+|++++...+......++.. .+.|+++++||+|+.+
T Consensus        85 ~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~~-~~vpiIvviNK~D~~~  137 (586)
T PRK04004         85 TNLRKRGGALADIAILVVDINEGFQPQTIEAINILKR-RKTPFVVAANKIDRIP  137 (586)
T ss_pred             HHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHHHH-cCCCEEEEEECcCCch
Confidence            3444566788999999999998766555555566655 6899999999999863

>cd04126 Rab20 Rab20 subfamily

Probab=98.37  E-value=2.5e-06  Score=65.19  Aligned_cols=102  Identities=10%  Similarity=-0.009  Sum_probs=60.5

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcc-----------------cccc
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTK-----------------IQSG   74 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~-----------------~~~~   74 (161)
                      ..++...+..+|++|+|+|.+++.+-.+  ..+....... .+.|+|+|.||+||....                 .+..
T Consensus        58 ~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v  137 (220)
T cd04126          58 HGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQV  137 (220)
T ss_pred             hhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccC
Confidence            3344556789999999999987643211  1222222211 357999999999997510                 0011


Q ss_pred             cHHHHHHHHhhhhcc----------CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          75 SMAQIFQTWIPYNSI----------QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        75 ~~~~~~~~~~~~~~~----------~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .. +....|.+.+..          ....+.+.+||+++                 .|++++...+.+.+
T Consensus       138 ~~-~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg-----------------~~V~elf~~i~~~~  189 (220)
T cd04126         138 TL-EDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTG-----------------YNVDELFEYLFNLV  189 (220)
T ss_pred             CH-HHHHHHHHHhCccccccccccccccceEEEeeCCCC-----------------CCHHHHHHHHHHHH
Confidence            11 122333332210          00146789999999                 89999988887654

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

>PRK12739 elongation factor G; Reviewed

Probab=98.37  E-value=2.2e-06  Score=75.50  Aligned_cols=61  Identities=15%  Similarity=0.155  Sum_probs=50.6

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +|.|.  .|+.+. ..++..+|++++|+|+..+...++..+..++.. .++|.|+++||+|+.+.
T Consensus        80 TPG~~--~f~~e~-~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~-~~~p~iv~iNK~D~~~~  140 (691)
T PRK12739         80 TPGHV--DFTIEV-ERSLRVLDGAVAVFDAVSGVEPQSETVWRQADK-YGVPRIVFVNKMDRIGA  140 (691)
T ss_pred             CCCHH--HHHHHH-HHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHH-cCCCEEEEEECCCCCCC
Confidence            46653  467776 799999999999999999887777788777766 68999999999999865

>cd01875 RhoG RhoG subfamily

Probab=98.36  E-value=2.5e-06  Score=63.39  Aligned_cols=104  Identities=10%  Similarity=-0.056  Sum_probs=62.2

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcH--HHHHHHhCC-CCCcEEEEeecCCCCCccccccc---------HHHH
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCK--VAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGS---------MAQI   79 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~--~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~---------~~~~   79 (161)
                      +.++.++...+..||++|+|.|.+++.+-...  .+...+... .+.|+++|.||.||.+.......         ..+.
T Consensus        62 e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~  141 (191)
T cd01875          62 EEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQ  141 (191)
T ss_pred             hhhhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHH
Confidence            33555655677899999999999876532111  122223221 46899999999999643100000         0001


Q ss_pred             HHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          80 FQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        80 ~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ...+...+   ...+.+.+||+++                 .|++++.+.|.+.+.
T Consensus       142 ~~~~a~~~---~~~~~~e~SAk~g-----------------~~v~e~f~~l~~~~~  177 (191)
T cd01875         142 GGALAKQI---HAVKYLECSALNQ-----------------DGVKEVFAEAVRAVL  177 (191)
T ss_pred             HHHHHHHc---CCcEEEEeCCCCC-----------------CCHHHHHHHHHHHHh
Confidence            11111111   1246789999998                 899999999876553

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=98.36  E-value=1.1e-06  Score=63.34  Aligned_cols=92  Identities=14%  Similarity=-0.017  Sum_probs=56.7

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC----CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG----TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~----~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ...+..+|++++|+|+.++.+-.. ..+...+..    ..+.|+++|.||+|+....  .... +....+...    .+.
T Consensus        66 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~v~~-~~~~~~~~~----~~~  138 (165)
T cd04146          66 ERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYR--QVST-EEGEKLASE----LGC  138 (165)
T ss_pred             HHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhC--ccCH-HHHHHHHHH----cCC
Confidence            456788999999999987643211 122222221    1368999999999985431  0000 111222222    246


Q ss_pred             ceeEEeecCCCCcchhhhhhhhcccccc-CHHHHHHHHHhHh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCV-GAELLMLLLGNYT  134 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~-g~~~L~~~l~~~~  134 (161)
                      +.+.+||+++                 . |++++.+.|.+.+
T Consensus       139 ~~~e~Sa~~~-----------------~~~v~~~f~~l~~~~  163 (165)
T cd04146         139 LFFEVSAAED-----------------YDGVHSVFHELCREV  163 (165)
T ss_pred             EEEEeCCCCC-----------------chhHHHHHHHHHHHH
Confidence            7889999987                 4 8999988886543

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

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=98.35  E-value=2e-06  Score=59.17  Aligned_cols=89  Identities=18%  Similarity=0.045  Sum_probs=56.3

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHH-----HHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAE-----DLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~-----~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ...+..+|.+++|+|+..+....+....     ..... .+.|+++|+||+|+.+...    . ..... ..........
T Consensus        63 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ivv~nk~D~~~~~~----~-~~~~~-~~~~~~~~~~  135 (157)
T cd00882          63 RLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEG-ENIPIILVGNKIDLPEERV----V-SEEEL-AEQLAKELGV  135 (157)
T ss_pred             HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhcc-CCCcEEEEEeccccccccc----h-HHHHH-HHHHHhhcCC
Confidence            5677899999999999876543222111     11111 5799999999999976520    0 11000 1111111356


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHH
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLG  131 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~  131 (161)
                      +++.+|+..+                 .|+.++++.|.
T Consensus       136 ~~~~~s~~~~-----------------~~i~~~~~~l~  156 (157)
T cd00882         136 PYFETSAKTG-----------------ENVEELFEELA  156 (157)
T ss_pred             cEEEEecCCC-----------------CChHHHHHHHh
Confidence            7899999988                 89999988864

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=98.35  E-value=1e-06  Score=67.05  Aligned_cols=96  Identities=11%  Similarity=0.069  Sum_probs=61.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      +..++......+|.+|+|+|.+++.+-.. ..+.+.+... .+.|+++|.||+|+.....   . .+.+ .+..    ..
T Consensus        75 ~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~~~v---~-~~~~-~~~~----~~  145 (219)
T PLN03071         75 FGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIPIVLCGNKVDVKNRQV---K-AKQV-TFHR----KK  145 (219)
T ss_pred             hhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhhhhccC---C-HHHH-HHHH----hc
Confidence            44555556789999999999987643211 1222333321 4689999999999864310   0 0111 1111    13


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+.+.+||+++                 .|++++.+.|.+.+.
T Consensus       146 ~~~~~e~SAk~~-----------------~~i~~~f~~l~~~~~  172 (219)
T PLN03071        146 NLQYYEISAKSN-----------------YNFEKPFLYLARKLA  172 (219)
T ss_pred             CCEEEEcCCCCC-----------------CCHHHHHHHHHHHHH
Confidence            566789999999                 899999988876554

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=98.34  E-value=1.5e-06  Score=63.21  Aligned_cols=96  Identities=9%  Similarity=-0.020  Sum_probs=58.0

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCccc---------ccccHHHHHH
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKI---------QSGSMAQIFQ   81 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~---------~~~~~~~~~~   81 (161)
                      +..++...++.+|.+++|.|.+++.+-..  ..+...+... .+.|+++|.||+|+.+...         +..-..+...
T Consensus        61 ~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~  140 (173)
T cd04130          61 FDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAK  140 (173)
T ss_pred             hccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHH
Confidence            33444456789999999999987643221  2233334321 3689999999999965310         0000001112


Q ss_pred             HHhhhhccCCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHH
Q psy8220          82 TWIPYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLL  130 (161)
Q Consensus        82 ~~~~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l  130 (161)
                      .+.+.    .+. +++.+||+++                 .|+++|.+.+
T Consensus       141 ~~a~~----~~~~~~~e~Sa~~~-----------------~~v~~lf~~~  169 (173)
T cd04130         141 ALAEK----IGACEYIECSALTQ-----------------KNLKEVFDTA  169 (173)
T ss_pred             HHHHH----hCCCeEEEEeCCCC-----------------CCHHHHHHHH
Confidence            22221    233 6889999999                 8999998775

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,

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=98.34  E-value=2.4e-06  Score=62.34  Aligned_cols=99  Identities=13%  Similarity=-0.020  Sum_probs=60.7

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHH-HHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR-CKVA-EDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i-~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++......+|.+++|+|..+...-. ...+ ...+...  .+.|+++|.||+|+....  .... +........   
T Consensus        62 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~-~~~~~~~~~---  135 (180)
T cd04137          62 YSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQR--QVST-EEGKELAES---  135 (180)
T ss_pred             hHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcC--ccCH-HHHHHHHHH---
Confidence            4455566778999999999988643211 1111 2222210  367999999999986431  0000 111111111   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                       .+.+++.+||+++                 .|++++.+.|.+.+..
T Consensus       136 -~~~~~~~~Sa~~~-----------------~gv~~l~~~l~~~~~~  164 (180)
T cd04137         136 -WGAAFLESSAREN-----------------ENVEEAFELLIEEIEK  164 (180)
T ss_pred             -cCCeEEEEeCCCC-----------------CCHHHHHHHHHHHHHH
Confidence             2457889999998                 8999999999876643

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

>cd04134 Rho3 Rho3 subfamily

Probab=98.34  E-value=1.4e-06  Score=64.47  Aligned_cols=101  Identities=13%  Similarity=0.054  Sum_probs=60.9

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccccc--------cH-HHHHHH
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSG--------SM-AQIFQT   82 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~--------~~-~~~~~~   82 (161)
                      ..++...+..+|++++|.|.+++.+-..  ..+...+... .+.|+++|.||+|+........        .. .+....
T Consensus        62 ~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~  141 (189)
T cd04134          62 DRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHCPGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLA  141 (189)
T ss_pred             cccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHH
Confidence            3444446788999999999887643221  1233333321 4789999999999965410000        00 000111


Q ss_pred             HhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          83 WIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        83 ~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +....   ...+.+.+||+++                 .|++++.+.|.+.+-
T Consensus       142 ~~~~~---~~~~~~e~SAk~~-----------------~~v~e~f~~l~~~~~  174 (189)
T cd04134         142 VAKRI---NALRYLECSAKLN-----------------RGVNEAFTEAARVAL  174 (189)
T ss_pred             HHHHc---CCCEEEEccCCcC-----------------CCHHHHHHHHHHHHh
Confidence            11111   1246789999998                 899999999887664

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=98.33  E-value=2.8e-06  Score=61.64  Aligned_cols=57  Identities=23%  Similarity=0.274  Sum_probs=38.9

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-H-HHHHHHhCC--CCCcEEEEeecCCCCCc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-K-VAEDLVVGT--PGKKLVIVINKAGKPST   69 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~-~i~~~l~~~--~~k~~ilVlNK~Dl~~~   69 (161)
                      .++.+|...+..||++++|+|++++..-.. . .+...+...  .++|+++|.||+|+...
T Consensus        55 ~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~  115 (167)
T cd04161          55 NFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNA  115 (167)
T ss_pred             HHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCC
Confidence            356677888999999999999987642111 1 222222221  36899999999998654

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.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=98.33  E-value=2.5e-06  Score=61.86  Aligned_cols=97  Identities=9%  Similarity=0.003  Sum_probs=57.4

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      .++...+..+|.+++|+|++++.+-.+ ..+.+.+...   .+.|+++|.||+|+....  .... +....+...    .
T Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~-~~~~~~~~~----~  139 (170)
T cd04115          67 SMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQI--QVPT-DLAQRFADA----H  139 (170)
T ss_pred             hhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhc--CCCH-HHHHHHHHH----c
Confidence            455566789999999999987643222 1222222221   368999999999986431  0000 111111111    2


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ..+.+.+||+++.              ...+++++...+.+.
T Consensus       140 ~~~~~e~Sa~~~~--------------~~~~i~~~f~~l~~~  167 (170)
T cd04115         140 SMPLFETSAKDPS--------------ENDHVEAIFMTLAHK  167 (170)
T ss_pred             CCcEEEEeccCCc--------------CCCCHHHHHHHHHHH
Confidence            4678889999841              127788887776543

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

>cd00157 Rho Rho (Ras homology) family

Probab=98.32  E-value=1.4e-06  Score=62.74  Aligned_cols=93  Identities=11%  Similarity=-0.037  Sum_probs=55.7

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccccc-------c-HHHHHHHHhhhhc
Q psy8220          20 SVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSG-------S-MAQIFQTWIPYNS   88 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~-------~-~~~~~~~~~~~~~   88 (161)
                      ..+..+|++++|+|++++.+-..  ..+...+... .+.|+++|.||+|+.+......       . ..+....+...+ 
T Consensus        67 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-  145 (171)
T cd00157          67 LSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEI-  145 (171)
T ss_pred             hhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHh-
Confidence            34578999999999987533111  1222323221 3699999999999876520000       0 001111111111 


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                        ...+++.+||+++                 .|+++|.+.|.+
T Consensus       146 --~~~~~~~~Sa~~~-----------------~gi~~l~~~i~~  170 (171)
T cd00157         146 --GAIGYMECSALTQ-----------------EGVKEVFEEAIR  170 (171)
T ss_pred             --CCeEEEEeecCCC-----------------CCHHHHHHHHhh
Confidence              1237899999998                 899999988754

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=98.32  E-value=4.8e-06  Score=64.14  Aligned_cols=99  Identities=9%  Similarity=-0.012  Sum_probs=60.1

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcc----------cccccHHHH
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTK----------IQSGSMAQI   79 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~----------~~~~~~~~~   79 (161)
                      .+..++...+..||++++|.|.+++.+-..  ..+...+... .+.|+++|.||+||....          .+.... +.
T Consensus        73 ~~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~-~e  151 (232)
T cd04174          73 YYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRTDLSTLMELSNQKQAPISY-EQ  151 (232)
T ss_pred             hhHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccchhhhhccccCCcCCH-HH
Confidence            345554557889999999999987654221  2233334321 468999999999985310          000010 11


Q ss_pred             HHHHhhhhccCCCC-ceeEEeecCCCCcchhhhhhhhcccccc-CHHHHHHHHHhH
Q psy8220          80 FQTWIPYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCV-GAELLMLLLGNY  133 (161)
Q Consensus        80 ~~~~~~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~-g~~~L~~~l~~~  133 (161)
                      ...|.+.    .+. +.+.+||+++                 . |++++.+.+...
T Consensus       152 ~~~~a~~----~~~~~~~EtSAktg-----------------~~~V~e~F~~~~~~  186 (232)
T cd04174         152 GCALAKQ----LGAEVYLECSAFTS-----------------EKSIHSIFRSASLL  186 (232)
T ss_pred             HHHHHHH----cCCCEEEEccCCcC-----------------CcCHHHHHHHHHHH
Confidence            2222222    244 4678999998                 6 788888887554

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.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=98.31  E-value=3.7e-06  Score=62.27  Aligned_cols=99  Identities=10%  Similarity=-0.004  Sum_probs=59.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCccc--------ccccH-HHHHH
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKI--------QSGSM-AQIFQ   81 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~--------~~~~~-~~~~~   81 (161)
                      +..++...+..||++|+|.|.+++.+-..  ..+.+.+... .+.|+++|.||+||.+...        +.... .+...
T Consensus        66 ~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~  145 (182)
T cd04172          66 YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGA  145 (182)
T ss_pred             hHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHH
Confidence            44554557889999999999987643222  1233333321 4689999999999854200        00000 01122


Q ss_pred             HHhhhhccCCC-CceeEEeecCCCCcchhhhhhhhccccccC-HHHHHHHHHhH
Q psy8220          82 TWIPYNSIQSI-YSSPRFSSRSQKDAQTERDLKAINVSSCVG-AELLMLLLGNY  133 (161)
Q Consensus        82 ~~~~~~~~~~~-~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g-~~~L~~~l~~~  133 (161)
                      .+.+.    .+ .+.+.+||+++                 .| ++++.+.+...
T Consensus       146 ~~a~~----~~~~~~~E~SAk~~-----------------~n~v~~~F~~~~~~  178 (182)
T cd04172         146 NMAKQ----IGAATYIECSALQS-----------------ENSVRDIFHVATLA  178 (182)
T ss_pred             HHHHH----cCCCEEEECCcCCC-----------------CCCHHHHHHHHHHH
Confidence            22222    24 36788999999                 77 88888776553

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

>PLN03108 Rab family protein; Provisional

Probab=98.29  E-value=3.9e-06  Score=63.32  Aligned_cols=97  Identities=12%  Similarity=-0.015  Sum_probs=59.1

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+..++...+..+|.+++|+|+.++.+... ..+...+...  ...|+++|.||+|+....  .... +....+...   
T Consensus        67 ~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~--~~~~-~~~~~~~~~---  140 (210)
T PLN03108         67 SFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRR--AVST-EEGEQFAKE---  140 (210)
T ss_pred             HHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCcccc--CCCH-HHHHHHHHH---
Confidence            344555667789999999999987643221 1222212211  368999999999996531  0010 112222222   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                       .+.+.+.+||+++                 .|++++++.+.+.
T Consensus       141 -~~~~~~e~Sa~~~-----------------~~v~e~f~~l~~~  166 (210)
T PLN03108        141 -HGLIFMEASAKTA-----------------QNVEEAFIKTAAK  166 (210)
T ss_pred             -cCCEEEEEeCCCC-----------------CCHHHHHHHHHHH
Confidence             3567899999998                 8888877665443

>PLN00043 elongation factor 1-alpha; Provisional

Probab=98.28  E-value=1e-05  Score=67.88  Aligned_cols=94  Identities=14%  Similarity=0.095  Sum_probs=53.5

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCC-------CCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHH
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMG-------TRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMA   77 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~-------~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~   77 (161)
                      |.|.  +|...+ ...+..||.+|+|+|+..+..       .+-.+...++.. .+.| +|+++||+|+.+..+....+.
T Consensus        93 PGh~--df~~~~-~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~-~gi~~iIV~vNKmD~~~~~~~~~~~~  168 (447)
T PLN00043         93 PGHR--DFIKNM-ITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFT-LGVKQMICCCNKMDATTPKYSKARYD  168 (447)
T ss_pred             CCHH--HHHHHH-HhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHHH-cCCCcEEEEEEcccCCchhhhHHHHH
Confidence            4443  477777 678899999999999987521       111222222222 4664 688899999863211111121


Q ss_pred             HHHHHHhhhhccC----CCCceeEEeecCC
Q psy8220          78 QIFQTWIPYNSIQ----SIYSSPRFSSRSQ  103 (161)
Q Consensus        78 ~~~~~~~~~~~~~----~~~~~i~iSa~~~  103 (161)
                      +..+.....+...    ...+++++||.++
T Consensus       169 ~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G  198 (447)
T PLN00043        169 EIVKEVSSYLKKVGYNPDKIPFVPISGFEG  198 (447)
T ss_pred             HHHHHHHHHHHHcCCCcccceEEEEecccc
Confidence            2222222232211    1356899999998

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=98.28  E-value=8.9e-06  Score=56.65  Aligned_cols=85  Identities=24%  Similarity=0.244  Sum_probs=61.8

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      .-...++|++++|.-+.++.+...+-+...    ..+|+|-|++|+||++..    ++ +..+.|+...   ...+++.+
T Consensus        59 ~tt~~dadvi~~v~~and~~s~f~p~f~~~----~~k~vIgvVTK~DLaed~----dI-~~~~~~L~ea---Ga~~IF~~  126 (148)
T COG4917          59 ITTLQDADVIIYVHAANDPESRFPPGFLDI----GVKKVIGVVTKADLAEDA----DI-SLVKRWLREA---GAEPIFET  126 (148)
T ss_pred             HHHhhccceeeeeecccCccccCCcccccc----cccceEEEEecccccchH----hH-HHHHHHHHHc---CCcceEEE
Confidence            456789999999999999988777766442    357799999999999651    11 2234444432   34567888


Q ss_pred             eecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          99 SSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        99 Sa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      |+...                 .|+++|...|..
T Consensus       127 s~~d~-----------------~gv~~l~~~L~~  143 (148)
T COG4917         127 SAVDN-----------------QGVEELVDYLAS  143 (148)
T ss_pred             eccCc-----------------ccHHHHHHHHHh
Confidence            88776                 899999888754

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=98.28  E-value=1.2e-05  Score=68.86  Aligned_cols=55  Identities=16%  Similarity=0.201  Sum_probs=43.0

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      |..+. ..++..+|.+++|+|+..+.......+.+.... .+.|+++++||+|+...
T Consensus        92 f~~~~-~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~-~~iPiiv~iNK~D~~~a  146 (526)
T PRK00741         92 FSEDT-YRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRL-RDTPIFTFINKLDRDGR  146 (526)
T ss_pred             hHHHH-HHHHHHCCEEEEEEecCCCCCHHHHHHHHHHHh-cCCCEEEEEECCccccc
Confidence            44555 678899999999999998776555566665554 68999999999998654

>cd04117 Rab15 Rab15 subfamily

Probab=98.27  E-value=4e-06  Score=60.36  Aligned_cols=95  Identities=14%  Similarity=-0.033  Sum_probs=58.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ...++......+|++++|.|..++.+-.. ..+.+.+...  .+.|+++|.||.|+....  .... +....+.+.    
T Consensus        62 ~~~~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~--~v~~-~~~~~~~~~----  134 (161)
T cd04117          62 YQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKR--QVGD-EQGNKLAKE----  134 (161)
T ss_pred             HHhhHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc--CCCH-HHHHHHHHH----
Confidence            34444567789999999999887532111 1222222221  257999999999996541  0000 111222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .+.+.+.+||+++                 .|++++.+.|.+
T Consensus       135 ~~~~~~e~Sa~~~-----------------~~v~~~f~~l~~  159 (161)
T cd04117         135 YGMDFFETSACTN-----------------SNIKESFTRLTE  159 (161)
T ss_pred             cCCEEEEEeCCCC-----------------CCHHHHHHHHHh
Confidence            2467889999998                 899999888754

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=98.27  E-value=3.3e-06  Score=61.20  Aligned_cols=100  Identities=12%  Similarity=0.083  Sum_probs=57.7

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccH---------HHHHHH
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSM---------AQIFQT   82 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~---------~~~~~~   82 (161)
                      ..++...+..+|++++|.|.+++.+-.+  ..+...+... .+.|+++|.||+|+.+.......+         ......
T Consensus        63 ~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~  142 (175)
T cd01870          63 DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRD  142 (175)
T ss_pred             hhccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHH
Confidence            3343356789999999999876532111  1122223221 378999999999986541000000         000011


Q ss_pred             HhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          83 WIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        83 ~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +...+   ...+++.+||+++                 .|+++|.+.|.+.+
T Consensus       143 ~~~~~---~~~~~~~~Sa~~~-----------------~~v~~lf~~l~~~~  174 (175)
T cd01870         143 MANKI---GAFGYMECSAKTK-----------------EGVREVFEMATRAA  174 (175)
T ss_pred             HHHHc---CCcEEEEeccccC-----------------cCHHHHHHHHHHHh
Confidence            11111   1236789999998                 99999999887543

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

>KOG1191|consensus

Probab=98.26  E-value=2.9e-06  Score=70.82  Aligned_cols=103  Identities=26%  Similarity=0.284  Sum_probs=69.6

Q ss_pred             CCCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC-----C------CCcEEEEeecCCCCCcccc
Q psy8220           4 VKPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT-----P------GKKLVIVINKAGKPSTKIQ   72 (161)
Q Consensus         4 ~~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~-----~------~k~~ilVlNK~Dl~~~~~~   72 (161)
                      +++-++++  .++. ++++++||+|++|+|+....++.+..+.+.+...     .      .+|.|++.||+|+.++.  
T Consensus       331 ~~~iE~~g--I~rA-~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~--  405 (531)
T KOG1191|consen  331 NDGIEALG--IERA-RKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKI--  405 (531)
T ss_pred             CChhHHHh--HHHH-HHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCcc--
Confidence            45556665  4455 7899999999999999777777777777666542     1      27889999999998761  


Q ss_pred             cccHHHHHHHH--hhhhcc--CCCCce-eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          73 SGSMAQIFQTW--IPYNSI--QSIYSS-PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        73 ~~~~~~~~~~~--~~~~~~--~~~~~~-i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                           .. -.|  ..+...  ...+++ +.+|+.++                 .|.+.|..+|.+..
T Consensus       406 -----~~-~~~~~~~~~~~~~~~~~~i~~~vs~~tk-----------------eg~~~L~~all~~~  449 (531)
T KOG1191|consen  406 -----PE-MTKIPVVYPSAEGRSVFPIVVEVSCTTK-----------------EGCERLSTALLNIV  449 (531)
T ss_pred             -----cc-ccCCceeccccccCcccceEEEeeechh-----------------hhHHHHHHHHHHHH
Confidence                 00 111  011110  013444 45899998                 89999998887765

>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=98.26  E-value=6.9e-07  Score=65.02  Aligned_cols=43  Identities=26%  Similarity=0.162  Sum_probs=35.4

Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+++++.+|+.++                 .|+++|.+.+..    +      .++++|.++|||||||+
T Consensus        11 ~gy~v~~~S~~~~-----------------~g~~~l~~~l~~----k------~~vl~G~SGvGKSSLiN   53 (161)
T PF03193_consen   11 LGYPVFFISAKTG-----------------EGIEELKELLKG----K------TSVLLGQSGVGKSSLIN   53 (161)
T ss_dssp             TTSEEEE-BTTTT-----------------TTHHHHHHHHTT----S------EEEEECSTTSSHHHHHH
T ss_pred             cCCcEEEEeCCCC-----------------cCHHHHHHHhcC----C------EEEEECCCCCCHHHHHH
Confidence            4788999999988                 899998877633    2      68899999999999985

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.

>cd04177 RSR1 RSR1 subgroup

Probab=98.25  E-value=3.3e-06  Score=61.04  Aligned_cols=96  Identities=13%  Similarity=0.030  Sum_probs=58.5

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHh---CCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVV---GTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~---~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ..++...+..+|.+++|+|..++.+-. ...+...+.   ...+.|+++|.||+|+.+..  .... +....+.+.+   
T Consensus        63 ~~~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~--~~~~-~~~~~~~~~~---  136 (168)
T cd04177          63 TAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDR--QVSR-EDGVSLSQQW---  136 (168)
T ss_pred             hhhhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccC--ccCH-HHHHHHHHHc---
Confidence            344456678899999999988753211 111222221   11478999999999986541  1011 1112222221   


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ...+.+.+||+++                 .|++++.+.+...
T Consensus       137 ~~~~~~~~SA~~~-----------------~~i~~~f~~i~~~  162 (168)
T cd04177         137 GNVPFYETSARKR-----------------TNVDEVFIDLVRQ  162 (168)
T ss_pred             CCceEEEeeCCCC-----------------CCHHHHHHHHHHH
Confidence            1257899999998                 8999998887653

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

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=98.25  E-value=2e-06  Score=60.08  Aligned_cols=85  Identities=11%  Similarity=-0.037  Sum_probs=50.2

Q ss_pred             HHhhhccEEEEEEeCCCCCCC-------CcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          20 SVVEAADVILEVVDARDPMGT-------RCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~-------~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .....++.++.++|......+       ....+.... . .+.|+++|+||+|+...        .........+.....
T Consensus        69 ~~~~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~-~-~~~p~ivv~nK~D~~~~--------~~~~~~~~~~~~~~~  138 (161)
T TIGR00231        69 LYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHA-E-SNVPIILVGNKIDLRDA--------KLKTHVAFLFAKLNG  138 (161)
T ss_pred             HHHhhhhEEEEEEEEeeeehhhhhHhHHHHHHHHHhc-c-cCCcEEEEEEcccCCcc--------hhhHHHHHHHhhccC
Confidence            344566666666666544211       112222222 1 26899999999999764        111122222222235


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHH
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLG  131 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~  131 (161)
                      .+.+++||.++                 .|+.++.+.|.
T Consensus       139 ~~~~~~sa~~~-----------------~gv~~~~~~l~  160 (161)
T TIGR00231       139 EPIIPLSAETG-----------------KNIDSAFKIVE  160 (161)
T ss_pred             CceEEeecCCC-----------------CCHHHHHHHhh
Confidence            56899999998                 89999988874

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.

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.25  E-value=1.4e-05  Score=66.01  Aligned_cols=101  Identities=17%  Similarity=0.032  Sum_probs=68.5

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      |.|..  +...+ ...+.-.|..++|+|+.+++..+..+-...+.-..-+..++|+||+|.+++        +.++...+
T Consensus        58 pgh~~--~i~~m-iag~~~~d~alLvV~~deGl~~qtgEhL~iLdllgi~~giivltk~D~~d~--------~r~e~~i~  126 (447)
T COG3276          58 PGHPD--FISNL-LAGLGGIDYALLVVAADEGLMAQTGEHLLILDLLGIKNGIIVLTKADRVDE--------ARIEQKIK  126 (447)
T ss_pred             CCcHH--HHHHH-HhhhcCCceEEEEEeCccCcchhhHHHHHHHHhcCCCceEEEEeccccccH--------HHHHHHHH
Confidence            44543  57777 578889999999999988877655443333322123555999999999876        22222222


Q ss_pred             hhc---cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          86 YNS---IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        86 ~~~---~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.   .....+++..|+.++                 .|+++|.+.|.+..
T Consensus       127 ~Il~~l~l~~~~i~~~s~~~g-----------------~GI~~Lk~~l~~L~  161 (447)
T COG3276         127 QILADLSLANAKIFKTSAKTG-----------------RGIEELKNELIDLL  161 (447)
T ss_pred             HHHhhcccccccccccccccC-----------------CCHHHHHHHHHHhh
Confidence            211   012446788899998                 99999999999988

>cd01873 RhoBTB RhoBTB subfamily

Probab=98.25  E-value=2.3e-06  Score=64.10  Aligned_cols=91  Identities=12%  Similarity=-0.077  Sum_probs=57.2

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCcH--HHHHHHhCC-CCCcEEEEeecCCCCCcc-----------------cccccHHHH
Q psy8220          20 SVVEAADVILEVVDARDPMGTRCK--VAEDLVVGT-PGKKLVIVINKAGKPSTK-----------------IQSGSMAQI   79 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~~--~i~~~l~~~-~~k~~ilVlNK~Dl~~~~-----------------~~~~~~~~~   79 (161)
                      ..+..||++++|.|.+++.+-...  .+...+... .+.|+++|.||+||....                 .+.... +.
T Consensus        83 ~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~-~e  161 (195)
T cd01873          83 FAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPP-ET  161 (195)
T ss_pred             ccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccccccchhhhcccccccccccCCccCH-HH
Confidence            357899999999999876532211  233333321 368999999999986410                 000111 12


Q ss_pred             HHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          80 FQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        80 ~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      ...|.+.    .+.+.+.+||+++                 .|++++.+.+.+
T Consensus       162 ~~~~a~~----~~~~~~E~SAkt~-----------------~~V~e~F~~~~~  193 (195)
T cd01873         162 GRAVAKE----LGIPYYETSVVTQ-----------------FGVKDVFDNAIR  193 (195)
T ss_pred             HHHHHHH----hCCEEEEcCCCCC-----------------CCHHHHHHHHHH
Confidence            2333322    2467889999999                 899999887754

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.

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=98.24  E-value=9.3e-07  Score=76.23  Aligned_cols=87  Identities=16%  Similarity=0.092  Sum_probs=60.8

Q ss_pred             hhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecC
Q psy8220          23 EAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRS  102 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~  102 (161)
                      +..|+|+.|+||++-..  +..+--++.+ .+.|+++++|++|.+++.  .      ++--.+.+++..+.|+++.||.+
T Consensus        80 ~~~D~ivnVvDAtnLeR--nLyltlQLlE-~g~p~ilaLNm~D~A~~~--G------i~ID~~~L~~~LGvPVv~tvA~~  148 (653)
T COG0370          80 GKPDLIVNVVDATNLER--NLYLTLQLLE-LGIPMILALNMIDEAKKR--G------IRIDIEKLSKLLGVPVVPTVAKR  148 (653)
T ss_pred             CCCCEEEEEcccchHHH--HHHHHHHHHH-cCCCeEEEeccHhhHHhc--C------CcccHHHHHHHhCCCEEEEEeec
Confidence            56799999999987532  2223223444 689999999999987651  1      11111222222489999999999


Q ss_pred             CCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220         103 QKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      +                 .|+++|++.+.+..+.+
T Consensus       149 g-----------------~G~~~l~~~i~~~~~~~  166 (653)
T COG0370         149 G-----------------EGLEELKRAIIELAESK  166 (653)
T ss_pred             C-----------------CCHHHHHHHHHHhcccc
Confidence            9                 89999999987766543

>cd04133 Rop_like Rop subfamily

Probab=98.23  E-value=3.4e-06  Score=62.15  Aligned_cols=99  Identities=13%  Similarity=-0.046  Sum_probs=60.9

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCccc-------ccccHHHHHHHHh
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKI-------QSGSMAQIFQTWI   84 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~-------~~~~~~~~~~~~~   84 (161)
                      +.++...+..||.+|+|.|.+++.+-..  ..+...+... .+.|+++|.||+||.+...       ...-..+....|.
T Consensus        63 ~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a  142 (176)
T cd04133          63 NRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYAPNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELR  142 (176)
T ss_pred             cccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHH
Confidence            3333456789999999999987654222  1233334321 4689999999999965310       0000011122232


Q ss_pred             hhhccCCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          85 PYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        85 ~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ..    .+. +.+.+||+++                 .|++++.+.+.+.+
T Consensus       143 ~~----~~~~~~~E~SAk~~-----------------~nV~~~F~~~~~~~  172 (176)
T cd04133         143 KQ----IGAAAYIECSSKTQ-----------------QNVKAVFDAAIKVV  172 (176)
T ss_pred             HH----cCCCEEEECCCCcc-----------------cCHHHHHHHHHHHH
Confidence            22    234 4789999999                 89999988887643

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,

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=98.23  E-value=1.2e-05  Score=67.10  Aligned_cols=105  Identities=14%  Similarity=0.121  Sum_probs=67.1

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPR   97 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   97 (161)
                      .+++..|.-.|+|+||+++...  ..+.+..... .+-.+|-|+||+||.....      +.+....+..-.......+.
T Consensus        94 SRSLAACEGalLvVDAsQGveA--QTlAN~YlAle~~LeIiPViNKIDLP~Adp------ervk~eIe~~iGid~~dav~  165 (603)
T COG0481          94 SRSLAACEGALLVVDASQGVEA--QTLANVYLALENNLEIIPVLNKIDLPAADP------ERVKQEIEDIIGIDASDAVL  165 (603)
T ss_pred             hhhHhhCCCcEEEEECccchHH--HHHHHHHHHHHcCcEEEEeeecccCCCCCH------HHHHHHHHHHhCCCcchhee
Confidence            5677788999999999998754  3344332211 4788999999999976511      22222222221011223689


Q ss_pred             EeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc-CCC-CCceEEEEE
Q psy8220          98 FSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN-KDI-KTSITVGVV  148 (161)
Q Consensus        98 iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~-~~~-~~~~~v~vv  148 (161)
                      +||++|                 .|+++++++|.+..|. +++ ..+++..++
T Consensus       166 ~SAKtG-----------------~gI~~iLe~Iv~~iP~P~g~~~~pLkALif  201 (603)
T COG0481         166 VSAKTG-----------------IGIEDVLEAIVEKIPPPKGDPDAPLKALIF  201 (603)
T ss_pred             EecccC-----------------CCHHHHHHHHHhhCCCCCCCCCCcceEEEE
Confidence            999999                 9999999999888753 222 234554443

>PRK12740 elongation factor G; Reviewed

Probab=98.22  E-value=1.3e-05  Score=70.41  Aligned_cols=55  Identities=16%  Similarity=0.148  Sum_probs=42.2

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +..+. ..++..+|.+++|+|+..+.......+...+.. .+.|+++|+||+|+...
T Consensus        73 ~~~~~-~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~~-~~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         73 FTGEV-ERALRVLDGAVVVVCAVGGVEPQTETVWRQAEK-YGVPRIIFVNKMDRAGA  127 (668)
T ss_pred             HHHHH-HHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHHH-cCCCEEEEEECCCCCCC
Confidence            34444 678899999999999998766555555555554 57999999999998754

>TIGR00503 prfC peptide chain release factor 3

Probab=98.21  E-value=2e-05  Score=67.48  Aligned_cols=60  Identities=18%  Similarity=0.186  Sum_probs=45.4

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCC
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPS   68 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~   68 (161)
                      +|.|.  .|..+. ++++..+|.+|+|+|+..+.......+.+.+.. .+.|+++++||+|+..
T Consensus        87 TPG~~--df~~~~-~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~-~~~PiivviNKiD~~~  146 (527)
T TIGR00503        87 TPGHE--DFSEDT-YRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRL-RDTPIFTFMNKLDRDI  146 (527)
T ss_pred             CCChh--hHHHHH-HHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHh-cCCCEEEEEECccccC
Confidence            35552  455556 678999999999999988766555566665554 5799999999999864

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.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.20  E-value=8e-06  Score=71.98  Aligned_cols=61  Identities=15%  Similarity=0.123  Sum_probs=48.0

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +|.+.  .|+.+. ..++..+|++++|+|+.++...++..+..++.. .+.|+++|+||+|+...
T Consensus        82 TPG~~--~~~~~~-~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~~-~~~p~ivviNK~D~~~~  142 (689)
T TIGR00484        82 TPGHV--DFTVEV-ERSLRVLDGAVAVLDAVGGVQPQSETVWRQANR-YEVPRIAFVNKMDKTGA  142 (689)
T ss_pred             CCCCc--chhHHH-HHHHHHhCEEEEEEeCCCCCChhHHHHHHHHHH-cCCCEEEEEECCCCCCC
Confidence            35553  245555 789999999999999998877777777776665 68999999999999864

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.

>PRK13351 elongation factor G; Reviewed

Probab=98.20  E-value=1.7e-05  Score=69.94  Aligned_cols=55  Identities=18%  Similarity=0.144  Sum_probs=43.0

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      |..+. ..++..+|.+++|+|+..+.......+.+.+.. .+.|+++|+||+|+...
T Consensus        86 f~~~~-~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~-~~~p~iiviNK~D~~~~  140 (687)
T PRK13351         86 FTGEV-ERSLRVLDGAVVVFDAVTGVQPQTETVWRQADR-YGIPRLIFINKMDRVGA  140 (687)
T ss_pred             HHHHH-HHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHh-cCCCEEEEEECCCCCCC
Confidence            44444 688999999999999998776555555555554 57999999999998764

>cd04131 Rnd Rnd subfamily

Probab=98.19  E-value=7.9e-06  Score=60.20  Aligned_cols=98  Identities=10%  Similarity=-0.015  Sum_probs=57.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCccc--------ccccH-HHHHH
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKI--------QSGSM-AQIFQ   81 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~--------~~~~~-~~~~~   81 (161)
                      +..+....+..||++|+|.|.+++.+-..  ..+...+.+. .+.|+++|.||+||.+...        +.... .+...
T Consensus        62 ~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~  141 (178)
T cd04131          62 YDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCPNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGC  141 (178)
T ss_pred             hhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCCCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHH
Confidence            34444456789999999999987654222  1233333321 4689999999999854200        00000 01112


Q ss_pred             HHhhhhccCCCC-ceeEEeecCCCCcchhhhhhhhcccccc-CHHHHHHHHHh
Q psy8220          82 TWIPYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCV-GAELLMLLLGN  132 (161)
Q Consensus        82 ~~~~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~-g~~~L~~~l~~  132 (161)
                      .+.+.    .+. +.+.+||+++                 . |++++...+.+
T Consensus       142 ~~a~~----~~~~~~~E~SA~~~-----------------~~~v~~~F~~~~~  173 (178)
T cd04131         142 AIAKQ----LGAEIYLECSAFTS-----------------EKSVRDIFHVATM  173 (178)
T ss_pred             HHHHH----hCCCEEEECccCcC-----------------CcCHHHHHHHHHH
Confidence            22222    243 5788999998                 7 48888777655

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.

>cd04135 Tc10 TC10 subfamily

Probab=98.18  E-value=8.7e-06  Score=58.89  Aligned_cols=95  Identities=11%  Similarity=-0.061  Sum_probs=56.7

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccccc--------cH-HHHHHHHhhh
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSG--------SM-AQIFQTWIPY   86 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~--------~~-~~~~~~~~~~   86 (161)
                      ......+|++++|.|..++.+-.+  ..+...+... .+.|+++|.||+|+.+......        .. .+....+...
T Consensus        66 ~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~  145 (174)
T cd04135          66 PLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKE  145 (174)
T ss_pred             cccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHH
Confidence            345778999999999987643211  1233333321 4799999999999865410000        00 0111122222


Q ss_pred             hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          87 NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +.   ..+.+.+||+++                 .|++++.+.+.+.
T Consensus       146 ~~---~~~~~e~Sa~~~-----------------~gi~~~f~~~~~~  172 (174)
T cd04135         146 IG---AHCYVECSALTQ-----------------KGLKTVFDEAILA  172 (174)
T ss_pred             cC---CCEEEEecCCcC-----------------CCHHHHHHHHHHH
Confidence            11   235788999999                 9999998887653

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

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.17  E-value=2.1e-05  Score=62.91  Aligned_cols=104  Identities=15%  Similarity=0.164  Sum_probs=65.9

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCC-CCc-HHH--HHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHH
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMG-TRC-KVA--EDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQ   81 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~-~~~-~~i--~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~   81 (161)
                      |.|...  |..+ ..-..--|-.|+|++|.+|-. .+. +++  ++.+   .-+.+|+|-||+||+.++    ...+..+
T Consensus        94 PGHe~L--MATM-LsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi---gik~iiIvQNKIDlV~~E----~AlE~y~  163 (415)
T COG5257          94 PGHETL--MATM-LSGAALMDGALLVIAANEPCPQPQTREHLMALEII---GIKNIIIVQNKIDLVSRE----RALENYE  163 (415)
T ss_pred             CchHHH--HHHH-hcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh---ccceEEEEecccceecHH----HHHHHHH
Confidence            454432  5555 455556788999999987632 111 222  2222   348899999999999872    0001111


Q ss_pred             HHhhhhc--cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          82 TWIPYNS--IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        82 ~~~~~~~--~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ...++++  -..+.|++++||..+                 .++|.|.++|.++.+.
T Consensus       164 qIk~FvkGt~Ae~aPIIPiSA~~~-----------------~NIDal~e~i~~~Ipt  203 (415)
T COG5257         164 QIKEFVKGTVAENAPIIPISAQHK-----------------ANIDALIEAIEKYIPT  203 (415)
T ss_pred             HHHHHhcccccCCCceeeehhhhc-----------------cCHHHHHHHHHHhCCC
Confidence            2222222  123568999999998                 9999999999999864

>cd04167 Snu114p Snu114p subfamily

Probab=98.15  E-value=1.1e-05  Score=60.87  Aligned_cols=53  Identities=21%  Similarity=0.293  Sum_probs=39.4

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKP   67 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~   67 (161)
                      |.... ...+..+|.+++|+|+..+.......+.+.+.. .+.|+++|+||+|++
T Consensus        84 f~~~~-~~~~~~aD~~llVvD~~~~~~~~~~~~~~~~~~-~~~p~iiviNK~D~~  136 (213)
T cd04167          84 FMDEV-AAALRLSDGVVLVVDVVEGVTSNTERLIRHAIL-EGLPIVLVINKIDRL  136 (213)
T ss_pred             hHHHH-HHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHH-cCCCEEEEEECcccC
Confidence            33344 678899999999999987765444444444443 469999999999986

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.

>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=98.13  E-value=3e-05  Score=59.68  Aligned_cols=50  Identities=14%  Similarity=-0.034  Sum_probs=37.6

Q ss_pred             CcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          55 KKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        55 k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .|+++|+||+|+.+.        +....    +.  ...+.+++||.++                 .|+++|.+.|.+.+
T Consensus       177 ~p~iiV~NK~Dl~~~--------~~~~~----~~--~~~~~~~~SA~~g-----------------~gi~~l~~~i~~~L  225 (233)
T cd01896         177 IPCLYVYNKIDLISI--------EELDL----LA--RQPNSVVISAEKG-----------------LNLDELKERIWDKL  225 (233)
T ss_pred             eeEEEEEECccCCCH--------HHHHH----Hh--cCCCEEEEcCCCC-----------------CCHHHHHHHHHHHh
Confidence            589999999999876        33332    22  1345788999999                 99999999988765


Q ss_pred             h
Q psy8220         135 R  135 (161)
Q Consensus       135 ~  135 (161)
                      .
T Consensus       226 ~  226 (233)
T cd01896         226 G  226 (233)
T ss_pred             C
Confidence            3

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=98.10  E-value=8.9e-06  Score=62.26  Aligned_cols=58  Identities=24%  Similarity=0.266  Sum_probs=45.1

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCC
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKP   67 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~   67 (161)
                      |.|..  |..+. ..++..||.+++|+|+..+...+...+.+.... .+.|+++|+||+|+.
T Consensus        81 PG~~~--f~~~~-~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~-~~~p~ilviNKiD~~  138 (222)
T cd01885          81 PGHVD--FSSEV-TAALRLCDGALVVVDAVEGVCVQTETVLRQALK-ERVKPVLVINKIDRL  138 (222)
T ss_pred             CCccc--cHHHH-HHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHH-cCCCEEEEEECCCcc
Confidence            55432  55566 688999999999999998877666666665554 578999999999985

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

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.09  E-value=1.2e-05  Score=65.05  Aligned_cols=92  Identities=13%  Similarity=-0.002  Sum_probs=52.0

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCcHHHHHH-HhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc---CCCCce
Q psy8220          20 SVVEAADVILEVVDARDPMGTRCKVAEDL-VVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI---QSIYSS   95 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~~~i~~~-l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~   95 (161)
                      .....||++++|++...+   .+...... +   ....-++|+||+|+.+.. ........+......+..   ....|+
T Consensus       165 ~i~~~aD~vlvv~~p~~g---d~iq~~k~gi---~E~aDIiVVNKaDl~~~~-~a~~~~~el~~~L~l~~~~~~~w~~pV  237 (332)
T PRK09435        165 AVAGMVDFFLLLQLPGAG---DELQGIKKGI---MELADLIVINKADGDNKT-AARRAAAEYRSALRLLRPKDPGWQPPV  237 (332)
T ss_pred             HHHHhCCEEEEEecCCch---HHHHHHHhhh---hhhhheEEeehhcccchh-HHHHHHHHHHHHHhcccccccCCCCCE
Confidence            356789999999763222   22211111 1   123449999999998651 000000111211111110   012478


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +++||.++                 .|+++|.+.|.++.+
T Consensus       238 i~vSA~~g-----------------~GIdeL~~~I~~~~~  260 (332)
T PRK09435        238 LTCSALEG-----------------EGIDEIWQAIEDHRA  260 (332)
T ss_pred             EEEECCCC-----------------CCHHHHHHHHHHHHH
Confidence            99999999                 899999999988764

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.05  E-value=1.3e-05  Score=59.95  Aligned_cols=99  Identities=14%  Similarity=-0.022  Sum_probs=59.5

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCccccc----c-cHHHHHHHHhh----hhcc--
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQS----G-SMAQIFQTWIP----YNSI--   89 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~----~-~~~~~~~~~~~----~~~~--   89 (161)
                      .+.++|++|+|.|.  +++..+..+.+.+.+ .++|+++|+||+|+.......    . ...+.++...+    .+..  
T Consensus        77 ~~~~~d~~l~v~~~--~~~~~d~~~~~~l~~-~~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~  153 (197)
T cd04104          77 KFSEYDFFIIISST--RFSSNDVKLAKAIQC-MGKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAG  153 (197)
T ss_pred             CccCcCEEEEEeCC--CCCHHHHHHHHHHHH-hCCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcC
Confidence            36789999998653  456666777777776 579999999999985421100    0 01111111111    1211  


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      ....+++.+|+...               ..++...|.+.+...++..
T Consensus       154 ~~~p~v~~vS~~~~---------------~~~~~~~l~~~~~~~l~~~  186 (197)
T cd04104         154 VSEPPVFLVSNFDP---------------SDYDFPKLRETLLKDLPAH  186 (197)
T ss_pred             CCCCCEEEEeCCCh---------------hhcChHHHHHHHHHHhhHH
Confidence            01234677777621               1289999999998887754

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

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=98.03  E-value=5.1e-05  Score=63.40  Aligned_cols=107  Identities=17%  Similarity=0.151  Sum_probs=72.4

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh------cc
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN------SI   89 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~------~~   89 (161)
                      +. .+.++.+|-+|+++||.+++-.+...+.+-..+ .+-+.|+|+||+|-....     ..+.+......|      .+
T Consensus        84 EV-ERvl~MVDgvlLlVDA~EGpMPQTrFVlkKAl~-~gL~PIVVvNKiDrp~Ar-----p~~Vvd~vfDLf~~L~A~de  156 (603)
T COG1217          84 EV-ERVLSMVDGVLLLVDASEGPMPQTRFVLKKALA-LGLKPIVVINKIDRPDAR-----PDEVVDEVFDLFVELGATDE  156 (603)
T ss_pred             hh-hhhhhhcceEEEEEEcccCCCCchhhhHHHHHH-cCCCcEEEEeCCCCCCCC-----HHHHHHHHHHHHHHhCCChh
Confidence            44 678899999999999999887777776654444 578889999999976541     112233322222      12


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +..+|+++-|+..|.-       ..........+.-|.+.|.++.|.
T Consensus       157 QLdFPivYAS~~~G~a-------~~~~~~~~~~m~pLfe~I~~hvp~  196 (603)
T COG1217         157 QLDFPIVYASARNGTA-------SLDPEDEADDMAPLFETILDHVPA  196 (603)
T ss_pred             hCCCcEEEeeccCcee-------ccCccccccchhHHHHHHHHhCCC
Confidence            3468999999998721       122223345688899999888764

>cd04129 Rho2 Rho2 subfamily

Probab=98.03  E-value=2e-05  Score=58.19  Aligned_cols=94  Identities=13%  Similarity=-0.041  Sum_probs=57.2

Q ss_pred             HhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCccc--------ccccHHHHHHHHhhhhcc
Q psy8220          21 VVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKI--------QSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~--------~~~~~~~~~~~~~~~~~~   89 (161)
                      .+..+|.++++.|...+.+-..  ..+...+... ...|+++|.||+|+.+...        +.... +....+.+.+. 
T Consensus        69 ~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~-  146 (187)
T cd04129          69 SYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQDAVAKEEYRTQRFVPI-QQGKRVAKEIG-  146 (187)
T ss_pred             hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhhhCcccccccccCCcCCH-HHHHHHHHHhC-
Confidence            4678999999999876532111  1233333321 4689999999999854210        00000 11122222221 


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                        ..+.+.+||+++                 .|++++.+.+.+.+.
T Consensus       147 --~~~~~e~Sa~~~-----------------~~v~~~f~~l~~~~~  173 (187)
T cd04129         147 --AKKYMECSALTG-----------------EGVDDVFEAATRAAL  173 (187)
T ss_pred             --CcEEEEccCCCC-----------------CCHHHHHHHHHHHHh
Confidence              235788999999                 999999999986553

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).

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=98.01  E-value=4.3e-05  Score=58.47  Aligned_cols=56  Identities=18%  Similarity=0.149  Sum_probs=37.5

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPS   68 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~   68 (161)
                      .+..++...+..+|++|+|+|.+++.+-..  ..+...+... .+.|+++|.||+||..
T Consensus        61 ~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~~~piiLVgnK~DL~~  119 (222)
T cd04173          61 YYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKVVLVGCKLDMRT  119 (222)
T ss_pred             HHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEECccccc
Confidence            345555567889999999999987743211  1222222221 4689999999999965

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=98.01  E-value=2.7e-05  Score=56.18  Aligned_cols=91  Identities=7%  Similarity=-0.070  Sum_probs=54.8

Q ss_pred             HhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          21 VVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      ....+|.+++|.|.++..+-.. ..+.+.+...   .+.|+++|.||.|+.....+.... +..+.+.+..   ...+.+
T Consensus        62 ~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~-~~~~~~~~~~---~~~~~~  137 (158)
T cd04103          62 FASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDD-ARARQLCADM---KRCSYY  137 (158)
T ss_pred             HHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCH-HHHHHHHHHh---CCCcEE
Confidence            3467999999999987654222 2233333221   357999999999985310000010 1112222221   246788


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .+||+++                 .|++++.+.+.+
T Consensus       138 e~SAk~~-----------------~~i~~~f~~~~~  156 (158)
T cd04103         138 ETCATYG-----------------LNVERVFQEAAQ  156 (158)
T ss_pred             EEecCCC-----------------CCHHHHHHHHHh
Confidence            9999999                 899999887753

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.

>KOG0076|consensus

Probab=98.00  E-value=1.5e-05  Score=58.35  Aligned_cols=103  Identities=15%  Similarity=0.055  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh--
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP--   85 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~--   85 (161)
                      +.++.+|..-...++.+++|+|+.++..-.+  ..+.+.+..+  .+.|+++..||.|+.+..     -...+.....  
T Consensus        80 e~lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~-----~~~El~~~~~~~  154 (197)
T KOG0076|consen   80 ESLRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAM-----EAAELDGVFGLA  154 (197)
T ss_pred             HHHHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhh-----hHHHHHHHhhhh
Confidence            5688999899999999999999988542111  1122222221  589999999999987651     0011222111  


Q ss_pred             -hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          86 -YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        86 -~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                       .+. ....++.++||.++                 .|+++=.+++....+..
T Consensus       155 e~~~-~rd~~~~pvSal~g-----------------egv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  155 ELIP-RRDNPFQPVSALTG-----------------EGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hhcC-CccCccccchhhhc-----------------ccHHHHHHHHHHHHhhc
Confidence             111 12456899999999                 88888877777665543

>KOG0075|consensus

Probab=97.98  E-value=0.00016  Score=51.83  Aligned_cols=97  Identities=20%  Similarity=0.176  Sum_probs=64.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh--
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN--   87 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~--   87 (161)
                      .+.+|..--..+|+++||+|+.+|..  ....++..++.+.  .+.|+++.-||+|+...-       . -......+  
T Consensus        78 frsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL-------~-~~~li~rmgL  149 (186)
T KOG0075|consen   78 FRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGAL-------S-KIALIERMGL  149 (186)
T ss_pred             HHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccc-------c-HHHHHHHhCc
Confidence            46677778889999999999998642  2234555655442  479999999999986541       0 01111211  


Q ss_pred             ccCC--CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          88 SIQS--IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        88 ~~~~--~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ....  ....+.+|++..                 .+++.++.+|.+..+
T Consensus       150 ~sitdREvcC~siScke~-----------------~Nid~~~~Wli~hsk  182 (186)
T KOG0075|consen  150 SSITDREVCCFSISCKEK-----------------VNIDITLDWLIEHSK  182 (186)
T ss_pred             cccccceEEEEEEEEcCC-----------------ccHHHHHHHHHHHhh
Confidence            1111  223567888887                 899999999987764

>KOG0092|consensus

Probab=97.94  E-value=2.1e-05  Score=58.41  Aligned_cols=91  Identities=13%  Similarity=0.049  Sum_probs=57.5

Q ss_pred             hhccEEEEEEeCCCCCCC-CcHHHHHHHhCCCC--CcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEe
Q psy8220          23 EAADVILEVVDARDPMGT-RCKVAEDLVVGTPG--KKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFS   99 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~-~~~~i~~~l~~~~~--k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iS   99 (161)
                      ..|+.+|+|.|.++..+- .-..+...|.....  .-+.+|-||+||....  ..+..+ ..   .+ .+..+.+.+..|
T Consensus        76 RgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R--~V~~~e-a~---~y-Ae~~gll~~ETS  148 (200)
T KOG0092|consen   76 RGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERR--EVEFEE-AQ---AY-AESQGLLFFETS  148 (200)
T ss_pred             cCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcc--cccHHH-HH---HH-HHhcCCEEEEEe
Confidence            458899999999875431 11234444443222  3345588999998741  111111 11   12 222477889999


Q ss_pred             ecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220         100 SRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus       100 a~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      |+++                 .++++|...|.+.++..
T Consensus       149 AKTg-----------------~Nv~~if~~Ia~~lp~~  169 (200)
T KOG0092|consen  149 AKTG-----------------ENVNEIFQAIAEKLPCS  169 (200)
T ss_pred             cccc-----------------cCHHHHHHHHHHhccCc
Confidence            9999                 99999999998887653

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=97.92  E-value=5.2e-06  Score=69.00  Aligned_cols=21  Identities=19%  Similarity=0.218  Sum_probs=18.8

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+++++++|.||||||||.+
T Consensus       215 r~G~kvvIiG~PNvGKSSLLN  235 (454)
T COG0486         215 REGLKVVIIGRPNVGKSSLLN  235 (454)
T ss_pred             hcCceEEEECCCCCcHHHHHH
Confidence            567999999999999999964

>KOG0078|consensus

Probab=97.92  E-value=6.2e-05  Score=56.56  Aligned_cols=99  Identities=14%  Similarity=-0.035  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      +..+++....+..|+-+++|.|.++..+-.+ ..+.+.+.+.  .+.|.+||-||+|+..+.  .... +.-+    .+.
T Consensus        72 erf~ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R--~V~~-e~ge----~lA  144 (207)
T KOG0078|consen   72 ERFRTITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKR--QVSK-ERGE----ALA  144 (207)
T ss_pred             hhHHHHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccc--cccH-HHHH----HHH
Confidence            5667777788899999999999987644222 2344445443  378999999999997641  1000 1112    222


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ...+.+.+..||+++                 .++++....|....
T Consensus       145 ~e~G~~F~EtSAk~~-----------------~NI~eaF~~La~~i  173 (207)
T KOG0078|consen  145 REYGIKFFETSAKTN-----------------FNIEEAFLSLARDI  173 (207)
T ss_pred             HHhCCeEEEccccCC-----------------CCHHHHHHHHHHHH
Confidence            113677899999999                 88887777766544

>cd04169 RF3 RF3 subfamily

Probab=97.89  E-value=0.00011  Score=57.79  Aligned_cols=55  Identities=16%  Similarity=0.222  Sum_probs=41.8

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      |..+. +..+..+|.+++|+|++.+.......+.++... .+.|+++++||+|+...
T Consensus        84 f~~~~-~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~-~~~P~iivvNK~D~~~a  138 (267)
T cd04169          84 FSEDT-YRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRL-RGIPIITFINKLDREGR  138 (267)
T ss_pred             HHHHH-HHHHHHCCEEEEEEECCCCccHHHHHHHHHHHh-cCCCEEEEEECCccCCC
Confidence            44445 578899999999999988765544555555544 57999999999998654

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.

>smart00053 DYNc Dynamin, GTPase

Probab=97.88  E-value=5.6e-05  Score=58.54  Aligned_cols=57  Identities=16%  Similarity=0.142  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHhh-hccEEEEEEeCCCCCCCCc-HHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          12 VVVQEIERSVVE-AADVILEVVDARDPMGTRC-KVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        12 ~~~~~~~~~~i~-~aDviL~VvD~~~~~~~~~-~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +.+.+++..+++ .+++||+|+|++..+...+ ..+.+.+.. .++|+++|+||+|..++
T Consensus       149 ~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~-~~~rti~ViTK~D~~~~  207 (240)
T smart00053      149 EQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDP-QGERTIGVITKLDLMDE  207 (240)
T ss_pred             HHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHH-cCCcEEEEEECCCCCCc
Confidence            456666678888 5679999999988777666 577777766 68999999999999876

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=97.87  E-value=3.7e-05  Score=60.15  Aligned_cols=56  Identities=27%  Similarity=0.289  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      .|..+. ..++..+|.+++|+|+..+.......+.+.+.. .+.|.++|+||+|+...
T Consensus        76 ~f~~~~-~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~-~~~p~iivvNK~D~~~~  131 (268)
T cd04170          76 DFVGET-RAALRAADAALVVVSAQSGVEVGTEKLWEFADE-AGIPRIIFINKMDRERA  131 (268)
T ss_pred             HHHHHH-HHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHH-cCCCEEEEEECCccCCC
Confidence            344555 788999999999999998765554555555554 57999999999998754

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

>COG1084 Predicted GTPase [General function prediction only]

Probab=97.84  E-value=0.00015  Score=58.18  Aligned_cols=86  Identities=16%  Similarity=0.076  Sum_probs=53.0

Q ss_pred             hccEEEEEEeCCCCCCCC-c--HHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEee
Q psy8220          24 AADVILEVVDARDPMGTR-C--KVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSS  100 (161)
Q Consensus        24 ~aDviL~VvD~~~~~~~~-~--~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa  100 (161)
                      -+++|||++|++..-+-. +  ..+.+.+......|+++|+||+|+...        +.++.....+..........+++
T Consensus       247 l~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~~p~v~V~nK~D~~~~--------e~~~~~~~~~~~~~~~~~~~~~~  318 (346)
T COG1084         247 LAGVILFLFDPSETCGYSLEEQISLLEEIKELFKAPIVVVINKIDIADE--------EKLEEIEASVLEEGGEEPLKISA  318 (346)
T ss_pred             hcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcCCCeEEEEecccccch--------hHHHHHHHHHHhhccccccceee
Confidence            588999999997542211 1  223333443236899999999999865        32333222232112223567777


Q ss_pred             cCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220         101 RSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ..+                 .+.+.+.+.+...+
T Consensus       319 ~~~-----------------~~~d~~~~~v~~~a  335 (346)
T COG1084         319 TKG-----------------CGLDKLREEVRKTA  335 (346)
T ss_pred             eeh-----------------hhHHHHHHHHHHHh
Confidence            776                 78888888877664

>KOG0073|consensus

Probab=97.82  E-value=0.00015  Score=52.69  Aligned_cols=87  Identities=17%  Similarity=0.218  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHH--Hhh
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQT--WIP   85 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~--~~~   85 (161)
                      ..++..|....+++|.+++|+|.+++..-++  .++.+.+.+.  .++|++++.||.|+.+. .+.    +.+..  -..
T Consensus        71 ~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~-l~~----~~i~~~~~L~  145 (185)
T KOG0073|consen   71 KTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGA-LSL----EEISKALDLE  145 (185)
T ss_pred             chhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccc-cCH----HHHHHhhCHH
Confidence            3578899999999999999999987654222  2333434332  58999999999999754 111    11211  111


Q ss_pred             hhccCCCCceeEEeecCC
Q psy8220          86 YNSIQSIYSSPRFSSRSQ  103 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~  103 (161)
                      .+......+.+..||.++
T Consensus       146 ~l~ks~~~~l~~cs~~tg  163 (185)
T KOG0073|consen  146 ELAKSHHWRLVKCSAVTG  163 (185)
T ss_pred             HhccccCceEEEEecccc
Confidence            221123567888999998

>PTZ00416 elongation factor 2; Provisional

Probab=97.77  E-value=6.4e-05  Score=67.67  Aligned_cols=59  Identities=19%  Similarity=0.241  Sum_probs=49.6

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCC
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKP   67 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~   67 (161)
                      .|.|.  +|..++ ..++..+|.+|+|+|+..++..+.+.+.+.+.. .+.|+|+++||+|+.
T Consensus        99 tPG~~--~f~~~~-~~al~~~D~ailVvda~~g~~~~t~~~~~~~~~-~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         99 SPGHV--DFSSEV-TAALRVTDGALVVVDCVEGVCVQTETVLRQALQ-ERIRPVLFINKVDRA  157 (836)
T ss_pred             CCCHH--hHHHHH-HHHHhcCCeEEEEEECCCCcCccHHHHHHHHHH-cCCCEEEEEEChhhh
Confidence            35553  367777 789999999999999999988888888877766 678999999999986

>KOG1423|consensus

Probab=97.75  E-value=1e-05  Score=64.24  Aligned_cols=20  Identities=30%  Similarity=0.331  Sum_probs=18.0

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +...|+|||.||||||||++
T Consensus        71 k~L~vavIG~PNvGKStLtN   90 (379)
T KOG1423|consen   71 KSLYVAVIGAPNVGKSTLTN   90 (379)
T ss_pred             eEEEEEEEcCCCcchhhhhh
Confidence            45899999999999999975

>KOG0461|consensus

Probab=97.74  E-value=0.00066  Score=55.11  Aligned_cols=104  Identities=15%  Similarity=0.038  Sum_probs=63.5

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHH--HHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC-
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKV--AEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ-   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~--i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-   90 (161)
                      .+.+ .....-.|+.++|+|+..+..++..+  +...+   ..+.+++|+||+|+.+++-+..++.+...+..+-++.. 
T Consensus        84 IRti-iggaqiiDlm~lviDv~kG~QtQtAEcLiig~~---~c~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~  159 (522)
T KOG0461|consen   84 IRTI-IGGAQIIDLMILVIDVQKGKQTQTAECLIIGEL---LCKKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTG  159 (522)
T ss_pred             HHHH-HhhhheeeeeeEEEehhcccccccchhhhhhhh---hccceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcC
Confidence            5555 45666789999999998776544322  22222   24788999999999887322222221111222222211 


Q ss_pred             --CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          91 --SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        91 --~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                        ...|++++||+.|.-             +..++.+|.+.|.+..
T Consensus       160 f~g~~PI~~vsa~~G~~-------------~~~~i~eL~e~l~s~i  192 (522)
T KOG0461|consen  160 FDGNSPIVEVSAADGYF-------------KEEMIQELKEALESRI  192 (522)
T ss_pred             cCCCCceeEEecCCCcc-------------chhHHHHHHHHHHHhh
Confidence              236899999998731             2367889999988654

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=97.72  E-value=0.00014  Score=54.75  Aligned_cols=58  Identities=16%  Similarity=0.039  Sum_probs=38.4

Q ss_pred             CCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          54 GKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        54 ~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ++|.++++||+|+.+..  ..+. .........+.  ...|++.+||+++                 .|+++|++++.++
T Consensus       148 ~~a~iiv~NK~Dl~~~~--~~~~-~~~~~~l~~~~--~~~~i~~~Sa~~g-----------------~gv~~l~~~i~~~  205 (207)
T TIGR00073       148 KEADLIVINKADLAEAV--GFDV-EKMKADAKKIN--PEAEIILMSLKTG-----------------EGLDEWLEFLEGQ  205 (207)
T ss_pred             hhCCEEEEEHHHccccc--hhhH-HHHHHHHHHhC--CCCCEEEEECCCC-----------------CCHHHHHHHHHHh
Confidence            47889999999997531  0001 11122222222  3467999999999                 9999999998765

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>KOG0410|consensus

Probab=97.72  E-value=8.9e-05  Score=59.48  Aligned_cols=93  Identities=18%  Similarity=0.199  Sum_probs=63.5

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCCCCC-------cEEEEeecCCCCCcccccccHH
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGTPGK-------KLVIVINKAGKPSTKIQSGSMA   77 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~~~k-------~~ilVlNK~Dl~~~~~~~~~~~   77 (161)
                      |.+.-.+|-..+  +.+.+||++|+|+|.+.|..+.. +.++.-+.+ -+.       ..|=|-||+|..+..       
T Consensus       241 P~~LvaAF~ATL--eeVaeadlllHvvDiShP~ae~q~e~Vl~vL~~-igv~~~pkl~~mieVdnkiD~e~~~-------  310 (410)
T KOG0410|consen  241 PIQLVAAFQATL--EEVAEADLLLHVVDISHPNAEEQRETVLHVLNQ-IGVPSEPKLQNMIEVDNKIDYEEDE-------  310 (410)
T ss_pred             cHHHHHHHHHHH--HHHhhcceEEEEeecCCccHHHHHHHHHHHHHh-cCCCcHHHHhHHHhhcccccccccc-------
Confidence            555555555554  78899999999999999975433 345555544 233       257788999976541       


Q ss_pred             HHHHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          78 QIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                        .+      .  .....+.+||++|                 .|+++|.+.+.....
T Consensus       311 --~e------~--E~n~~v~isaltg-----------------dgl~el~~a~~~kv~  341 (410)
T KOG0410|consen  311 --VE------E--EKNLDVGISALTG-----------------DGLEELLKAEETKVA  341 (410)
T ss_pred             --Cc------c--ccCCccccccccC-----------------ccHHHHHHHHHHHhh
Confidence              01      1  1233789999999                 999999999876543

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.69  E-value=8.2e-05  Score=44.73  Aligned_cols=43  Identities=26%  Similarity=0.355  Sum_probs=23.5

Q ss_pred             hhccEEEEEEeCCCCCCCCc---HHHHHHHhCC-CCCcEEEEeecCC
Q psy8220          23 EAADVILEVVDARDPMGTRC---KVAEDLVVGT-PGKKLVIVINKAG   65 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~---~~i~~~l~~~-~~k~~ilVlNK~D   65 (161)
                      .-.++|+|++|++..=+..-   ..+.+.++.. .++|++.|+||+|
T Consensus        12 hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~~~P~i~V~nK~D   58 (58)
T PF06858_consen   12 HLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFPNKPVIVVLNKID   58 (58)
T ss_dssp             GT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTTTS-EEEEE--TT
T ss_pred             hhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCEEEEEeccC
Confidence            35789999999986533211   1233334432 4899999999998

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.

>KOG1249|consensus

Probab=97.68  E-value=0.00014  Score=61.48  Aligned_cols=116  Identities=16%  Similarity=0.108  Sum_probs=69.8

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh--hhccC---CCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP--YNSIQ---SIY   93 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~---~~~   93 (161)
                      .++.++--++..|+|..+...+.++.+.+.+.   .+..+++.||+|+.+...+...++. ......  .....   ...
T Consensus       105 ~~~~~~~~~~~~vvd~~d~p~~i~p~~~~~v~---~~~~~v~~n~vdl~p~d~~~~~c~r-c~~l~~~~~vk~~~~en~~  180 (572)
T KOG1249|consen  105 SEKQENPALARKVVDLSDEPCSIDPLLTNDVG---SPRLFVDGNKVDLLPKDSRPGYCQR-CHSLLHYGMIKAGGGENLN  180 (572)
T ss_pred             hhhhhcccceEEeeecccCccccccchhhccc---CCceEeeccccccccccccchHHHH-HHhhcccceeecccccCCC
Confidence            45555645677888887776666666655543   3557999999999886211111111 111000  01100   011


Q ss_pred             c------eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          94 S------SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        94 ~------~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      |      +..+|++++                 +|+++|.-.|.....-+     -.+..+|+.||||||+.+
T Consensus       181 p~~~f~~~~~~r~ktg-----------------yg~eeLI~~lvd~~df~-----Gdf~lvg~tnvgks~~fn  231 (572)
T KOG1249|consen  181 PDFDFDHVDLIRAKTG-----------------YGIEELIVMLVDIVDFR-----GDFYLVGATNVGKSTLFN  231 (572)
T ss_pred             cccchhhhhhhhhhhc-----------------ccHHHHHHHhhheeecc-----CceeeeeecccchhhHHH
Confidence            1      234555555                 99999988887654433     358889999999999873

>KOG0094|consensus

Probab=97.66  E-value=0.00042  Score=51.82  Aligned_cols=103  Identities=14%  Similarity=0.033  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC-C-CCcEEEEeecCCCCCcccccccHHHHHHHHhhh
Q psy8220          11 GVVVQEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT-P-GKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus        11 ~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~-~-~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~   86 (161)
                      +|..+-++-.-+.+|.+++.|.|.++-.+-.  +.++.+...+. . +.-+++|-||.||+++.  +-..    ++-...
T Consensus        81 QERFrslipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkr--qvs~----eEg~~k  154 (221)
T KOG0094|consen   81 QERFRSLIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKR--QVSI----EEGERK  154 (221)
T ss_pred             HHHHhhhhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchh--hhhH----HHHHHH
Confidence            3556666677788999999999998764322  23344444332 2 24567788999999871  1010    110011


Q ss_pred             hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          87 NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      -+ ..+...+..||+.|                 +++.+|.+.|...++..
T Consensus       155 Ak-el~a~f~etsak~g-----------------~NVk~lFrrIaa~l~~~  187 (221)
T KOG0094|consen  155 AK-ELNAEFIETSAKAG-----------------ENVKQLFRRIAAALPGM  187 (221)
T ss_pred             HH-HhCcEEEEecccCC-----------------CCHHHHHHHHHHhccCc
Confidence            11 12345678899998                 99999999998887753

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=97.63  E-value=0.00028  Score=58.67  Aligned_cols=74  Identities=11%  Similarity=0.048  Sum_probs=49.8

Q ss_pred             HHHhh-hccEEEEEE-eCC------CCCCCCcHHHHHHHhCCCCCcEEEEeecCC-CCCcccccccHHHHHHHHhhhhcc
Q psy8220          19 RSVVE-AADVILEVV-DAR------DPMGTRCKVAEDLVVGTPGKKLVIVINKAG-KPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        19 ~~~i~-~aDviL~Vv-D~~------~~~~~~~~~i~~~l~~~~~k~~ilVlNK~D-l~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      ++++. .+|+.|+|. |++      +.....++.+.+.+++ .++|+++|+||+| ..++        .  ....+.+.+
T Consensus       138 ~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~-~~kPfiivlN~~dp~~~e--------t--~~l~~~l~e  206 (492)
T TIGR02836       138 RKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEELKE-LNKPFIILLNSTHPYHPE--------T--EALRQELEE  206 (492)
T ss_pred             HHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHHHh-cCCCEEEEEECcCCCCch--------h--HHHHHHHHH
Confidence            67777 999999999 985      3333445566666776 7999999999999 4333        1  111222222


Q ss_pred             CCCCceeEEeecCC
Q psy8220          90 QSIYSSPRFSSRSQ  103 (161)
Q Consensus        90 ~~~~~~i~iSa~~~  103 (161)
                      ..+.|++++|+..-
T Consensus       207 ky~vpvl~v~c~~l  220 (492)
T TIGR02836       207 KYDVPVLAMDVESM  220 (492)
T ss_pred             HhCCceEEEEHHHc
Confidence            23578899998764

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.

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=97.62  E-value=0.00018  Score=64.84  Aligned_cols=58  Identities=19%  Similarity=0.223  Sum_probs=49.6

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCC
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKP   67 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~   67 (161)
                      |.|  .+|..+. ..++..+|.+|+|+|+..+...+.+.+.+.+.. .+.|+++++||+|..
T Consensus       106 PGh--~dF~~e~-~~al~~~D~ailVvda~~Gv~~~t~~~~~~~~~-~~~p~i~~iNK~D~~  163 (843)
T PLN00116        106 PGH--VDFSSEV-TAALRITDGALVVVDCIEGVCVQTETVLRQALG-ERIRPVLTVNKMDRC  163 (843)
T ss_pred             CCH--HHHHHHH-HHHHhhcCEEEEEEECCCCCcccHHHHHHHHHH-CCCCEEEEEECCccc
Confidence            555  3578888 789999999999999999988888887777766 689999999999987

>KOG1191|consensus

Probab=97.60  E-value=2.7e-05  Score=65.16  Aligned_cols=21  Identities=19%  Similarity=0.282  Sum_probs=18.7

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..++.++|+|.||||||||.+
T Consensus       266 q~gl~iaIvGrPNvGKSSLlN  286 (531)
T KOG1191|consen  266 QSGLQIAIVGRPNVGKSSLLN  286 (531)
T ss_pred             hcCCeEEEEcCCCCCHHHHHH
Confidence            356999999999999999975

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=97.59  E-value=0.00041  Score=52.23  Aligned_cols=107  Identities=15%  Similarity=0.085  Sum_probs=61.7

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      ..++......+|.+++|.|.++..+-.. ..+...+... .+.|+++|.||+|+.....   . .+. ..+...    .+
T Consensus        72 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~i~lv~nK~Dl~~~~~---~-~~~-~~~~~~----~~  142 (215)
T PTZ00132         72 GGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCENIPIVLVGNKVDVKDRQV---K-ARQ-ITFHRK----KN  142 (215)
T ss_pred             hhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccCccccC---C-HHH-HHHHHH----cC
Confidence            3443455678999999999986543211 1122222211 3689999999999864310   0 011 111111    24


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecC
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECN  152 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pN  152 (161)
                      ...+.+||+++                 .|+++....|...+-.+     -++.+++-|=
T Consensus       143 ~~~~e~Sa~~~-----------------~~v~~~f~~ia~~l~~~-----p~~~~ldEp~  180 (215)
T PTZ00132        143 LQYYDISAKSN-----------------YNFEKPFLWLARRLTND-----PNLVFVGAPA  180 (215)
T ss_pred             CEEEEEeCCCC-----------------CCHHHHHHHHHHHHhhc-----ccceecCCcc
Confidence            56789999998                 78888877776655433     2344555443

>KOG0084|consensus

Probab=97.52  E-value=0.0005  Score=51.34  Aligned_cols=100  Identities=16%  Similarity=0.001  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      |..+.+.....+.|+-||+|.|.+...+-.+ ..+...+...  .+.|.++|-||+|+.+..  .... +..+.+...  
T Consensus        69 ERFrtit~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~--~v~~-~~a~~fa~~--  143 (205)
T KOG0084|consen   69 ERFRTITSSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKR--VVST-EEAQEFADE--  143 (205)
T ss_pred             HHHhhhhHhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhhe--ecCH-HHHHHHHHh--
Confidence            5667777778899999999999987533111 2233333332  357999999999997641  1111 111222222  


Q ss_pred             cCCCCc-eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          89 IQSIYS-SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        89 ~~~~~~-~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                        .+.| ....||+..                 .++++....|...+.
T Consensus       144 --~~~~~f~ETSAK~~-----------------~NVe~~F~~la~~lk  172 (205)
T KOG0084|consen  144 --LGIPIFLETSAKDS-----------------TNVEDAFLTLAKELK  172 (205)
T ss_pred             --cCCcceeecccCCc-----------------cCHHHHHHHHHHHHH
Confidence              3455 788899988                 677777776665543

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=97.50  E-value=4.9e-05  Score=61.97  Aligned_cols=19  Identities=32%  Similarity=0.102  Sum_probs=17.3

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+|++||+||||||||+.
T Consensus       189 ~~~ValvG~~NvGKSSLln  207 (351)
T TIGR03156       189 VPTVALVGYTNAGKSTLFN  207 (351)
T ss_pred             CcEEEEECCCCCCHHHHHH
Confidence            4899999999999999974

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).

>TIGR00101 ureG urease accessory protein UreG

Probab=97.49  E-value=0.00059  Score=51.32  Aligned_cols=84  Identities=12%  Similarity=0.075  Sum_probs=51.4

Q ss_pred             ccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCC
Q psy8220          25 ADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQK  104 (161)
Q Consensus        25 aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~  104 (161)
                      +|.++.|+|+........ .....+    ...-++++||+|+.+.-  .... +....+...+.  ...+++.+||+++ 
T Consensus       113 ~~~~i~vvD~~~~~~~~~-~~~~qi----~~ad~~~~~k~d~~~~~--~~~~-~~~~~~~~~~~--~~~~i~~~Sa~~g-  181 (199)
T TIGR00101       113 ADLTIFVIDVAAGDKIPR-KGGPGI----TRSDLLVINKIDLAPMV--GADL-GVMERDAKKMR--GEKPFIFTNLKTK-  181 (199)
T ss_pred             hCcEEEEEEcchhhhhhh-hhHhHh----hhccEEEEEhhhccccc--cccH-HHHHHHHHHhC--CCCCEEEEECCCC-
Confidence            577888999875433111 000111    12338999999998520  0011 22233444433  3567899999999 


Q ss_pred             CcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220         105 DAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus       105 ~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                                      .|+++|.+.|.+++.
T Consensus       182 ----------------~gi~el~~~i~~~~~  196 (199)
T TIGR00101       182 ----------------EGLDTVIDWIEHYAL  196 (199)
T ss_pred             ----------------CCHHHHHHHHHhhcC
Confidence                            999999999987653

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.

>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=97.47  E-value=0.00023  Score=48.35  Aligned_cols=47  Identities=26%  Similarity=0.399  Sum_probs=36.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeec
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINK   63 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK   63 (161)
                      ..+. .+.+..+|++++|+|+..+....+..+.+++.  .++|+++|+||
T Consensus        70 ~~~~-~~~~~~~d~ii~vv~~~~~~~~~~~~~~~~l~--~~~~~i~v~NK  116 (116)
T PF01926_consen   70 IRKF-LEQISKSDLIIYVVDASNPITEDDKNILRELK--NKKPIILVLNK  116 (116)
T ss_dssp             HHHH-HHHHCTESEEEEEEETTSHSHHHHHHHHHHHH--TTSEEEEEEES
T ss_pred             HHHH-HHHHHHCCEEEEEEECCCCCCHHHHHHHHHHh--cCCCEEEEEcC
Confidence            4455 56679999999999988754445566767674  57999999998

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 ....

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=97.45  E-value=3.1e-05  Score=64.01  Aligned_cols=18  Identities=28%  Similarity=0.156  Sum_probs=16.4

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      ..|++||+||||||||+.
T Consensus       160 adValVG~PNaGKSTLln  177 (390)
T PRK12298        160 ADVGLLGLPNAGKSTFIR  177 (390)
T ss_pred             ccEEEEcCCCCCHHHHHH
Confidence            489999999999999975

>PRK07560 elongation factor EF-2; Reviewed

Probab=97.44  E-value=0.00034  Score=62.19  Aligned_cols=59  Identities=20%  Similarity=0.219  Sum_probs=46.6

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCC
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKP   67 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~   67 (161)
                      .|.|..  |..+. ..++..+|.+|+|+|+..+...+...+...+.. .+.|.|+++||+|..
T Consensus        94 tPG~~d--f~~~~-~~~l~~~D~avlVvda~~g~~~~t~~~~~~~~~-~~~~~iv~iNK~D~~  152 (731)
T PRK07560         94 TPGHVD--FGGDV-TRAMRAVDGAIVVVDAVEGVMPQTETVLRQALR-ERVKPVLFINKVDRL  152 (731)
T ss_pred             CCCccC--hHHHH-HHHHHhcCEEEEEEECCCCCCccHHHHHHHHHH-cCCCeEEEEECchhh
Confidence            365533  56666 789999999999999998887777777776544 467889999999976

>KOG0072|consensus

Probab=97.43  E-value=0.00086  Score=47.97  Aligned_cols=102  Identities=15%  Similarity=0.115  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCC--CCCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHH-Hhhhh
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPM--GTRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQT-WIPYN   87 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~--~~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~-~~~~~   87 (161)
                      .++-.|+.-.++.|.+|+|+|.++-.  +..-.++...+.+.  ++..++++.||.|......    ..+.... -...+
T Consensus        74 SirPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~t----~~E~~~~L~l~~L  149 (182)
T KOG0072|consen   74 SIRPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGALT----RSEVLKMLGLQKL  149 (182)
T ss_pred             cccHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhhh----HHHHHHHhChHHH
Confidence            46777888889999999999987542  22223334444332  4677888999999764310    0011111 01122


Q ss_pred             ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          88 SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ++ ....++.-||.++                 .|++..+++|.+-++.
T Consensus       150 k~-r~~~Iv~tSA~kg-----------------~Gld~~~DWL~~~l~~  180 (182)
T KOG0072|consen  150 KD-RIWQIVKTSAVKG-----------------EGLDPAMDWLQRPLKS  180 (182)
T ss_pred             hh-heeEEEeeccccc-----------------cCCcHHHHHHHHHHhc
Confidence            21 1234677888888                 9999999999876643

>COG1084 Predicted GTPase [General function prediction only]

Probab=97.42  E-value=9.2e-05  Score=59.30  Aligned_cols=20  Identities=25%  Similarity=0.024  Sum_probs=16.9

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..-++.|-|+||||||||..
T Consensus       167 ~~pTivVaG~PNVGKSSlv~  186 (346)
T COG1084         167 DLPTIVVAGYPNVGKSSLVR  186 (346)
T ss_pred             CCCeEEEecCCCCcHHHHHH
Confidence            44688899999999999964

>COG3596 Predicted GTPase [General function prediction only]

Probab=97.42  E-value=0.0018  Score=50.91  Aligned_cols=108  Identities=14%  Similarity=0.071  Sum_probs=70.5

Q ss_pred             HHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC-CCCcEEEEeecCCCCCccccc--------ccHHHHH-
Q psy8220          11 GVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQS--------GSMAQIF-   80 (161)
Q Consensus        11 ~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~--------~~~~~~~-   80 (161)
                      +..+++..++.+.+.|++|+++|+.++.-.-|+.+.+.+... .++++++|+|-+|...+.+++        ..+.+.+ 
T Consensus       104 D~~~r~~~~d~l~~~DLvL~l~~~~draL~~d~~f~~dVi~~~~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~  183 (296)
T COG3596         104 DAEHRQLYRDYLPKLDLVLWLIKADDRALGTDEDFLRDVIILGLDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIE  183 (296)
T ss_pred             hHHHHHHHHHHhhhccEEEEeccCCCccccCCHHHHHHHHHhccCceeEEEEehhhhhccccccccccCCCCHHHHHHHH
Confidence            344677778999999999999999988766676655554432 359999999999975441111        0111111 


Q ss_pred             ---HHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          81 ---QTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        81 ---~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                         +...+++.  .-.|+++.+....                 +|+++|...+.+.++..
T Consensus       184 ~k~~~~~~~~q--~V~pV~~~~~r~~-----------------wgl~~l~~ali~~lp~e  224 (296)
T COG3596         184 EKAEALGRLFQ--EVKPVVAVSGRLP-----------------WGLKELVRALITALPVE  224 (296)
T ss_pred             HHHHHHHHHHh--hcCCeEEeccccC-----------------ccHHHHHHHHHHhCccc
Confidence               11222333  2345666665555                 99999999998887743

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=97.40  E-value=6.8e-05  Score=62.93  Aligned_cols=21  Identities=19%  Similarity=0.192  Sum_probs=18.6

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+++|+++|.||||||||++
T Consensus       201 ~~g~kVvIvG~~nvGKSSLiN  221 (442)
T TIGR00450       201 DDGFKLAIVGSPNVGKSSLLN  221 (442)
T ss_pred             hcCCEEEEECCCCCcHHHHHH
Confidence            356899999999999999975

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.

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.40  E-value=0.0012  Score=54.54  Aligned_cols=116  Identities=17%  Similarity=0.115  Sum_probs=62.4

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCC-------CCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcc-cccccHHHHHHHHh
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDP-------MGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTK-IQSGSMAQIFQTWI   84 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~-------~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~-~~~~~~~~~~~~~~   84 (161)
                      |...+ ..-..+||+.++|+|++.+       ...+..+-.-+.+...-..+|+++||.|+++-. .+..++...+....
T Consensus        98 Fvknm-ItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi~~lIVavNKMD~v~wde~rf~ei~~~v~~l~  176 (428)
T COG5256          98 FVKNM-ITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGIKQLIVAVNKMDLVSWDEERFEEIVSEVSKLL  176 (428)
T ss_pred             HHHHh-hcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcCCceEEEEEEcccccccCHHHHHHHHHHHHHHH
Confidence            56666 4677899999999999988       333333322222221236788999999998631 01111112222222


Q ss_pred             hhhccC-CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          85 PYNSIQ-SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        85 ~~~~~~-~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +.+.-. ...+++|+||.+|.+..+..     ....=+.-..|+++|.++-
T Consensus       177 k~~G~~~~~v~FIPiSg~~G~Nl~~~s-----~~~pWY~GpTLleaLd~~~  222 (428)
T COG5256         177 KMVGYNPKDVPFIPISGFKGDNLTKKS-----ENMPWYKGPTLLEALDQLE  222 (428)
T ss_pred             HHcCCCccCCeEEecccccCCcccccC-----cCCcCccCChHHHHHhccC
Confidence            222100 13458999999984332211     0001122467888887443

>TIGR00750 lao LAO/AO transport system ATPase

Probab=97.39  E-value=0.0014  Score=52.24  Aligned_cols=90  Identities=13%  Similarity=0.026  Sum_probs=47.8

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHH-HHHHHHhhhhccC---CCCcee
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMA-QIFQTWIPYNSIQ---SIYSSP   96 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~-~~~~~~~~~~~~~---~~~~~i   96 (161)
                      .++.+|.++++.+..   ...  ++..+.....++|.++|+||+|+.+..  ..... .....-...+...   ...+++
T Consensus       144 i~~~aD~i~vv~~~~---~~~--el~~~~~~l~~~~~ivv~NK~Dl~~~~--~~~~~~~~~~~~l~~l~~~~~~~~~~v~  216 (300)
T TIGR00750       144 IANMADTFVVVTIPG---TGD--DLQGIKAGLMEIADIYVVNKADGEGAT--NVTIARLMLALALEEIRRREDGWRPPVL  216 (300)
T ss_pred             HHHhhceEEEEecCC---ccH--HHHHHHHHHhhhccEEEEEcccccchh--HHHHHHHHHHHHHhhccccccCCCCCEE
Confidence            455567766664422   111  222211111358899999999998651  00000 0000001111110   123589


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ++||.++                 .|+++|.+.|.+..
T Consensus       217 ~iSA~~g-----------------~Gi~~L~~~i~~~~  237 (300)
T TIGR00750       217 TTSAVEG-----------------RGIDELWDAIEEHK  237 (300)
T ss_pred             EEEccCC-----------------CCHHHHHHHHHHHH
Confidence            9999999                 89999998887754

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.

>cd01899 Ygr210 Ygr210 subfamily

Probab=97.38  E-value=0.00052  Score=55.28  Aligned_cols=58  Identities=17%  Similarity=0.072  Sum_probs=41.2

Q ss_pred             CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHH-HHH
Q psy8220          53 PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLML-LLG  131 (161)
Q Consensus        53 ~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~-~l~  131 (161)
                      ..+|+|+|+||+|+...        .....+.....  ...+++++||+.+                 .++++|.+ .+.
T Consensus       213 t~KPvI~VlNK~Dl~~~--------~~~~~~l~~~~--~~~~iI~iSA~~e-----------------~~L~~L~~~~i~  265 (318)
T cd01899         213 RSKPMVIAANKADIPDA--------ENNISKLRLKY--PDEIVVPTSAEAE-----------------LALRRAAKQGLI  265 (318)
T ss_pred             cCCcEEEEEEHHHccCh--------HHHHHHHHhhC--CCCeEEEEeCccc-----------------ccHHHHHHhhHH
Confidence            35899999999998654        21122121111  2456899999998                 89999998 599


Q ss_pred             hHhhcC
Q psy8220         132 NYTRNK  137 (161)
Q Consensus       132 ~~~~~~  137 (161)
                      +++|..
T Consensus       266 ~~lPe~  271 (318)
T cd01899         266 KYDPGD  271 (318)
T ss_pred             HhCCCC
Confidence            998764

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.

>KOG0468|consensus

Probab=97.37  E-value=0.00033  Score=60.86  Aligned_cols=58  Identities=19%  Similarity=0.244  Sum_probs=49.4

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCC
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGK   66 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl   66 (161)
                      +|.|.+  |+.+. ..++..+|.+++|+|+.++..-..+.++++..+ ...|+.+|+||+|.
T Consensus       204 TPGHVn--F~DE~-ta~l~~sDgvVlvvDv~EGVmlntEr~ikhaiq-~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  204 TPGHVN--FSDET-TASLRLSDGVVLVVDVAEGVMLNTERIIKHAIQ-NRLPIVVVINKVDR  261 (971)
T ss_pred             CCCccc--chHHH-HHHhhhcceEEEEEEcccCceeeHHHHHHHHHh-ccCcEEEEEehhHH
Confidence            588887  78998 689999999999999999987666777776655 57999999999995

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=97.34  E-value=9.2e-05  Score=62.26  Aligned_cols=21  Identities=19%  Similarity=0.170  Sum_probs=18.4

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+++|+++|.||||||||+.
T Consensus       213 ~~~~kV~ivG~~nvGKSSLln  233 (449)
T PRK05291        213 REGLKVVIAGRPNVGKSSLLN  233 (449)
T ss_pred             hcCCEEEEECCCCCCHHHHHH
Confidence            346899999999999999974

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=97.33  E-value=4.1e-05  Score=61.62  Aligned_cols=18  Identities=33%  Similarity=0.202  Sum_probs=16.3

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.||+||+||+|||||+.
T Consensus       160 ADVGLVG~PNaGKSTlls  177 (369)
T COG0536         160 ADVGLVGLPNAGKSTLLS  177 (369)
T ss_pred             cccccccCCCCcHHHHHH
Confidence            479999999999999974

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

Probab=97.33  E-value=0.00032  Score=49.95  Aligned_cols=91  Identities=15%  Similarity=0.068  Sum_probs=56.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-C-CCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-P-GKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~-~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      ...+..+|.+++|.|.+++.+-.. ..+...+... . +.|+++|.||.|+....  .... +....+...    .+.+.
T Consensus        66 ~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~--~v~~-~~~~~~~~~----~~~~~  138 (162)
T PF00071_consen   66 DIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDER--EVSV-EEAQEFAKE----LGVPY  138 (162)
T ss_dssp             HHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGS--SSCH-HHHHHHHHH----TTSEE
T ss_pred             cccccccccccccccccccccccccccccccccccccccccceeeeccccccccc--cchh-hHHHHHHHH----hCCEE
Confidence            456889999999999876532111 1233333221 3 58999999999987531  1111 122333332    24778


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +.+||+++                 .|+.++...+.+.
T Consensus       139 ~e~Sa~~~-----------------~~v~~~f~~~i~~  159 (162)
T PF00071_consen  139 FEVSAKNG-----------------ENVKEIFQELIRK  159 (162)
T ss_dssp             EEEBTTTT-----------------TTHHHHHHHHHHH
T ss_pred             EEEECCCC-----------------CCHHHHHHHHHHH
Confidence            99999998                 8888887776543

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 ....

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=97.32  E-value=0.00056  Score=55.55  Aligned_cols=94  Identities=14%  Similarity=0.163  Sum_probs=54.6

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCc---HHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHH
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRC---KVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQ   81 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~---~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~   81 (161)
                      +|.|.  ++-+-++ -=..-||+.++++||+.+..++.   ..+..++   .=+-+++++||+||++-.  .+.+.+...
T Consensus        93 TPGHe--QYTRNMa-TGASTadlAIlLVDAR~Gvl~QTrRHs~I~sLL---GIrhvvvAVNKmDLvdy~--e~~F~~I~~  164 (431)
T COG2895          93 TPGHE--QYTRNMA-TGASTADLAILLVDARKGVLEQTRRHSFIASLL---GIRHVVVAVNKMDLVDYS--EEVFEAIVA  164 (431)
T ss_pred             CCcHH--HHhhhhh-cccccccEEEEEEecchhhHHHhHHHHHHHHHh---CCcEEEEEEeeecccccC--HHHHHHHHH
Confidence            35543  2444452 34568999999999999876543   2344433   236788899999999741  122222222


Q ss_pred             HHhhhhccC--CCCceeEEeecCCCCc
Q psy8220          82 TWIPYNSIQ--SIYSSPRFSSRSQKDA  106 (161)
Q Consensus        82 ~~~~~~~~~--~~~~~i~iSa~~~~~~  106 (161)
                      .+..+....  .....||+||..|.+.
T Consensus       165 dy~~fa~~L~~~~~~~IPiSAl~GDNV  191 (431)
T COG2895         165 DYLAFAAQLGLKDVRFIPISALLGDNV  191 (431)
T ss_pred             HHHHHHHHcCCCcceEEechhccCCcc
Confidence            222222211  1224799999998543

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=97.31  E-value=6e-05  Score=61.08  Aligned_cols=18  Identities=33%  Similarity=0.206  Sum_probs=16.3

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -+|++||+||||||||+.
T Consensus       159 adVglVG~PNaGKSTLln  176 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLIS  176 (335)
T ss_pred             CCEEEEcCCCCCHHHHHH
Confidence            489999999999999974

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=97.29  E-value=0.00065  Score=60.37  Aligned_cols=59  Identities=19%  Similarity=0.171  Sum_probs=45.1

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCC
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPS   68 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~   68 (161)
                      |.|..  |..+. ..++..+|.+|+|+|+..++..+...+.+.+.. .+.|.++++||+|...
T Consensus        94 PG~~~--f~~~~-~~al~~aD~~llVvda~~g~~~~t~~~~~~~~~-~~~p~ivviNKiD~~~  152 (720)
T TIGR00490        94 PGHVD--FGGDV-TRAMRAVDGAIVVVCAVEGVMPQTETVLRQALK-ENVKPVLFINKVDRLI  152 (720)
T ss_pred             CCccc--cHHHH-HHHHHhcCEEEEEEecCCCCCccHHHHHHHHHH-cCCCEEEEEEChhccc
Confidence            55432  34455 688999999999999998877777776666544 5788899999999864

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.

>KOG0093|consensus

Probab=97.27  E-value=0.00073  Score=48.48  Aligned_cols=99  Identities=11%  Similarity=-0.004  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      |.++++.-..+..|+-+|++.|.++..+-. -+.+...+..-  .+.|+|+|.||||+-++.  .... +......+   
T Consensus        81 EryrtiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eR--vis~-e~g~~l~~---  154 (193)
T KOG0093|consen   81 ERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSER--VISH-ERGRQLAD---  154 (193)
T ss_pred             hhhhHHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccce--eeeH-HHHHHHHH---
Confidence            568888777789999999999987643210 11222222221  478999999999997651  1110 11111122   


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       +.++..+.-||+..                 .++..+.+.+....
T Consensus       155 -~LGfefFEtSaK~N-----------------inVk~~Fe~lv~~I  182 (193)
T KOG0093|consen  155 -QLGFEFFETSAKEN-----------------INVKQVFERLVDII  182 (193)
T ss_pred             -HhChHHhhhccccc-----------------ccHHHHHHHHHHHH
Confidence             23566777888877                 88888888776654

>KOG1144|consensus

Probab=97.23  E-value=0.0015  Score=57.56  Aligned_cols=48  Identities=15%  Similarity=0.166  Sum_probs=40.3

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKP   67 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~   67 (161)
                      .+-..-||++|+|+|...++..+..+-+++|+. .+.|+|+++||+|-+
T Consensus       558 srgsslC~~aIlvvdImhGlepqtiESi~lLR~-rktpFivALNKiDRL  605 (1064)
T KOG1144|consen  558 SRGSSLCDLAILVVDIMHGLEPQTIESINLLRM-RKTPFIVALNKIDRL  605 (1064)
T ss_pred             hccccccceEEEEeehhccCCcchhHHHHHHHh-cCCCeEEeehhhhhh
Confidence            456678999999999999987777666777876 689999999999953

>KOG0070|consensus

Probab=97.21  E-value=0.00085  Score=49.50  Aligned_cols=101  Identities=13%  Similarity=0.083  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh-
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY-   86 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~-   86 (161)
                      +.++.+|..-....+.+|||+|+.+...  +.-.++...+...  .+.|+++..||.|+... .   .. ..+...... 
T Consensus        72 ~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~a-l---s~-~ei~~~L~l~  146 (181)
T KOG0070|consen   72 EKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGA-L---SA-AEITNKLGLH  146 (181)
T ss_pred             cccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhcccc-C---CH-HHHHhHhhhh
Confidence            3467788888899999999999987642  2223444545442  36899999999998654 0   00 112222211 


Q ss_pred             -hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          87 -NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        87 -~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                       +.. ...-+-..+|.+|                 .|+.+-+++|.+.+.
T Consensus       147 ~l~~-~~w~iq~~~a~~G-----------------~GL~egl~wl~~~~~  178 (181)
T KOG0070|consen  147 SLRS-RNWHIQSTCAISG-----------------EGLYEGLDWLSNNLK  178 (181)
T ss_pred             ccCC-CCcEEeecccccc-----------------ccHHHHHHHHHHHHh
Confidence             120 1222456677777                 899988888877654

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=97.20  E-value=9.8e-05  Score=61.65  Aligned_cols=18  Identities=33%  Similarity=0.253  Sum_probs=16.4

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      ..|++||+||||||||+.
T Consensus       159 adVglVG~pNaGKSTLLn  176 (424)
T PRK12297        159 ADVGLVGFPNVGKSTLLS  176 (424)
T ss_pred             CcEEEEcCCCCCHHHHHH
Confidence            389999999999999974

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=97.18  E-value=0.00011  Score=62.44  Aligned_cols=18  Identities=28%  Similarity=0.110  Sum_probs=16.6

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      .+|++||+||||||||+.
T Consensus       160 adV~LVG~PNAGKSTLln  177 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLIS  177 (500)
T ss_pred             ceEEEEEcCCCCHHHHHH
Confidence            689999999999999974

>PRK15494 era GTPase Era; Provisional

Probab=97.16  E-value=0.00013  Score=59.16  Aligned_cols=20  Identities=20%  Similarity=0.194  Sum_probs=17.7

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..+|++||.||||||||+.
T Consensus        51 k~~kV~ivG~~nvGKSTLin   70 (339)
T PRK15494         51 KTVSVCIIGRPNSGKSTLLN   70 (339)
T ss_pred             ceeEEEEEcCCCCCHHHHHH
Confidence            34799999999999999974

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.15  E-value=0.00082  Score=53.40  Aligned_cols=56  Identities=13%  Similarity=0.009  Sum_probs=38.2

Q ss_pred             CcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC-CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          55 KKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ-SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        55 k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .+-++|+||+|+++..    .  ..++...+.++.. ...+++++||+++                 .|+++|.++|.+.
T Consensus       231 ~ADIVVLNKiDLl~~~----~--~dle~~~~~lr~lnp~a~I~~vSA~tG-----------------eGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYL----N--FDVEKCIACAREVNPEIEIILISATSG-----------------EGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCccc----H--HHHHHHHHHHHhhCCCCcEEEEECCCC-----------------CCHHHHHHHHHHh
Confidence            4559999999998731    0  1223333333211 3567999999999                 9999999999763

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=97.14  E-value=0.00023  Score=57.00  Aligned_cols=35  Identities=26%  Similarity=0.317  Sum_probs=24.8

Q ss_pred             HHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         124 ELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       124 ~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+|.+.|.++-...  ....+|+++|.|||||||+++
T Consensus        22 ~~l~~~l~~l~~~~--~~~~rIllvGktGVGKSSliN   56 (313)
T TIGR00991        22 TKLLELLGKLKEED--VSSLTILVMGKGGVGKSSTVN   56 (313)
T ss_pred             HHHHHHHHhccccc--ccceEEEEECCCCCCHHHHHH
Confidence            45666655543222  245899999999999999974

>cd01878 HflX HflX subfamily

Probab=97.11  E-value=0.00031  Score=52.35  Aligned_cols=19  Identities=32%  Similarity=0.088  Sum_probs=17.0

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      -.+|+++|.||||||||+.
T Consensus        41 ~~~I~iiG~~g~GKStLl~   59 (204)
T cd01878          41 IPTVALVGYTNAGKSTLFN   59 (204)
T ss_pred             CCeEEEECCCCCCHHHHHH
Confidence            3799999999999999974

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=97.08  E-value=0.00016  Score=58.55  Aligned_cols=18  Identities=33%  Similarity=0.206  Sum_probs=16.4

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -+|++||+||||||||+.
T Consensus       158 adV~lvG~pnaGKSTLl~  175 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLIS  175 (329)
T ss_pred             ccEEEEcCCCCCHHHHHH
Confidence            589999999999999974

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.

>PRK11058 GTPase HflX; Provisional

Probab=97.07  E-value=0.00021  Score=59.77  Aligned_cols=18  Identities=33%  Similarity=0.124  Sum_probs=16.3

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      .+|++||+||||||||++
T Consensus       198 p~ValVG~~NaGKSSLlN  215 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFN  215 (426)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            489999999999999974

>KOG1532|consensus

Probab=97.03  E-value=0.0071  Score=47.85  Aligned_cols=83  Identities=14%  Similarity=0.174  Sum_probs=50.7

Q ss_pred             cEEEEEEeCCCCCCC--C-cH--HHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc-----------
Q psy8220          26 DVILEVVDARDPMGT--R-CK--VAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI-----------   89 (161)
Q Consensus        26 DviL~VvD~~~~~~~--~-~~--~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~-----------   89 (161)
                      -+|++|+|....-..  . ..  -....+-+ ...|+|+|+||+|+.+.        +...+|...+..           
T Consensus       149 tvv~YvvDt~rs~~p~tFMSNMlYAcSilyk-tklp~ivvfNK~Dv~d~--------~fa~eWm~DfE~FqeAl~~~~~~  219 (366)
T KOG1532|consen  149 TVVVYVVDTPRSTSPTTFMSNMLYACSILYK-TKLPFIVVFNKTDVSDS--------EFALEWMTDFEAFQEALNEAESS  219 (366)
T ss_pred             eEEEEEecCCcCCCchhHHHHHHHHHHHHHh-ccCCeEEEEeccccccc--------HHHHHHHHHHHHHHHHHHhhccc
Confidence            478899996432111  1 11  11233333 57899999999999876        334455432210           


Q ss_pred             ----------------CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          90 ----------------QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        90 ----------------~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                                      .....++.+||.+|                 .|.++++.++.+.+
T Consensus       220 y~s~l~~SmSL~leeFY~~lrtv~VSs~tG-----------------~G~ddf~~av~~~v  263 (366)
T KOG1532|consen  220 YMSNLTRSMSLMLEEFYRSLRTVGVSSVTG-----------------EGFDDFFTAVDESV  263 (366)
T ss_pred             hhHHhhhhHHHHHHHHHhhCceEEEecccC-----------------CcHHHHHHHHHHHH
Confidence                            01224678899998                 89888888876544

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=97.03  E-value=0.00016  Score=57.91  Aligned_cols=18  Identities=28%  Similarity=0.117  Sum_probs=16.6

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      .+|++||+||||||||..
T Consensus        64 a~v~lVGfPsvGKStLL~   81 (365)
T COG1163          64 ATVALVGFPSVGKSTLLN   81 (365)
T ss_pred             eEEEEEcCCCccHHHHHH
Confidence            799999999999999964

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=96.97  E-value=0.0048  Score=45.83  Aligned_cols=100  Identities=6%  Similarity=0.027  Sum_probs=60.2

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCC----CCcEEEEeecCCCCCcccccccHHHHH----HHHhhhhccC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTP----GKKLVIVINKAGKPSTKIQSGSMAQIF----QTWIPYNSIQ   90 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~----~k~~ilVlNK~Dl~~~~~~~~~~~~~~----~~~~~~~~~~   90 (161)
                      .......|++|+|+|+.. ++..+..+.+.+.+..    -+++++|+|++|.....    .+.+.+    ..+...+. .
T Consensus        78 ~~~~~g~~~illVi~~~~-~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~----~~~~~~~~~~~~l~~l~~-~  151 (196)
T cd01852          78 SLSAPGPHAFLLVVPLGR-FTEEEEQAVETLQELFGEKVLDHTIVLFTRGDDLEGG----TLEDYLENSCEALKRLLE-K  151 (196)
T ss_pred             HhcCCCCEEEEEEEECCC-cCHHHHHHHHHHHHHhChHhHhcEEEEEECccccCCC----cHHHHHHhccHHHHHHHH-H
Confidence            455678999999999987 6666666666665421    26889999999976541    111100    11111111 1


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      -+...+.|+....            +...+.++++|++.|.+.++.
T Consensus       152 c~~r~~~f~~~~~------------~~~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         152 CGGRYVAFNNKAK------------GEEQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             hCCeEEEEeCCCC------------cchhHHHHHHHHHHHHHHHHh
Confidence            1223456665431            112347899999999998876

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).

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=96.95  E-value=0.0014  Score=49.20  Aligned_cols=61  Identities=15%  Similarity=0.109  Sum_probs=38.1

Q ss_pred             CCcchHHHHHHHHHHHhhhc-cEEEEEEeCCCCCCCCcH---HHHHHHhC---C-CCCcEEEEeecCCCCCc
Q psy8220           6 PMEMRGVVVQEIERSVVEAA-DVILEVVDARDPMGTRCK---VAEDLVVG---T-PGKKLVIVINKAGKPST   69 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~a-DviL~VvD~~~~~~~~~~---~i~~~l~~---~-~~k~~ilVlNK~Dl~~~   69 (161)
                      |.|..   ++..+...+..+ +.+++|+|+.........   .+...+..   . .+.|+++|.||+|+...
T Consensus        56 pG~~~---~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          56 PGHPK---LRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             CCCHH---HHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            55443   344446777888 999999999876321111   11122211   0 37999999999998653

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=96.93  E-value=0.0046  Score=46.60  Aligned_cols=87  Identities=11%  Similarity=0.072  Sum_probs=49.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---------------------CCCCcEEEEeecCCCCCccc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---------------------TPGKKLVIVINKAGKPSTKI   71 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---------------------~~~k~~ilVlNK~Dl~~~~~   71 (161)
                      ++.++...+..+|++|+|.|.+++.+-.. ..+...+..                     ..+.|+++|.||+|+.++..
T Consensus        67 ~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~  146 (202)
T cd04102          67 VKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKE  146 (202)
T ss_pred             HHHHHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcc
Confidence            45555567889999999999988743211 122222211                     02579999999999976410


Q ss_pred             ccccHHHHHHHHhhhhccCCCCceeEEeecCC
Q psy8220          72 QSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQ  103 (161)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~  103 (161)
                      .+..  ..+.. ...+.++.+.|.+.+++...
T Consensus       147 ~~~~--~~~~~-~~~ia~~~~~~~i~~~c~~~  175 (202)
T cd04102         147 SSGN--LVLTA-RGFVAEQGNAEEINLNCTNG  175 (202)
T ss_pred             cchH--HHhhH-hhhHHHhcCCceEEEecCCc
Confidence            0100  11111 11222224677788887754

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=96.80  E-value=0.0032  Score=50.66  Aligned_cols=51  Identities=16%  Similarity=0.100  Sum_probs=39.2

Q ss_pred             CCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          54 GKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        54 ~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      -+|.++|+||+|+.+.        +....    +.  .....+++||..+                 +|+++|.+.|...
T Consensus       239 Y~p~l~v~NKiD~~~~--------e~~~~----l~--~~~~~v~isa~~~-----------------~nld~L~e~i~~~  287 (365)
T COG1163         239 YKPALYVVNKIDLPGL--------EELER----LA--RKPNSVPISAKKG-----------------INLDELKERIWDV  287 (365)
T ss_pred             eeeeEEEEecccccCH--------HHHHH----HH--hccceEEEecccC-----------------CCHHHHHHHHHHh
Confidence            4799999999999875        33332    22  1236899999998                 9999999999887


Q ss_pred             hh
Q psy8220         134 TR  135 (161)
Q Consensus       134 ~~  135 (161)
                      +.
T Consensus       288 L~  289 (365)
T COG1163         288 LG  289 (365)
T ss_pred             hC
Confidence            63

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=96.78  E-value=0.01  Score=47.36  Aligned_cols=55  Identities=20%  Similarity=0.127  Sum_probs=34.4

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcE-EEEeecCCCCCc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKL-VIVINKAGKPST   69 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~-ilVlNK~Dl~~~   69 (161)
                      +.+-+ .--..+.|-.|+|+-|.+++-.+..+=.-+.++ -+.|. ++++||+|+++.
T Consensus        88 YvKNM-ItgAaqmDgAILVVsA~dGpmPqTrEHiLlarq-vGvp~ivvflnK~Dmvdd  143 (394)
T COG0050          88 YVKNM-ITGAAQMDGAILVVAATDGPMPQTREHILLARQ-VGVPYIVVFLNKVDMVDD  143 (394)
T ss_pred             HHHHH-hhhHHhcCccEEEEEcCCCCCCcchhhhhhhhh-cCCcEEEEEEecccccCc
Confidence            44444 345568899999999888765544321111122 46765 455899999985

>KOG1490|consensus

Probab=96.75  E-value=0.0014  Score=55.38  Aligned_cols=21  Identities=24%  Similarity=0.094  Sum_probs=18.1

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+-+..++|+|||||||++.
T Consensus       166 p~trTlllcG~PNVGKSSf~~  186 (620)
T KOG1490|consen  166 PNTRTLLVCGYPNVGKSSFNN  186 (620)
T ss_pred             CCcCeEEEecCCCCCcHhhcc
Confidence            445789999999999999875

>cd01850 CDC_Septin CDC/Septin

Probab=96.75  E-value=0.0039  Score=49.22  Aligned_cols=44  Identities=11%  Similarity=0.036  Sum_probs=34.3

Q ss_pred             hccEEEEEEeCCC-CCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          24 AADVILEVVDARD-PMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        24 ~aDviL~VvD~~~-~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      ++|++++++|+.. ++...|..+.+.+..  +.|+++|+||+|+...
T Consensus       114 rvh~~ly~i~~~~~~l~~~D~~~lk~l~~--~v~vi~VinK~D~l~~  158 (276)
T cd01850         114 RVHACLYFIEPTGHGLKPLDIEFMKRLSK--RVNIIPVIAKADTLTP  158 (276)
T ss_pred             ceEEEEEEEeCCCCCCCHHHHHHHHHHhc--cCCEEEEEECCCcCCH
Confidence            5899999999864 455556666666653  6899999999999764

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.

>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=96.75  E-value=0.0039  Score=44.72  Aligned_cols=48  Identities=27%  Similarity=0.363  Sum_probs=34.3

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCcH-HHHHHHhCCCCCcEEEEeecC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRCK-VAEDLVVGTPGKKLVIVINKA   64 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~~-~i~~~l~~~~~k~~ilVlNK~   64 (161)
                      +++.+.+..+|++|+|+|+..+....+. .+.+.... ....+++|+||+
T Consensus       120 ~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~-~~~~~i~V~nk~  168 (168)
T PF00350_consen  120 EITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDP-DKSRTIFVLNKA  168 (168)
T ss_dssp             HHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTT-TCSSEEEEEE-G
T ss_pred             HHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcC-CCCeEEEEEcCC
Confidence            5557778999999999999987765443 33444433 466799999995

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 ....

>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=96.59  E-value=0.0015  Score=44.15  Aligned_cols=46  Identities=20%  Similarity=0.236  Sum_probs=29.6

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC----CCCcEEEEeecCC
Q psy8220          20 SVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT----PGKKLVIVINKAG   65 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~----~~k~~ilVlNK~D   65 (161)
                      ..+..+|++++|.|.+++.+-.. ..+...+...    .+.|+++|.||.|
T Consensus        69 ~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~~~~piilv~nK~D  119 (119)
T PF08477_consen   69 FFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRDKNIPIILVGNKSD  119 (119)
T ss_dssp             HHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEE-TC
T ss_pred             chhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccCCCCCEEEEEeccC
Confidence            34889999999999987642211 1122222211    3589999999998

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.

>KOG1489|consensus

Probab=96.58  E-value=0.00054  Score=54.83  Aligned_cols=18  Identities=33%  Similarity=0.165  Sum_probs=16.0

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.||.||+||.|||||..
T Consensus       197 advGLVG~PNAGKSTLL~  214 (366)
T KOG1489|consen  197 ADVGLVGFPNAGKSTLLN  214 (366)
T ss_pred             cccceecCCCCcHHHHHH
Confidence            479999999999999864

>KOG1490|consensus

Probab=96.57  E-value=0.0075  Score=51.16  Aligned_cols=73  Identities=14%  Similarity=0.060  Sum_probs=42.3

Q ss_pred             EEEEEEeCCCCCCCCcH---HHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecC
Q psy8220          27 VILEVVDARDPMGTRCK---VAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRS  102 (161)
Q Consensus        27 viL~VvD~~~~~~~~~~---~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~  102 (161)
                      .|||+.|.+.-=+..-.   .+...+... .++|.|+|+||+|+....    .+.+.-++..+.+......+++..|+.+
T Consensus       250 aVLYfmDLSe~CGySva~QvkLfhsIKpLFaNK~~IlvlNK~D~m~~e----dL~~~~~~ll~~~~~~~~v~v~~tS~~~  325 (620)
T KOG1490|consen  250 AVLYFMDLSEMCGYSVAAQVKLYHSIKPLFANKVTILVLNKIDAMRPE----DLDQKNQELLQTIIDDGNVKVVQTSCVQ  325 (620)
T ss_pred             hheeeeechhhhCCCHHHHHHHHHHhHHHhcCCceEEEeecccccCcc----ccCHHHHHHHHHHHhccCceEEEecccc
Confidence            48999998754332211   122223322 489999999999987652    1112222333333322346788889888


Q ss_pred             C
Q psy8220         103 Q  103 (161)
Q Consensus       103 ~  103 (161)
                      .
T Consensus       326 e  326 (620)
T KOG1490|consen  326 E  326 (620)
T ss_pred             h
Confidence            7

>PRK09602 translation-associated GTPase; Reviewed

Probab=96.55  E-value=0.006  Score=50.66  Aligned_cols=55  Identities=20%  Similarity=0.187  Sum_probs=35.2

Q ss_pred             CCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHH-HHHHHHh
Q psy8220          54 GKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAEL-LMLLLGN  132 (161)
Q Consensus        54 ~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~-L~~~l~~  132 (161)
                      .+|+|+|+||+|+....       +.+....+.    .+.+++++||..+                 .++++ |.+.+.+
T Consensus       217 ~KPvI~VlNK~D~~~~~-------~~l~~i~~~----~~~~vvpISA~~e-----------------~~l~~~l~~~i~~  268 (396)
T PRK09602        217 SKPMVIAANKADLPPAE-------ENIERLKEE----KYYIVVPTSAEAE-----------------LALRRAAKAGLID  268 (396)
T ss_pred             CCCEEEEEEchhcccch-------HHHHHHHhc----CCCcEEEEcchhh-----------------hhHHHHHHHhHHh
Confidence            59999999999986431       112222222    2456899999988                 66666 5566655


Q ss_pred             Hhhc
Q psy8220         133 YTRN  136 (161)
Q Consensus       133 ~~~~  136 (161)
                      ++|.
T Consensus       269 ~lp~  272 (396)
T PRK09602        269 YIPG  272 (396)
T ss_pred             hCCC
Confidence            5543

>KOG0095|consensus

Probab=96.54  E-value=0.015  Score=41.91  Aligned_cols=59  Identities=15%  Similarity=0.049  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCCC--CCcEEEEeecCCCCCc
Q psy8220          11 GVVVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGTP--GKKLVIVINKAGKPST   69 (161)
Q Consensus        11 ~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~~--~k~~ilVlNK~Dl~~~   69 (161)
                      .|..+.+...-...|+.+++|-|.+..++-.+ +++...+.+-.  ..-.|+|-||+|+.+.
T Consensus        66 qerfrsitqsyyrsahalilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~dr  127 (213)
T KOG0095|consen   66 QERFRSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADR  127 (213)
T ss_pred             hHHHHHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhh
Confidence            36677776777789999999999876554322 44444443311  2345889999999765

>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=96.54  E-value=0.007  Score=46.82  Aligned_cols=101  Identities=16%  Similarity=0.080  Sum_probs=48.2

Q ss_pred             HHHHHHHHhhh--ccEEEEEEeCCCCCCCCcHHHHHHH------hCCCCCcEEEEeecCCCCCccc--cc------ccHH
Q psy8220          14 VQEIERSVVEA--ADVILEVVDARDPMGTRCKVAEDLV------VGTPGKKLVIVINKAGKPSTKI--QS------GSMA   77 (161)
Q Consensus        14 ~~~~~~~~i~~--aDviL~VvD~~~~~~~~~~~i~~~l------~~~~~k~~ilVlNK~Dl~~~~~--~~------~~~~   77 (161)
                      +..+ .+.+.+  .=++++++|+...... ...+...+      .+ .+.|.|.|+||+|+.++..  ..      ..+.
T Consensus       111 ~~~i-~~~L~~~~~~~~v~LvD~~~~~~~-~~f~s~~L~s~s~~~~-~~lP~vnvlsK~Dl~~~~~~~~l~~~~d~~~l~  187 (238)
T PF03029_consen  111 GRKI-VERLQKNGRLVVVFLVDSSFCSDP-SKFVSSLLLSLSIMLR-LELPHVNVLSKIDLLSKYLEFILEWFEDPDSLE  187 (238)
T ss_dssp             HHHH-HHTSSS----EEEEEE-GGG-SSH-HHHHHHHHHHHHHHHH-HTSEEEEEE--GGGS-HHHHHHHHHHHSHHHHH
T ss_pred             HHHH-HHHHhhhcceEEEEEEecccccCh-hhHHHHHHHHHHHHhh-CCCCEEEeeeccCcccchhHHHHHHhcChHHHH
Confidence            4444 344442  4478999998754321 11122211      11 3799999999999988310  00      0000


Q ss_pred             --------HHHHHHhhhhccCCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          78 --------QIFQTWIPYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        78 --------~~~~~~~~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                              .......+.+...... +++++|+.++                 .|+++|...+.+..
T Consensus       188 ~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~-----------------~~~~~L~~~id~a~  236 (238)
T PF03029_consen  188 DLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDG-----------------EGMEELLAAIDKAN  236 (238)
T ss_dssp             HHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTT-----------------TTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCCh-----------------HHHHHHHHHHHHHh
Confidence                    0001111122211223 5789999998                 99999999987654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.46  E-value=0.0017  Score=51.65  Aligned_cols=20  Identities=15%  Similarity=0.096  Sum_probs=17.4

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +...+||-|.|++||||||-
T Consensus        50 ~a~viGITG~PGaGKSTli~   69 (323)
T COG1703          50 NAHVIGITGVPGAGKSTLIE   69 (323)
T ss_pred             CCcEEEecCCCCCchHHHHH
Confidence            34799999999999999973

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=96.46  E-value=0.011  Score=52.30  Aligned_cols=61  Identities=16%  Similarity=0.171  Sum_probs=52.2

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +|.|.  .|..+. .+++.-+|-++.|+|+..+...+.+.+.++..+ .+.|.++++||.|....
T Consensus        83 TPGHV--DFt~EV-~rslrvlDgavvVvdaveGV~~QTEtv~rqa~~-~~vp~i~fiNKmDR~~a  143 (697)
T COG0480          83 TPGHV--DFTIEV-ERSLRVLDGAVVVVDAVEGVEPQTETVWRQADK-YGVPRILFVNKMDRLGA  143 (697)
T ss_pred             CCCcc--ccHHHH-HHHHHhhcceEEEEECCCCeeecHHHHHHHHhh-cCCCeEEEEECcccccc
Confidence            46665  367788 789999999999999999999898998888776 68999999999997654

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=96.42  E-value=0.016  Score=45.42  Aligned_cols=87  Identities=13%  Similarity=0.100  Sum_probs=47.4

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC-C--CCc
Q psy8220          20 SVVEAADVILEVVDARDPMGTRC--KVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ-S--IYS   94 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~   94 (161)
                      +..+-||.+++|+-+-.+..-+-  .-+.+       ..=|+|+||.|.....    .....+.......... .  ..|
T Consensus       138 ~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimE-------iaDi~vVNKaD~~gA~----~~~~~l~~~l~l~~~~~~~W~pp  206 (266)
T PF03308_consen  138 DIADMADTVVLVLVPGLGDEIQAIKAGIME-------IADIFVVNKADRPGAD----RTVRDLRSMLHLLREREDGWRPP  206 (266)
T ss_dssp             HHHTTSSEEEEEEESSTCCCCCTB-TTHHH-------H-SEEEEE--SHHHHH----HHHHHHHHHHHHCSTSCTSB--E
T ss_pred             HHHHhcCeEEEEecCCCccHHHHHhhhhhh-------hccEEEEeCCChHHHH----HHHHHHHHHHhhccccccCCCCC
Confidence            55678999999986543322111  12222       2339999999954331    0001122222222211 1  236


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ++..||.++                 .|+++|.+.|.++.
T Consensus       207 V~~tsA~~~-----------------~Gi~eL~~~i~~~~  229 (266)
T PF03308_consen  207 VLKTSALEG-----------------EGIDELWEAIDEHR  229 (266)
T ss_dssp             EEEEBTTTT-----------------BSHHHHHHHHHHHH
T ss_pred             EEEEEeCCC-----------------CCHHHHHHHHHHHH
Confidence            888999988                 99999999998764

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.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=96.42  E-value=0.0062  Score=45.65  Aligned_cols=56  Identities=9%  Similarity=-0.015  Sum_probs=37.1

Q ss_pred             cEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          56 KLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        56 ~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .=++|+||.||++.-..  .. +....-...+.  ...|+++.|++++                 .|++++.+++...
T Consensus       144 aDllVInK~DLa~~v~~--dl-evm~~da~~~n--p~~~ii~~n~ktg-----------------~G~~~~~~~i~~~  199 (202)
T COG0378         144 ADLLVINKTDLAPYVGA--DL-EVMARDAKEVN--PEAPIIFTNLKTG-----------------EGLDEWLRFIEPQ  199 (202)
T ss_pred             eeEEEEehHHhHHHhCc--cH-HHHHHHHHHhC--CCCCEEEEeCCCC-----------------cCHHHHHHHHHhh
Confidence            45899999999874100  00 11122222333  4678999999999                 9999999988654

>KOG0466|consensus

Probab=96.38  E-value=0.016  Score=46.61  Aligned_cols=103  Identities=9%  Similarity=0.047  Sum_probs=60.9

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCC----CCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHH
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDP----MGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQ   81 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~----~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~   81 (161)
                      |.|.-.  |..+ ..-..-.|..|+++-+.++    .++......+..   .-+.++++-||+||..+.    +..+.-+
T Consensus       133 PGHDiL--MaTM-LnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM---~LkhiiilQNKiDli~e~----~A~eq~e  202 (466)
T KOG0466|consen  133 PGHDIL--MATM-LNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIM---KLKHIIILQNKIDLIKES----QALEQHE  202 (466)
T ss_pred             CchHHH--HHHH-hcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHh---hhceEEEEechhhhhhHH----HHHHHHH
Confidence            444432  4454 3444456777788877543    222222222222   237788999999998762    0001112


Q ss_pred             HHhhhhc--cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          82 TWIPYNS--IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        82 ~~~~~~~--~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ....++.  ...+.|++++||.-+                 ++++.+.+.|.+..|
T Consensus       203 ~I~kFi~~t~ae~aPiiPisAQlk-----------------yNId~v~eyivkkIP  241 (466)
T KOG0466|consen  203 QIQKFIQGTVAEGAPIIPISAQLK-----------------YNIDVVCEYIVKKIP  241 (466)
T ss_pred             HHHHHHhccccCCCceeeehhhhc-----------------cChHHHHHHHHhcCC
Confidence            2222332  124679999999888                 999999999988775

>KOG0410|consensus

Probab=96.36  E-value=0.0011  Score=53.38  Aligned_cols=18  Identities=28%  Similarity=0.134  Sum_probs=16.5

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.|++|||+|.||||||.
T Consensus       179 pviavVGYTNaGKsTLik  196 (410)
T KOG0410|consen  179 PVIAVVGYTNAGKSTLIK  196 (410)
T ss_pred             ceEEEEeecCccHHHHHH
Confidence            579999999999999985

>KOG0098|consensus

Probab=96.34  E-value=0.0064  Score=45.31  Aligned_cols=84  Identities=13%  Similarity=0.029  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN   87 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~   87 (161)
                      |+.+.+..+-.+.|.=+|+|-|.+...+  ..+.++++ +++.  .+.-++++-||+||....  - --.+.-+.|.+. 
T Consensus        66 e~frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D-~rq~~~~NmvImLiGNKsDL~~rR--~-Vs~EEGeaFA~e-  140 (216)
T KOG0098|consen   66 ESFRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLED-ARQHSNENMVIMLIGNKSDLEARR--E-VSKEEGEAFARE-  140 (216)
T ss_pred             HHHHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHH-HHHhcCCCcEEEEEcchhhhhccc--c-ccHHHHHHHHHH-
Confidence            6677777778889999999999865432  22333333 3322  356788888999997651  0 001223444333 


Q ss_pred             ccCCCCceeEEeecCC
Q psy8220          88 SIQSIYSSPRFSSRSQ  103 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~  103 (161)
                         .+.+....||+++
T Consensus       141 ---hgLifmETSakt~  153 (216)
T KOG0098|consen  141 ---HGLIFMETSAKTA  153 (216)
T ss_pred             ---cCceeehhhhhhh
Confidence               3666678899998

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=96.25  E-value=0.0025  Score=52.42  Aligned_cols=19  Identities=21%  Similarity=0.167  Sum_probs=17.3

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +++|||+|-+++||||||+
T Consensus        35 ~l~IaV~G~sGsGKSSfIN   53 (376)
T PF05049_consen   35 PLNIAVTGESGSGKSSFIN   53 (376)
T ss_dssp             -EEEEEEESTTSSHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHH
Confidence            4899999999999999995

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.

>KOG0087|consensus

Probab=96.25  E-value=0.011  Score=44.66  Aligned_cols=86  Identities=10%  Similarity=-0.129  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh
Q psy8220          11 GVVVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN   87 (161)
Q Consensus        11 ~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~   87 (161)
                      .|.++.+.......|--.|+|-|.+...+-+. +.++..|+.+  .+.++++|-||+||....  ...- +..    ..+
T Consensus        73 QERyrAitSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lr--aV~t-e~~----k~~  145 (222)
T KOG0087|consen   73 QERYRAITSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLR--AVPT-EDG----KAF  145 (222)
T ss_pred             hhhhccccchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhcc--ccch-hhh----HhH
Confidence            35555554444567778999999976543221 3344445543  478899999999996520  0000 111    112


Q ss_pred             ccCCCCceeEEeecCC
Q psy8220          88 SIQSIYSSPRFSSRSQ  103 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~  103 (161)
                      .+..+...+..||+..
T Consensus       146 Ae~~~l~f~EtSAl~~  161 (222)
T KOG0087|consen  146 AEKEGLFFLETSALDA  161 (222)
T ss_pred             HHhcCceEEEeccccc
Confidence            2224566788999987

>KOG0083|consensus

Probab=96.25  E-value=0.0069  Score=42.87  Aligned_cols=99  Identities=11%  Similarity=0.071  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      |..+.+...-..+||.+|++-|..+.-+-. ...+...+.+-  ....+.++-||+|+.++.  -..- +.-+...+   
T Consensus        58 erfrsvt~ayyrda~allllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er--~v~~-ddg~kla~---  131 (192)
T KOG0083|consen   58 ERFRSVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHER--AVKR-DDGEKLAE---  131 (192)
T ss_pred             HHHhhhhHhhhcccceeeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhh--cccc-chHHHHHH---
Confidence            455555556678999999999987653321 22333333221  246788999999997641  0000 11122112   


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       ..+.|....||+++                 .+++.-.-.|.+-+
T Consensus       132 -~y~ipfmetsaktg-----------------~nvd~af~~ia~~l  159 (192)
T KOG0083|consen  132 -AYGIPFMETSAKTG-----------------FNVDLAFLAIAEEL  159 (192)
T ss_pred             -HHCCCceecccccc-----------------ccHhHHHHHHHHHH
Confidence             24688999999999                 77776555555444

>KOG0071|consensus

Probab=96.21  E-value=0.018  Score=41.12  Aligned_cols=58  Identities=16%  Similarity=0.178  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPST   69 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~   69 (161)
                      ..++.+|+.-.....-+|||+|+.+...  +...++-..+.+.  ...++++..||.|+...
T Consensus        72 d~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A  133 (180)
T KOG0071|consen   72 DKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDA  133 (180)
T ss_pred             hhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccc
Confidence            3477888888889999999999865421  1223444444331  35788888999999754

>PLN00023 GTP-binding protein; Provisional

Probab=96.19  E-value=0.0063  Score=49.23  Aligned_cols=58  Identities=12%  Similarity=0.028  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--------------CCCcEEEEeecCCCCCc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--------------PGKKLVIVINKAGKPST   69 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--------------~~k~~ilVlNK~Dl~~~   69 (161)
                      +.++.++...+..+|.+|+|.|.++..+-.. ..+.+.+...              .+.|+++|.||+||.++
T Consensus        94 ErfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~  166 (334)
T PLN00023         94 ERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPK  166 (334)
T ss_pred             hhhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccccc
Confidence            3455666667899999999999987532211 1233333321              13689999999999654

>KOG0088|consensus

Probab=96.16  E-value=0.0083  Score=43.68  Aligned_cols=88  Identities=18%  Similarity=0.009  Sum_probs=52.2

Q ss_pred             hhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEe
Q psy8220          23 EAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFS   99 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iS   99 (161)
                      ..+|-+|+|.|.++..+-+. ..+...++..  ....+++|-||+||-++  +....++    -..|.+ ..+.-.+..|
T Consensus        84 RgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEee--R~Vt~qe----Ae~YAe-svGA~y~eTS  156 (218)
T KOG0088|consen   84 RGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEE--RQVTRQE----AEAYAE-SVGALYMETS  156 (218)
T ss_pred             eCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHh--hhhhHHH----HHHHHH-hhchhheecc
Confidence            46888999999876532111 2233333331  24678999999999654  1111111    111211 1244467788


Q ss_pred             ecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220         100 SRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus       100 a~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      |+..                 .|+.+|.+.|-+.+
T Consensus       157 Ak~N-----------------~Gi~elFe~Lt~~M  174 (218)
T KOG0088|consen  157 AKDN-----------------VGISELFESLTAKM  174 (218)
T ss_pred             cccc-----------------cCHHHHHHHHHHHH
Confidence            8887                 99999999886554

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=96.14  E-value=0.035  Score=45.91  Aligned_cols=46  Identities=20%  Similarity=0.173  Sum_probs=29.7

Q ss_pred             hhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          23 EAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      .+.|-.++++-|.++++..-.+=...... .+-|+|+|++|+|+.+.
T Consensus       225 qk~dYglLvVaAddG~~~~tkEHLgi~~a-~~lPviVvvTK~D~~~d  270 (527)
T COG5258         225 QKVDYGLLVVAADDGVTKMTKEHLGIALA-MELPVIVVVTKIDMVPD  270 (527)
T ss_pred             cccceEEEEEEccCCcchhhhHhhhhhhh-hcCCEEEEEEecccCcH
Confidence            45667777777766655333221222222 47999999999999986

>KOG0395|consensus

Probab=96.04  E-value=0.032  Score=41.86  Aligned_cols=92  Identities=13%  Similarity=0.014  Sum_probs=55.0

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          20 SVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      ..+..+|..++|.+.++..+-.+ ..+.+.+...   ...|+++|.||+|+....  .... +.-..    +......+.
T Consensus        70 ~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R--~V~~-eeg~~----la~~~~~~f  142 (196)
T KOG0395|consen   70 LYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERER--QVSE-EEGKA----LARSWGCAF  142 (196)
T ss_pred             HhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhcc--ccCH-HHHHH----HHHhcCCcE
Confidence            35778899999999877643211 2233333211   246999999999997631  1111 11111    111135667


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +..||+..                 .+++++...|.....
T Consensus       143 ~E~Sak~~-----------------~~v~~~F~~L~r~~~  165 (196)
T KOG0395|consen  143 IETSAKLN-----------------YNVDEVFYELVREIR  165 (196)
T ss_pred             EEeeccCC-----------------cCHHHHHHHHHHHHH
Confidence            88999887                 778887777765443

>PRK05439 pantothenate kinase; Provisional

Probab=96.03  E-value=0.0055  Score=49.25  Aligned_cols=39  Identities=15%  Similarity=0.272  Sum_probs=28.2

Q ss_pred             CHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         122 GAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       122 g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +...+...+..+++......+.-|||-|.|++|||||+.
T Consensus        66 ~~~~~~~~~~~fl~~~~~~~~~iIgIaG~~gsGKSTla~  104 (311)
T PRK05439         66 ANQRLQAALEQFLGKNGQKVPFIIGIAGSVAVGKSTTAR  104 (311)
T ss_pred             hhHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHH
Confidence            344555566666654444567899999999999999863

>COG2262 HflX GTPases [General function prediction only]

Probab=95.95  E-value=0.0062  Score=50.26  Aligned_cols=19  Identities=26%  Similarity=0.022  Sum_probs=16.8

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      --.|++|||+|.|||||.+
T Consensus       192 ~p~vaLvGYTNAGKSTL~N  210 (411)
T COG2262         192 IPLVALVGYTNAGKSTLFN  210 (411)
T ss_pred             CCeEEEEeeccccHHHHHH
Confidence            3689999999999999864

>KOG0394|consensus

Probab=95.81  E-value=0.12  Score=38.55  Aligned_cols=93  Identities=16%  Similarity=0.125  Sum_probs=55.8

Q ss_pred             HHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC-----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          20 SVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT-----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~-----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .-...||.+++|-|...+-+-  .+..=.+++...     ..-|+|++-||+|+...+.+.... .....|-..   ...
T Consensus        77 aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~-~~Aq~WC~s---~gn  152 (210)
T KOG0394|consen   77 AFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSE-KKAQTWCKS---KGN  152 (210)
T ss_pred             ceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeH-HHHHHHHHh---cCC
Confidence            345689999999998766432  222222333321     245899999999986532122221 122344433   246


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +|.+..||+..                 .++++..+.+...
T Consensus       153 ipyfEtSAK~~-----------------~NV~~AFe~ia~~  176 (210)
T KOG0394|consen  153 IPYFETSAKEA-----------------TNVDEAFEEIARR  176 (210)
T ss_pred             ceeEEeccccc-----------------ccHHHHHHHHHHH
Confidence            78899999988                 6777666665443

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=95.78  E-value=0.003  Score=55.40  Aligned_cols=19  Identities=21%  Similarity=0.258  Sum_probs=17.4

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      .++|++||.|||||||+++
T Consensus       118 slrIvLVGKTGVGKSSLIN  136 (763)
T TIGR00993       118 SLNILVLGKSGVGKSATIN  136 (763)
T ss_pred             ceEEEEECCCCCCHHHHHH
Confidence            4799999999999999985

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.

>PLN03210 Resistant to P

Probab=95.75  E-value=0.058  Score=50.56  Aligned_cols=141  Identities=12%  Similarity=0.159  Sum_probs=73.6

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC--CCCCcEEEEeecCCCCCcccccccH------------HHHH
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSM------------AQIF   80 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~------------~~~~   80 (161)
                      ++ .++|+++-+.|.|+-..-..+..+ .++.+.+.-  ..+..++-|+-++|-..-..+.+.+            .+.+
T Consensus        58 ~l-~~~i~~s~~~ivv~s~~ya~s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~~~~~~  136 (1153)
T PLN03210         58 EL-KQAIRDSRIAVVVFSKNYASSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNKTEDEK  136 (1153)
T ss_pred             HH-HHHHHhCeEEEEEecCCcccchHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhcccchhHH
Confidence            44 688899999888886544434333 234443321  1356788889998832111111111            1345


Q ss_pred             HHHhhhhccCCCCceeEEeecCCCCcchh----hh--------hhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEE
Q psy8220          81 QTWIPYNSIQSIYSSPRFSSRSQKDAQTE----RD--------LKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVV  148 (161)
Q Consensus        81 ~~~~~~~~~~~~~~~i~iSa~~~~~~~~~----~~--------~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vv  148 (161)
                      ..|...+.+.....  -+...........    +.        ........-.|++.-++.+...+.... ...-.|+|+
T Consensus       137 ~~w~~al~~~~~~~--g~~~~~~~~E~~~i~~Iv~~v~~~l~~~~~~~~~~~vG~~~~l~~l~~lL~l~~-~~~~vvgI~  213 (1153)
T PLN03210        137 IQWKQALTDVANIL--GYHSQNWPNEAKMIEEIANDVLGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLES-EEVRMVGIW  213 (1153)
T ss_pred             HHHHHHHHHHhCcC--ceecCCCCCHHHHHHHHHHHHHHhhccccCcccccccchHHHHHHHHHHHcccc-CceEEEEEE
Confidence            67777665211111  1111111111111    11        011112344677777777776654321 234579999


Q ss_pred             eecCCCcccccC
Q psy8220         149 GECNIAGSIRDL  160 (161)
Q Consensus       149 G~pNVGKSsl~~  160 (161)
                      |++++|||||+.
T Consensus       214 G~gGiGKTTLA~  225 (1153)
T PLN03210        214 GSSGIGKTTIAR  225 (1153)
T ss_pred             cCCCCchHHHHH
Confidence            999999999974

syringae 6; Provisional

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=95.73  E-value=0.065  Score=44.97  Aligned_cols=50  Identities=16%  Similarity=0.135  Sum_probs=41.2

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      .+.+-.+|..+.|+|+-.++..+...+.+..+- .+.|++-.+||.|-...
T Consensus        99 YRtLtAvDsAvMVIDaAKGiE~qT~KLfeVcrl-R~iPI~TFiNKlDR~~r  148 (528)
T COG4108          99 YRTLTAVDSAVMVIDAAKGIEPQTLKLFEVCRL-RDIPIFTFINKLDREGR  148 (528)
T ss_pred             HHHHHhhheeeEEEecccCccHHHHHHHHHHhh-cCCceEEEeeccccccC
Confidence            566678999999999999988777777776654 68999999999997543

>KOG1486|consensus

Probab=95.73  E-value=0.004  Score=48.68  Aligned_cols=17  Identities=18%  Similarity=0.124  Sum_probs=15.9

Q ss_pred             eEEEEEeecCCCccccc
Q psy8220         143 ITVGVVGECNIAGSIRD  159 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~  159 (161)
                      -||++||+|.||||||.
T Consensus        63 aRValIGfPSVGKStlL   79 (364)
T KOG1486|consen   63 ARVALIGFPSVGKSTLL   79 (364)
T ss_pred             eEEEEecCCCccHHHHH
Confidence            69999999999999985

>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=95.72  E-value=0.011  Score=44.01  Aligned_cols=48  Identities=17%  Similarity=0.167  Sum_probs=28.5

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHHHhC-------C-CCCcEEEEeecCCCCCc
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDLVVG-------T-PGKKLVIVINKAGKPST   69 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~-------~-~~k~~ilVlNK~Dl~~~   69 (161)
                      .+..+-.|+||+|+.... ..-.+.+++|..       . ...|++++.||.|+...
T Consensus        72 ~~~~~k~IIfvvDSs~~~-~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A  127 (181)
T PF09439_consen   72 YLSNAKGIIFVVDSSTDQ-KELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTA  127 (181)
T ss_dssp             HHGGEEEEEEEEETTTHH-HHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred             chhhCCEEEEEEeCccch-hhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccccc
Confidence            577899999999987421 111223333211       1 36799999999998753

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.

>KOG0458|consensus

Probab=95.60  E-value=0.048  Score=46.99  Aligned_cols=118  Identities=16%  Similarity=0.101  Sum_probs=61.7

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCC-------CCcHHHHHHHhCCCCCcEEEEeecCCCCCc-ccccccHHHHHHHHh
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMG-------TRCKVAEDLVVGTPGKKLVIVINKAGKPST-KIQSGSMAQIFQTWI   84 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~-------~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~-~~~~~~~~~~~~~~~   84 (161)
                      |...+ ..-+.+||+.++|+|++.+..       .+-.+....++...-..+|+++||.|+++= +.+-..+...+..++
T Consensus       268 Fi~nm-i~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lgi~qlivaiNKmD~V~Wsq~RF~eIk~~l~~fL  346 (603)
T KOG0458|consen  268 FIPNM-ISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLGISQLIVAINKMDLVSWSQDRFEEIKNKLSSFL  346 (603)
T ss_pred             cchhh-hccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcCcceEEEEeecccccCccHHHHHHHHHHHHHHH
Confidence            45555 456779999999999975432       222344444443123578999999999863 111111111122222


Q ss_pred             -hhhcc-CCCCceeEEeecCCCCcchhh-hhhhhccccccCHHHHHHHHHhHh
Q psy8220          85 -PYNSI-QSIYSSPRFSSRSQKDAQTER-DLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        85 -~~~~~-~~~~~~i~iSa~~~~~~~~~~-~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       +...- ......+|+|+.+|.+-.+.- ...+.++.  .| ..|+..|..+-
T Consensus       347 ~~~~gf~es~v~FIPiSGl~GeNL~k~~~~~~l~~WY--~G-p~LL~~id~~~  396 (603)
T KOG0458|consen  347 KESCGFKESSVKFIPISGLSGENLIKIEQENELSQWY--KG-PTLLSQIDSFK  396 (603)
T ss_pred             HHhcCcccCCcceEecccccCCcccccccchhhhhhh--cC-ChHHHHHhhcc
Confidence             11110 012357999999985443321 11222332  22 46777777643

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.60  E-value=0.01  Score=47.21  Aligned_cols=31  Identities=13%  Similarity=0.255  Sum_probs=22.1

Q ss_pred             HHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         130 LGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       130 l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+++.....+.+.-|||.|.+++|||||+.
T Consensus        50 ~~~f~~~~~~~~p~IIGIaG~~GSGKSTlar   80 (290)
T TIGR00554        50 LEQFLGTNGAKIPYIISIAGSVAVGKSTTAR   80 (290)
T ss_pred             HHHHHhcccCCCCEEEEEECCCCCCHHHHHH
Confidence            3334433323456899999999999999873

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.42  E-value=0.017  Score=46.95  Aligned_cols=20  Identities=15%  Similarity=0.223  Sum_probs=17.8

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+..|+|.|.|++|||||+.
T Consensus        55 ~~~~igi~G~~GaGKSTl~~   74 (332)
T PRK09435         55 NALRIGITGVPGVGKSTFIE   74 (332)
T ss_pred             CcEEEEEECCCCCCHHHHHH
Confidence            45899999999999999874

>KOG0079|consensus

Probab=95.40  E-value=0.088  Score=38.03  Aligned_cols=85  Identities=12%  Similarity=0.020  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      |..+++.....+..+.++.|-|.+.+.+-. ...+++.++.. ...|-++|-||.|+.+..   .-..+....|...   
T Consensus        68 ErFrtitstyyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~ncdsv~~vLVGNK~d~~~Rr---vV~t~dAr~~A~~---  141 (198)
T KOG0079|consen   68 ERFRTITSTYYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNNCDSVPKVLVGNKNDDPERR---VVDTEDARAFALQ---  141 (198)
T ss_pred             HHHHHHHHHHccCCceEEEEEECcchhhhHhHHHHHHHHHhcCccccceecccCCCCccce---eeehHHHHHHHHh---
Confidence            556677555557888999999998765422 23344445442 357889999999987641   1111222333332   


Q ss_pred             CCCCceeEEeecCC
Q psy8220          90 QSIYSSPRFSSRSQ  103 (161)
Q Consensus        90 ~~~~~~i~iSa~~~  103 (161)
                       .+...+..||+..
T Consensus       142 -mgie~FETSaKe~  154 (198)
T KOG0079|consen  142 -MGIELFETSAKEN  154 (198)
T ss_pred             -cCchheehhhhhc
Confidence             3566778898887

>cd03112 CobW_like The function of this protein family is unkown

Probab=95.37  E-value=0.015  Score=41.98  Aligned_cols=58  Identities=17%  Similarity=0.109  Sum_probs=35.0

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCCCCCcEEEEeecCCC
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGTPGKKLVIVINKAGK   66 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~~~k~~ilVlNK~Dl   66 (161)
                      +|.+.+..++.+.+....-+.|.++.|+|+.......  ...+.+.+..   . =++|+||+|+
T Consensus        99 ~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~---a-d~ivlnk~dl  158 (158)
T cd03112          99 DPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAF---A-DRILLNKTDL  158 (158)
T ss_pred             CHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHH---C-CEEEEecccC
Confidence            3444554444443456777899999999986543211  1233444432   2 2669999996

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.

>smart00275 G_alpha G protein alpha subunit

Probab=95.37  E-value=0.017  Score=47.08  Aligned_cols=56  Identities=7%  Similarity=0.004  Sum_probs=37.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC--------C-Cc--HHHHHHHhCC---CCCcEEEEeecCCCCCc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG--------T-RC--KVAEDLVVGT---PGKKLVIVINKAGKPST   69 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~--------~-~~--~~i~~~l~~~---~~k~~ilVlNK~Dl~~~   69 (161)
                      .+..|....+.++.|+||+|.++...        . ..  ..+.+.+...   .+.|+++++||.|+..+
T Consensus       197 ~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~~~~  266 (342)
T smart00275      197 ERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDLFEE  266 (342)
T ss_pred             hhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHhHHH
Confidence            56777888899999999999986421        0 00  1111222221   46899999999998653

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG0081|consensus

Probab=95.31  E-value=0.15  Score=37.23  Aligned_cols=85  Identities=9%  Similarity=-0.056  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN   87 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~   87 (161)
                      |..+.+.-.-..+|=-.|++.|.+...+-.+ ..+...++.+   .+..+++.-||+||....       ...+.....+
T Consensus        78 ERFRSLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R-------~Vs~~qa~~L  150 (219)
T KOG0081|consen   78 ERFRSLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQR-------VVSEDQAAAL  150 (219)
T ss_pred             HHHHHHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhh-------hhhHHHHHHH
Confidence            4445554334455666788999875432111 2233333322   245688889999997641       1111112223


Q ss_pred             ccCCCCceeEEeecCC
Q psy8220          88 SIQSIYSSPRFSSRSQ  103 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~  103 (161)
                      ..+.+.|.+..||.++
T Consensus       151 a~kyglPYfETSA~tg  166 (219)
T KOG0081|consen  151 ADKYGLPYFETSACTG  166 (219)
T ss_pred             HHHhCCCeeeeccccC
Confidence            3335789999999998

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.26  E-value=0.015  Score=46.22  Aligned_cols=20  Identities=5%  Similarity=-0.007  Sum_probs=17.4

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ...-+.++|.||+|||||+.
T Consensus       103 ~~~~v~l~G~pGsGKTTLl~  122 (290)
T PRK10463        103 KQLVLNLVSSPGSGKTTLLT  122 (290)
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            35789999999999999974

>COG3596 Predicted GTPase [General function prediction only]

Probab=95.20  E-value=0.0059  Score=48.13  Aligned_cols=20  Identities=15%  Similarity=0.049  Sum_probs=18.4

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+++|.++|.+++||||||+
T Consensus        38 ~pvnvLi~G~TG~GKSSliN   57 (296)
T COG3596          38 EPVNVLLMGATGAGKSSLIN   57 (296)
T ss_pred             CceeEEEecCCCCcHHHHHH
Confidence            56999999999999999986

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=95.19  E-value=0.5  Score=35.11  Aligned_cols=58  Identities=14%  Similarity=0.002  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCCC--CCcEEEEeecCCCCCc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGTP--GKKLVIVINKAGKPST   69 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~~--~k~~ilVlNK~Dl~~~   69 (161)
                      +.++.++......++.++++.|........+  +.+...+....  ..|+++|.||+|+...
T Consensus        65 ~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~  126 (219)
T COG1100          65 EEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDE  126 (219)
T ss_pred             HHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccc
Confidence            4456676677789999999999876433221  23333333322  5899999999999765

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=95.17  E-value=0.019  Score=50.58  Aligned_cols=40  Identities=13%  Similarity=0.050  Sum_probs=30.3

Q ss_pred             cCHHHHHHHHHhHhhcC---CCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNK---DIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~---~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +|+++..+.|.+|+.-.   ....+--+++||.|+|||+||..
T Consensus       326 YGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgk  368 (782)
T COG0466         326 YGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGK  368 (782)
T ss_pred             cCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHH
Confidence            89999999999987421   12233457788999999999853

>cd00066 G-alpha G protein alpha subunit

Probab=95.16  E-value=0.018  Score=46.37  Aligned_cols=56  Identities=11%  Similarity=0.036  Sum_probs=36.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCC---------Cc--HH-HHHHHhCC--CCCcEEEEeecCCCCCc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGT---------RC--KV-AEDLVVGT--PGKKLVIVINKAGKPST   69 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~---------~~--~~-i~~~l~~~--~~k~~ilVlNK~Dl~~~   69 (161)
                      .+..|....+.++.|++|+|.++....         ..  .. +...+...  .++|+++++||.|+..+
T Consensus       174 ~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~f~~  243 (317)
T cd00066         174 ERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKDLFEE  243 (317)
T ss_pred             cchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChHHHHH
Confidence            466677788899999999999864210         00  11 12222221  47899999999997654

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.

>smart00763 AAA_PrkA PrkA AAA domain

Probab=95.03  E-value=0.022  Score=46.63  Aligned_cols=40  Identities=15%  Similarity=0.050  Sum_probs=24.2

Q ss_pred             cCHHHHHHHHHhHhhcC--C-CCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNK--D-IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~--~-~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +|.++-++.|.+++...  + .....-++++|.|++|||||+.
T Consensus        54 ~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~   96 (361)
T smart00763       54 FGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVE   96 (361)
T ss_pred             cCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHH
Confidence            56555555555544321  1 1122347889999999999974

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=94.80  E-value=0.022  Score=43.98  Aligned_cols=48  Identities=25%  Similarity=0.414  Sum_probs=32.8

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCC-CcEEEEeecCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGKP   67 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~   67 (161)
                      +..++.+|++|.|+|++..--...+.+.++..+ .+ +++.+|+||+|-.
T Consensus       150 Rg~~~~vD~vivVvDpS~~sl~taeri~~L~~e-lg~k~i~~V~NKv~e~  198 (255)
T COG3640         150 RGTIEGVDLVIVVVDPSYKSLRTAERIKELAEE-LGIKRIFVVLNKVDEE  198 (255)
T ss_pred             cccccCCCEEEEEeCCcHHHHHHHHHHHHHHHH-hCCceEEEEEeeccch
Confidence            556789999999999764321222334443333 46 9999999999954

>cd01882 BMS1 Bms1

Probab=94.75  E-value=0.012  Score=44.98  Aligned_cols=20  Identities=20%  Similarity=0.213  Sum_probs=17.6

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+..|+++|.||+|||||+.
T Consensus        38 ~~~~i~ivG~~~~GKstl~~   57 (225)
T cd01882          38 PPLVVAVVGPPGVGKTTLIK   57 (225)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            45789999999999999973

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=94.58  E-value=0.23  Score=39.77  Aligned_cols=26  Identities=12%  Similarity=-0.017  Sum_probs=22.0

Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .|++-.||.++                 .|+++|.+.|.++..
T Consensus       229 ppv~~t~A~~g-----------------~Gi~~L~~ai~~h~~  254 (323)
T COG1703         229 PPVVTTSALEG-----------------EGIDELWDAIEDHRK  254 (323)
T ss_pred             CceeEeeeccC-----------------CCHHHHHHHHHHHHH
Confidence            35888999998                 899999999987754

>PRK09866 hypothetical protein; Provisional

Probab=94.51  E-value=0.025  Score=49.70  Aligned_cols=18  Identities=17%  Similarity=0.204  Sum_probs=16.8

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      ..++++|.+|+|||||++
T Consensus        70 ~~valvG~sgaGKSTLiN   87 (741)
T PRK09866         70 MVLAIVGTMKAGKSTTIN   87 (741)
T ss_pred             eEEEEECCCCCCHHHHHH
Confidence            789999999999999985

>KOG1547|consensus

Probab=94.50  E-value=0.047  Score=42.55  Aligned_cols=39  Identities=18%  Similarity=0.227  Sum_probs=30.7

Q ss_pred             ccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         120 CVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       120 ~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..|++.+.+.++..+-+.+.  ..+|||||.++-||||||.
T Consensus        26 yvGidtI~~Qm~~k~mk~GF--~FNIMVVgqSglgkstlin   64 (336)
T KOG1547|consen   26 YVGIDTIIEQMRKKTMKTGF--DFNIMVVGQSGLGKSTLIN   64 (336)
T ss_pred             cccHHHHHHHHHHHHHhccC--ceEEEEEecCCCCchhhHH
Confidence            38999999998765543321  2789999999999999985

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=94.38  E-value=0.13  Score=41.67  Aligned_cols=42  Identities=31%  Similarity=0.276  Sum_probs=27.9

Q ss_pred             hccEEEEEEeCCCCCCCCc---HHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          24 AADVILEVVDARDPMGTRC---KVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        24 ~aDviL~VvD~~~~~~~~~---~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      .-|-++-|+|+.......+   ....+++.    --=++|+||+|+++.
T Consensus       116 ~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia----~AD~ivlNK~Dlv~~  160 (323)
T COG0523         116 RLDGVVTVVDAAHFLEGLDAIAELAEDQLA----FADVIVLNKTDLVDA  160 (323)
T ss_pred             eeceEEEEEeHHHhhhhHHHHHHHHHHHHH----hCcEEEEecccCCCH
Confidence            4566999999987654333   22233332    233789999999987

>KOG2486|consensus

Probab=94.36  E-value=0.015  Score=45.98  Aligned_cols=19  Identities=16%  Similarity=0.055  Sum_probs=17.3

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+++++|.+|||||||+.
T Consensus       136 ~pe~~~~g~SNVGKSSLln  154 (320)
T KOG2486|consen  136 RPELAFYGRSNVGKSSLLN  154 (320)
T ss_pred             CceeeeecCCcccHHHHHh
Confidence            4799999999999999985

>KOG0467|consensus

Probab=94.30  E-value=0.068  Score=47.52  Aligned_cols=56  Identities=23%  Similarity=0.228  Sum_probs=44.5

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCC
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAG   65 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~D   65 (161)
                      |.|.-  |--++ ..+..-+|..+.++|+-++..++...+.+.... .+...++|+||+|
T Consensus        80 pghvd--f~sev-ssas~l~d~alvlvdvvegv~~qt~~vlrq~~~-~~~~~~lvinkid  135 (887)
T KOG0467|consen   80 PGHVD--FSSEV-SSASRLSDGALVLVDVVEGVCSQTYAVLRQAWI-EGLKPILVINKID  135 (887)
T ss_pred             CCccc--hhhhh-hhhhhhcCCcEEEEeeccccchhHHHHHHHHHH-ccCceEEEEehhh
Confidence            55553  55666 677888999999999999999888887775443 4678899999999

>PLN02200 adenylate kinase family protein

Probab=94.11  E-value=0.022  Score=43.86  Aligned_cols=20  Identities=20%  Similarity=0.091  Sum_probs=17.1

Q ss_pred             CCceEEEEEeecCCCccccc
Q psy8220         140 KTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~  159 (161)
                      +.+..++|+|.|++||||+.
T Consensus        41 ~~~~ii~I~G~PGSGKsT~a   60 (234)
T PLN02200         41 KTPFITFVLGGPGSGKGTQC   60 (234)
T ss_pred             CCCEEEEEECCCCCCHHHHH
Confidence            34578999999999999985

>KOG1487|consensus

Probab=94.10  E-value=0.025  Score=44.51  Aligned_cols=18  Identities=28%  Similarity=0.165  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -+|+++|+|-||||||..
T Consensus        60 a~vg~vgFPSvGksTl~~   77 (358)
T KOG1487|consen   60 ARVGFVGFPSVGKSTLLS   77 (358)
T ss_pred             eeeeEEecCccchhhhhh
Confidence            489999999999999863

>COG1072 CoaA Panthothenate kinase [Coenzyme metabolism]

Probab=94.09  E-value=0.052  Score=42.83  Aligned_cols=21  Identities=14%  Similarity=0.365  Sum_probs=18.2

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+.-||+-|.|+|||||++.
T Consensus        80 ~~pfIIgiaGsvavGKST~ar  100 (283)
T COG1072          80 QRPFIIGIAGSVAVGKSTTAR  100 (283)
T ss_pred             CCCEEEEeccCccccHHHHHH
Confidence            456899999999999999863

>KOG0054|consensus

Probab=94.00  E-value=0.017  Score=54.57  Aligned_cols=19  Identities=32%  Similarity=0.321  Sum_probs=17.0

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      .=||||||+++.|||||++
T Consensus      1166 ~eKVGIVGRTGaGKSSL~~ 1184 (1381)
T KOG0054|consen 1166 GEKVGIVGRTGAGKSSLIL 1184 (1381)
T ss_pred             CceEEEeCCCCCCHHHHHH
Confidence            3599999999999999985

>PRK14974 cell division protein FtsY; Provisional

Probab=93.99  E-value=0.056  Score=43.96  Aligned_cols=19  Identities=11%  Similarity=0.106  Sum_probs=16.5

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      ++..++++|.|+|||||++
T Consensus       139 ~~~vi~~~G~~GvGKTTti  157 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTI  157 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHH
Confidence            3578999999999999965

>KOG0077|consensus

Probab=93.81  E-value=0.11  Score=38.21  Aligned_cols=57  Identities=21%  Similarity=0.205  Sum_probs=40.2

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC--CCCcEEEEeecCCCCCc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT--PGKKLVIVINKAGKPST   69 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~--~~k~~ilVlNK~Dl~~~   69 (161)
                      --++.|+.-+-.+|.+++++|+-+...-.+  .++...+...  ...|+++..||+|....
T Consensus        76 qArr~wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a  136 (193)
T KOG0077|consen   76 QARRVWKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYA  136 (193)
T ss_pred             HHHHHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCc
Confidence            357788899999999999999977643221  2233222221  46899999999998654

>PRK05428 HPr kinase/phosphorylase; Provisional

Probab=93.78  E-value=0.22  Score=39.99  Aligned_cols=40  Identities=33%  Similarity=0.291  Sum_probs=26.1

Q ss_pred             CHHHHHHHHHhHhhcCCC-----------CCceEEEEEeecCCCcccccCC
Q psy8220         122 GAELLMLLLGNYTRNKDI-----------KTSITVGVVGECNIAGSIRDLE  161 (161)
Q Consensus       122 g~~~L~~~l~~~~~~~~~-----------~~~~~v~vvG~pNVGKSsl~~~  161 (161)
                      .+.+++..|..|+...-.           -.+.=|.+.|.+++|||+++++
T Consensus       115 ~t~~~i~~l~~~L~~~la~~~~iHg~~v~V~G~GvLi~G~SG~GKSelALe  165 (308)
T PRK05428        115 STTRLISKLTNYLDRKLAPRTSVHGVLVDIYGIGVLITGESGIGKSETALE  165 (308)
T ss_pred             cHHHHHHHHHHHHHHHhhhcceeeeEEEEECCEEEEEEcCCCCCHHHHHHH
Confidence            456666666655543210           1235688899999999999864

>KOG2486|consensus

Probab=93.77  E-value=0.064  Score=42.53  Aligned_cols=89  Identities=16%  Similarity=0.096  Sum_probs=55.1

Q ss_pred             EEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccc-cHHHHHHHHhhhh-cc--CCCCceeEEeecCC
Q psy8220          28 ILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSG-SMAQIFQTWIPYN-SI--QSIYSSPRFSSRSQ  103 (161)
Q Consensus        28 iL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~-~~~~~~~~~~~~~-~~--~~~~~~i~iSa~~~  103 (161)
                      +++++|++.|+..-|...++++-+ .+.|..+|+||||-.....+.. +....+......+ +.  ....|-+..|+.+.
T Consensus       223 ~FLLvd~sv~i~~~D~~~i~~~ge-~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~~~f~~~~Pw~~~Ssvt~  301 (320)
T KOG2486|consen  223 VFLLVDASVPIQPTDNPEIAWLGE-NNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIRGVFLVDLPWIYVSSVTS  301 (320)
T ss_pred             eeeeeeccCCCCCCChHHHHHHhh-cCCCeEEeeehhhhhhhccccccCccccceeehhhccccceeccCCceeeecccc
Confidence            678889999988878777888876 6899999999999654311000 0001111101111 10  01234567888887


Q ss_pred             CCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220         104 KDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                                       .|.++|+-.+.+..
T Consensus       302 -----------------~Grd~Ll~~i~q~~  315 (320)
T KOG2486|consen  302 -----------------LGRDLLLLHIAQLR  315 (320)
T ss_pred             -----------------cCceeeeeehhhhh
Confidence                             89999887766543

>KOG1143|consensus

Probab=93.66  E-value=0.49  Score=39.31  Aligned_cols=44  Identities=11%  Similarity=0.081  Sum_probs=30.1

Q ss_pred             ccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          25 ADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        25 aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      -|..++|+.|..+...-.++-..++.. .+.|++++++|+|+..+
T Consensus       275 Ph~A~LvVsA~~Gi~~tTrEHLgl~~A-L~iPfFvlvtK~Dl~~~  318 (591)
T KOG1143|consen  275 PHFACLVVSADRGITWTTREHLGLIAA-LNIPFFVLVTKMDLVDR  318 (591)
T ss_pred             CceEEEEEEcCCCCccccHHHHHHHHH-hCCCeEEEEEeeccccc
Confidence            356777887776655433333333433 47999999999999876

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=93.44  E-value=0.028  Score=45.46  Aligned_cols=18  Identities=22%  Similarity=0.098  Sum_probs=16.2

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -+|+++|.|++|||||+.
T Consensus       163 ~~~~~~G~~~~gkstl~~  180 (325)
T TIGR01526       163 KTVAILGGESTGKSTLVN  180 (325)
T ss_pred             cEEEEECCCCCCHHHHHH
Confidence            479999999999999974

E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.

>PLN03126 Elongation factor Tu; Provisional

Probab=93.41  E-value=0.033  Score=47.40  Aligned_cols=21  Identities=14%  Similarity=0.373  Sum_probs=18.4

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..++++++|.+|+|||||+.
T Consensus        79 k~~~ni~iiGhvd~GKSTLi~   99 (478)
T PLN03126         79 KPHVNIGTIGHVDHGKTTLTA   99 (478)
T ss_pred             CCeeEEEEECCCCCCHHHHHH
Confidence            456899999999999999974

>PLN03127 Elongation factor Tu; Provisional

Probab=93.29  E-value=0.036  Score=46.79  Aligned_cols=21  Identities=19%  Similarity=0.378  Sum_probs=18.4

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..++|+++|.+|+|||||+.
T Consensus        59 k~~~ni~iiGhvd~GKSTL~~   79 (447)
T PLN03127         59 KPHVNVGTIGHVDHGKTTLTA   79 (447)
T ss_pred             CceEEEEEECcCCCCHHHHHH
Confidence            456999999999999999973

>KOG2004|consensus

Probab=93.29  E-value=0.1  Score=46.31  Aligned_cols=39  Identities=10%  Similarity=0.037  Sum_probs=30.7

Q ss_pred             cCHHHHHHHHHhHhhc---CCCCCceEEEEEeecCCCccccc
Q psy8220         121 VGAELLMLLLGNYTRN---KDIKTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~---~~~~~~~~v~vvG~pNVGKSsl~  159 (161)
                      +|++.+.+.|.+++.-   ++...+--++++|.|+|||+|+.
T Consensus       414 Ygm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~  455 (906)
T KOG2004|consen  414 YGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIA  455 (906)
T ss_pred             cchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHH
Confidence            8999999999988642   23334456888999999999985

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=93.28  E-value=0.049  Score=47.41  Aligned_cols=40  Identities=15%  Similarity=0.037  Sum_probs=28.4

Q ss_pred             cCHHHHHHHHHhHhhcC---CCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNK---DIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~---~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +|+++-++.|.+++...   ...+..-++++|.|+||||||+.
T Consensus        79 yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~  121 (644)
T PRK15455         79 YGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAE  121 (644)
T ss_pred             cCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHH
Confidence            78888888877766321   11233567889999999999963

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=93.13  E-value=0.038  Score=47.88  Aligned_cols=21  Identities=24%  Similarity=0.107  Sum_probs=0.0

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +.+.-|+|||.|++||||||.
T Consensus        67 PPPfIvavvGPpGtGKsTLir   87 (1077)
T COG5192          67 PPPFIVAVVGPPGTGKSTLIR   87 (1077)
T ss_pred             CCCeEEEeecCCCCChhHHHH

>KOG1954|consensus

Probab=93.01  E-value=0.17  Score=41.80  Aligned_cols=48  Identities=29%  Similarity=0.333  Sum_probs=34.5

Q ss_pred             HhhhccEEEEEEeCCCCC-CCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          21 VVEAADVILEVVDARDPM-GTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~-~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      -++++|.|+++.|+-.-. +..-..++..++. ..-.+-+|+||+|.++.
T Consensus       178 FaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG-~EdkiRVVLNKADqVdt  226 (532)
T KOG1954|consen  178 FAERVDRIILLFDAHKLDISDEFKRVIDALKG-HEDKIRVVLNKADQVDT  226 (532)
T ss_pred             HHHhccEEEEEechhhccccHHHHHHHHHhhC-CcceeEEEeccccccCH
Confidence            467999999999985432 2222455666665 45667789999999987

>KOG1707|consensus

Probab=92.92  E-value=0.19  Score=43.52  Aligned_cols=85  Identities=16%  Similarity=0.036  Sum_probs=50.0

Q ss_pred             HHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .+.+++||+|..|-...++.+-  -...++-++++.    .+.|+|+|-||+|+.....++  ........+..+.+  -
T Consensus        74 ~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s--~e~~~~pim~~f~E--i  149 (625)
T KOG1707|consen   74 RKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNS--DEVNTLPIMIAFAE--I  149 (625)
T ss_pred             HHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccc--hhHHHHHHHHHhHH--H
Confidence            5788999999999987765431  113344445442    258999999999997653211  11112233333331  1


Q ss_pred             CceeEEeecCCCCcc
Q psy8220          93 YSSPRFSSRSQKDAQ  107 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~  107 (161)
                      ...+..||++..+.+
T Consensus       150 EtciecSA~~~~n~~  164 (625)
T KOG1707|consen  150 ETCIECSALTLANVS  164 (625)
T ss_pred             HHHHhhhhhhhhhhH
Confidence            235778888774444

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=92.91  E-value=0.11  Score=41.05  Aligned_cols=19  Identities=11%  Similarity=0.048  Sum_probs=16.1

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+-.++++|.|+|||||++
T Consensus        71 ~~~vi~l~G~~G~GKTTt~   89 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTI   89 (272)
T ss_pred             CCeEEEEECCCCCcHHHHH
Confidence            3467889999999999975

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.

>KOG0460|consensus

Probab=92.89  E-value=1.1  Score=36.75  Aligned_cols=49  Identities=24%  Similarity=0.173  Sum_probs=30.9

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCC-CcEEEEeecCCCCCc
Q psy8220          20 SVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGKPST   69 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~~~   69 (161)
                      --..+-|-.|+|+-|+++.-.+..+=.-+.++ -+ ..+++.+||.|++++
T Consensus       136 tGaaqMDGaILVVaatDG~MPQTrEHlLLArQ-VGV~~ivvfiNKvD~V~d  185 (449)
T KOG0460|consen  136 TGAAQMDGAILVVAATDGPMPQTREHLLLARQ-VGVKHIVVFINKVDLVDD  185 (449)
T ss_pred             cCccccCceEEEEEcCCCCCcchHHHHHHHHH-cCCceEEEEEecccccCC
Confidence            34457788999999988765544331111222 24 445666899999965

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=92.85  E-value=0.089  Score=43.94  Aligned_cols=18  Identities=11%  Similarity=0.248  Sum_probs=16.2

Q ss_pred             ceEEEEEeecCCCccccc
Q psy8220         142 SITVGVVGECNIAGSIRD  159 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~  159 (161)
                      +..+++||.++|||||++
T Consensus       241 ~~vI~LVGptGvGKTTTi  258 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTL  258 (436)
T ss_pred             CcEEEEECCCCCcHHHHH
Confidence            468999999999999986

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=92.84  E-value=0.1  Score=41.28  Aligned_cols=19  Identities=11%  Similarity=0.176  Sum_probs=16.4

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+-.++++|.++|||||++
T Consensus       193 ~~~vi~~vGptGvGKTTt~  211 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTL  211 (282)
T ss_pred             CCeEEEEECCCCCCHHHHH
Confidence            3458999999999999986

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=92.82  E-value=0.096  Score=41.97  Aligned_cols=19  Identities=11%  Similarity=0.100  Sum_probs=16.6

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      ..-.|+++|+|++||||+.
T Consensus       132 ~~~~I~l~G~~GsGKStvg  150 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLG  150 (309)
T ss_pred             CCCEEEEECCCCCCHHHHH
Confidence            4568999999999999985

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=92.76  E-value=0.04  Score=47.18  Aligned_cols=18  Identities=17%  Similarity=0.134  Sum_probs=16.4

Q ss_pred             ceEEEEEeecCCCccccc
Q psy8220         142 SITVGVVGECNIAGSIRD  159 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~  159 (161)
                      +=+|+|+|.+++|||||+
T Consensus       364 GEkvAIlG~SGsGKSTll  381 (573)
T COG4987         364 GEKVAILGRSGSGKSTLL  381 (573)
T ss_pred             CCeEEEECCCCCCHHHHH
Confidence            458999999999999986

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=92.72  E-value=0.046  Score=42.40  Aligned_cols=19  Identities=21%  Similarity=0.198  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +=++|+||.++.|||||..
T Consensus        53 Ge~vGiiG~NGaGKSTLlk   71 (249)
T COG1134          53 GERVGIIGHNGAGKSTLLK   71 (249)
T ss_pred             CCEEEEECCCCCcHHHHHH
Confidence            4589999999999999853

>KOG0074|consensus

Probab=92.72  E-value=0.057  Score=38.69  Aligned_cols=56  Identities=16%  Similarity=0.165  Sum_probs=39.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC--CCCcEEEEeecCCCCCc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT--PGKKLVIVINKAGKPST   69 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~   69 (161)
                      .+-.|....++.|.+|||+|+.+.-.  +..+++.+++.+.  ...|+++-.||.|++..
T Consensus        75 IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdllta  134 (185)
T KOG0074|consen   75 IRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTA  134 (185)
T ss_pred             cchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhh
Confidence            56678888899999999999765422  1223444444332  46799999999998654

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=92.60  E-value=0.047  Score=47.61  Aligned_cols=20  Identities=10%  Similarity=0.011  Sum_probs=17.7

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++.+|+++|.+|+|||||+.
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~  105 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLD  105 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            55789999999999999974

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.

>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=92.55  E-value=0.2  Score=38.65  Aligned_cols=49  Identities=20%  Similarity=0.236  Sum_probs=30.5

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHH---HH---HhC-CCCCcEEEEeecCCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAE---DL---VVG-TPGKKLVIVINKAGKPST   69 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~---~~---l~~-~~~k~~ilVlNK~Dl~~~   69 (161)
                      ....+.++++|||+|+....  .++.+.   +.   +.+ .++..+.+.+.|+|+.++
T Consensus        71 ~~if~~v~~LIyV~D~qs~~--~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~  126 (232)
T PF04670_consen   71 EEIFSNVGVLIYVFDAQSDD--YDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSE  126 (232)
T ss_dssp             HHHHCTESEEEEEEETT-ST--CHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-H
T ss_pred             HHHHhccCEEEEEEEccccc--HHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCH
Confidence            45678999999999998332  222222   21   211 157889999999999876

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.

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=92.45  E-value=0.052  Score=40.40  Aligned_cols=17  Identities=29%  Similarity=0.194  Sum_probs=15.6

Q ss_pred             eEEEEEeecCCCccccc
Q psy8220         143 ITVGVVGECNIAGSIRD  159 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~  159 (161)
                      =.|+|||.++.|||||.
T Consensus        37 e~vaiVG~SGSGKSTLl   53 (228)
T COG4181          37 ETVAIVGPSGSGKSTLL   53 (228)
T ss_pred             ceEEEEcCCCCcHHhHH
Confidence            47999999999999986

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=92.37  E-value=0.11  Score=39.00  Aligned_cols=35  Identities=17%  Similarity=0.011  Sum_probs=23.8

Q ss_pred             HHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      -....+.+++++...   ..--+.+.|.|+||||+|+.
T Consensus        22 ~~~~~~~l~~~~~~~---~~~~lll~G~~G~GKT~la~   56 (226)
T TIGR03420        22 NAELLAALRQLAAGK---GDRFLYLWGESGSGKSHLLQ   56 (226)
T ss_pred             cHHHHHHHHHHHhcC---CCCeEEEECCCCCCHHHHHH
Confidence            345556666654322   23468899999999999863

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=92.30  E-value=0.14  Score=41.41  Aligned_cols=19  Identities=16%  Similarity=0.172  Sum_probs=16.6

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+-.++++|.|++||||++
T Consensus       113 ~~~vi~lvGpnGsGKTTt~  131 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTI  131 (318)
T ss_pred             CCeEEEEECCCCCcHHHHH
Confidence            3568999999999999986

>TIGR00679 hpr-ser Hpr(Ser) kinase/phosphatase

Probab=92.21  E-value=0.7  Score=37.11  Aligned_cols=20  Identities=25%  Similarity=0.366  Sum_probs=16.7

Q ss_pred             ceEEEEEeecCCCcccccCC
Q psy8220         142 SITVGVVGECNIAGSIRDLE  161 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~~  161 (161)
                      +.=|.+.|.+++||||++++
T Consensus       146 g~gvli~G~sg~GKS~lal~  165 (304)
T TIGR00679       146 GVGVLITGKSGVGKSETALE  165 (304)
T ss_pred             CEEEEEEcCCCCCHHHHHHH
Confidence            35688899999999998763

The hprK gene of Enterococcus faecalis encodes a bifunctional enzyme: the HPr kinase/phosphatase

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=92.08  E-value=0.053  Score=33.15  Aligned_cols=16  Identities=13%  Similarity=-0.072  Sum_probs=14.3

Q ss_pred             EEEEEeecCCCccccc
Q psy8220         144 TVGVVGECNIAGSIRD  159 (161)
Q Consensus       144 ~v~vvG~pNVGKSsl~  159 (161)
                      ...|.|..++|||||+
T Consensus        25 ~tli~G~nGsGKSTll   40 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLL   40 (62)
T ss_pred             EEEEECCCCCCHHHHH
Confidence            4788899999999986

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=92.04  E-value=0.12  Score=43.38  Aligned_cols=19  Identities=5%  Similarity=0.167  Sum_probs=17.0

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+-.+++||.++|||||++
T Consensus       190 ~g~vi~lvGpnG~GKTTtl  208 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTT  208 (420)
T ss_pred             CCcEEEEECCCCCCHHHHH
Confidence            4568999999999999987

>KOG0057|consensus

Probab=91.97  E-value=0.057  Score=46.35  Aligned_cols=20  Identities=20%  Similarity=0.074  Sum_probs=17.6

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-+|||||.++.||||+++
T Consensus       377 kGekVaIvG~nGsGKSTilr  396 (591)
T KOG0057|consen  377 KGEKVAIVGSNGSGKSTILR  396 (591)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            45699999999999999874

>KOG0781|consensus

Probab=91.94  E-value=0.17  Score=43.04  Aligned_cols=18  Identities=22%  Similarity=0.318  Sum_probs=16.6

Q ss_pred             CCceEEEEEeecCCCccc
Q psy8220         140 KTSITVGVVGECNIAGSI  157 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSs  157 (161)
                      .+|..|.+||..+|||||
T Consensus       376 krPYVi~fvGVNGVGKST  393 (587)
T KOG0781|consen  376 KRPYVISFVGVNGVGKST  393 (587)
T ss_pred             CCCeEEEEEeecCccccc
Confidence            478999999999999998

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=91.70  E-value=0.14  Score=44.59  Aligned_cols=35  Identities=17%  Similarity=0.026  Sum_probs=22.6

Q ss_pred             HHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         125 LLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       125 ~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..+.|.++.+.+. +.+..|.++|+|++||||+..
T Consensus       376 eV~~iL~~~~~~r~-~~g~~Ivl~Gl~GSGKSTia~  410 (568)
T PRK05537        376 EVVAELRRTYPPRH-KQGFTVFFTGLSGAGKSTIAK  410 (568)
T ss_pred             HHHHHHHHHhcccc-CCCeEEEEECCCCChHHHHHH
Confidence            33333444443332 345688999999999999864

>CHL00189 infB translation initiation factor 2; Provisional

Probab=91.63  E-value=0.072  Score=47.66  Aligned_cols=20  Identities=10%  Similarity=0.024  Sum_probs=17.6

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++..|+|+|.+|+|||||+.
T Consensus       243 r~p~V~IvGhvdvGKTSLld  262 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLD  262 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHH
Confidence            45799999999999999973

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=91.48  E-value=0.07  Score=44.39  Aligned_cols=19  Identities=21%  Similarity=0.050  Sum_probs=16.9

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+|+|+|.+++|||||+.
T Consensus       219 ~~~IvI~G~~gsGKTTL~~  237 (399)
T PRK08099        219 VRTVAILGGESSGKSTLVN  237 (399)
T ss_pred             CcEEEEEcCCCCCHHHHHH
Confidence            3689999999999999974

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=91.46  E-value=0.19  Score=42.20  Aligned_cols=19  Identities=11%  Similarity=-0.041  Sum_probs=16.6

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      ++..|+++|.|||||||++
T Consensus        99 ~~~vi~lvG~~GvGKTTta  117 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTC  117 (429)
T ss_pred             CCeEEEEECCCCCCHHHHH
Confidence            3578999999999999976

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.

>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional

Probab=91.27  E-value=0.16  Score=41.75  Aligned_cols=18  Identities=22%  Similarity=0.121  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      .-++|+|.||+||||||.
T Consensus       206 ~~~~~~g~~~~GKtt~~~  223 (366)
T PRK14489        206 PLLGVVGYSGTGKTTLLE  223 (366)
T ss_pred             cEEEEecCCCCCHHHHHH
Confidence            479999999999999974

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=91.20  E-value=0.075  Score=45.89  Aligned_cols=20  Identities=20%  Similarity=0.102  Sum_probs=17.5

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-++|+||.++.|||||+.
T Consensus       354 ~Ge~vaiVG~sGsGKSTl~~  373 (567)
T COG1132         354 PGEKVAIVGPSGSGKSTLIK  373 (567)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            44689999999999999974

>KOG0086|consensus

Probab=91.07  E-value=1.5  Score=31.96  Aligned_cols=84  Identities=12%  Similarity=0.044  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhC---C--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220          11 GVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVG---T--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus        11 ~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~---~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      .|..+.+.+.-...|.-.++|-|++...+  -..+-+++.+   .  ++.-++++-||.||-+..  ...+.+     ..
T Consensus        68 QErFRSVtRsYYRGAAGAlLVYD~Tsrds--fnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R--~VtflE-----As  138 (214)
T KOG0086|consen   68 QERFRSVTRSYYRGAAGALLVYDITSRDS--FNALTNWLTDARTLASPNIVVILCGNKKDLDPER--EVTFLE-----AS  138 (214)
T ss_pred             HHHHHHHHHHHhccccceEEEEeccchhh--HHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhh--hhhHHH-----HH
Confidence            35667776777788888999999875432  1233333322   1  456678888999997651  111111     11


Q ss_pred             hhccCCCCceeEEeecCC
Q psy8220          86 YNSIQSIYSSPRFSSRSQ  103 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~  103 (161)
                      .+...........||.+|
T Consensus       139 ~FaqEnel~flETSa~TG  156 (214)
T KOG0086|consen  139 RFAQENELMFLETSALTG  156 (214)
T ss_pred             hhhcccceeeeeeccccc
Confidence            222112334567799998

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=91.04  E-value=0.075  Score=47.38  Aligned_cols=19  Identities=21%  Similarity=0.118  Sum_probs=16.7

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +=+|+|||.+++|||||.+
T Consensus       499 Ge~vaIvG~SGsGKSTL~K  517 (709)
T COG2274         499 GEKVAIVGRSGSGKSTLLK  517 (709)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3589999999999999964

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=90.92  E-value=0.14  Score=41.41  Aligned_cols=35  Identities=17%  Similarity=0.074  Sum_probs=23.2

Q ss_pred             HHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +++|...|.......   .+-.+.|.|.|++|||+++.
T Consensus        24 ~~~l~~~l~~~~~~~---~~~~i~I~G~~GtGKT~l~~   58 (365)
T TIGR02928        24 IEELAKALRPILRGS---RPSNVFIYGKTGTGKTAVTK   58 (365)
T ss_pred             HHHHHHHHHHHHcCC---CCCcEEEECCCCCCHHHHHH
Confidence            455555555544321   23468889999999999874

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=90.73  E-value=0.22  Score=41.79  Aligned_cols=17  Identities=18%  Similarity=0.194  Sum_probs=15.2

Q ss_pred             eEEEEEeecCCCccccc
Q psy8220         143 ITVGVVGECNIAGSIRD  159 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~  159 (161)
                      -.++++|.++|||||++
T Consensus       222 ~~i~~vGptGvGKTTt~  238 (424)
T PRK05703        222 GVVALVGPTGVGKTTTL  238 (424)
T ss_pred             cEEEEECCCCCCHHHHH
Confidence            47899999999999975

>PLN02796 D-glycerate 3-kinase

Probab=90.68  E-value=0.11  Score=42.39  Aligned_cols=21  Identities=5%  Similarity=0.115  Sum_probs=18.1

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..++-|||+|.+++|||||+.
T Consensus        98 ~~pliIGI~G~sGSGKSTLa~  118 (347)
T PLN02796         98 IPPLVIGISAPQGCGKTTLVF  118 (347)
T ss_pred             CCCEEEEEECCCCCcHHHHHH
Confidence            356889999999999999963

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=90.56  E-value=0.23  Score=39.85  Aligned_cols=20  Identities=15%  Similarity=0.214  Sum_probs=17.6

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .++.|+|-|.|++||||++.
T Consensus        91 ~p~iIlI~G~sgsGKStlA~  110 (301)
T PRK04220         91 EPIIILIGGASGVGTSTIAF  110 (301)
T ss_pred             CCEEEEEECCCCCCHHHHHH
Confidence            56889999999999999864

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=90.48  E-value=0.22  Score=39.86  Aligned_cols=36  Identities=11%  Similarity=-0.021  Sum_probs=22.7

Q ss_pred             HHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         125 LLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       125 ~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +.++.|.+.+..-...+.-.+++||-+|.|||+++.
T Consensus        44 ~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~   79 (302)
T PF05621_consen   44 EALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIE   79 (302)
T ss_pred             HHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHH
Confidence            444445544432222233469999999999999873

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=90.43  E-value=0.2  Score=41.02  Aligned_cols=18  Identities=11%  Similarity=0.043  Sum_probs=15.6

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+.|.|.|++|||++++
T Consensus        56 ~~~lI~G~~GtGKT~l~~   73 (394)
T PRK00411         56 LNVLIYGPPGTGKTTTVK   73 (394)
T ss_pred             CeEEEECCCCCCHHHHHH
Confidence            458899999999999875

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=90.34  E-value=0.53  Score=34.13  Aligned_cols=49  Identities=24%  Similarity=0.147  Sum_probs=30.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPS   68 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~   68 (161)
                      ..++..||.+++++.+...-...-..+.+.+.. .+.|..+|+||+|...
T Consensus       109 ~~~l~~aD~vliv~~~~~~~~~~~~~~~~~l~~-~~~~~~vV~N~~~~~~  157 (179)
T cd03110         109 IASLTGADAALLVTEPTPSGLHDLERAVELVRH-FGIPVGVVINKYDLND  157 (179)
T ss_pred             HHHHHcCCEEEEEecCCcccHHHHHHHHHHHHH-cCCCEEEEEeCCCCCc
Confidence            456678888888887763311122334444544 4677888999988643

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=90.34  E-value=0.1  Score=44.68  Aligned_cols=20  Identities=15%  Similarity=0.149  Sum_probs=17.5

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++-++++||.++.|||||+.
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~  379 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLM  379 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            45689999999999999974

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>KOG2749|consensus

Probab=90.33  E-value=0.26  Score=40.42  Aligned_cols=38  Identities=13%  Similarity=0.003  Sum_probs=26.3

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCccccc
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~  159 (161)
                      .++...++.++..+.+. ...+-+|++||-.+||||||.
T Consensus        83 lNlH~ale~~R~~~e~~-~~~GPrv~vVGp~d~GKsTl~  120 (415)
T KOG2749|consen   83 LNLHAALEKRRMQAEEE-SSYGPRVMVVGPTDVGKSTLC  120 (415)
T ss_pred             hhHHHHHHHHhhhhhhh-hccCCEEEEECCCccchHHHH
Confidence            45556666655544432 234569999999999999985

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=90.33  E-value=1.2  Score=36.76  Aligned_cols=56  Identities=16%  Similarity=0.118  Sum_probs=35.7

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCC
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGK   66 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl   66 (161)
                      .|.....+++.++   .+.+.|++|.+.+.+  +...+-.+...+.. .++|+.+|.+|+|.
T Consensus        98 t~~f~~~~Yl~~~---~~~~yD~fiii~s~r--f~~ndv~La~~i~~-~gK~fyfVRTKvD~  153 (376)
T PF05049_consen   98 TPNFPPEEYLKEV---KFYRYDFFIIISSER--FTENDVQLAKEIQR-MGKKFYFVRTKVDS  153 (376)
T ss_dssp             GSS--HHHHHHHT---TGGG-SEEEEEESSS----HHHHHHHHHHHH-TT-EEEEEE--HHH
T ss_pred             CCCCCHHHHHHHc---cccccCEEEEEeCCC--CchhhHHHHHHHHH-cCCcEEEEEecccc
Confidence            3444555666655   588999999888754  34556667777776 79999999999995

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.

>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]

Probab=90.29  E-value=0.24  Score=38.85  Aligned_cols=22  Identities=18%  Similarity=0.181  Sum_probs=17.1

Q ss_pred             CCceEEEEEeecCCCcccccCC
Q psy8220         140 KTSITVGVVGECNIAGSIRDLE  161 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~~  161 (161)
                      +.++-|.+=|.|+|||||++.|
T Consensus        87 ~~p~IILIGGasGVGkStIA~E  108 (299)
T COG2074          87 KRPLIILIGGASGVGKSTIAGE  108 (299)
T ss_pred             CCCeEEEecCCCCCChhHHHHH
Confidence            3466677779999999998753

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=90.25  E-value=0.3  Score=41.21  Aligned_cols=19  Identities=16%  Similarity=0.102  Sum_probs=16.7

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+..++++|.|+|||||++
T Consensus        94 ~p~vI~lvG~~GsGKTTta  112 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTA  112 (437)
T ss_pred             CCeEEEEECCCCCcHHHHH
Confidence            4678999999999999976

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=90.18  E-value=0.24  Score=38.21  Aligned_cols=18  Identities=11%  Similarity=-0.053  Sum_probs=15.4

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.++|.|++|||||+.
T Consensus        44 ~~~~l~G~~G~GKTtl~~   61 (269)
T TIGR03015        44 GFILITGEVGAGKTTLIR   61 (269)
T ss_pred             CEEEEEcCCCCCHHHHHH
Confidence            358889999999999874

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=90.13  E-value=0.24  Score=38.52  Aligned_cols=31  Identities=13%  Similarity=0.074  Sum_probs=21.8

Q ss_pred             HHHHHHHHhHhhcCCCCCceEEEEEeecCCCccccc
Q psy8220         124 ELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       124 ~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~  159 (161)
                      +++.+.|....+..     ..+.|.|-+|+||||+.
T Consensus       114 ~~~~~~l~~~v~~~-----~~ili~G~tGSGKTT~l  144 (270)
T PF00437_consen  114 EEIAEFLRSAVRGR-----GNILISGPTGSGKTTLL  144 (270)
T ss_dssp             HHHHHHHHHCHHTT-----EEEEEEESTTSSHHHHH
T ss_pred             HHHHHHHhhccccc-----eEEEEECCCccccchHH
Confidence            44444554444333     58999999999999986

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>KOG0090|consensus

Probab=89.83  E-value=1.5  Score=33.68  Aligned_cols=60  Identities=17%  Similarity=0.220  Sum_probs=35.5

Q ss_pred             CCcchHHHHHHHHHHHhh---hccEEEEEEeCCCCCCCCcHHHHHH----HhCC----CCCcEEEEeecCCCCCc
Q psy8220           6 PMEMRGVVVQEIERSVVE---AADVILEVVDARDPMGTRCKVAEDL----VVGT----PGKKLVIVINKAGKPST   69 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~---~aDviL~VvD~~~~~~~~~~~i~~~----l~~~----~~k~~ilVlNK~Dl~~~   69 (161)
                      |.|.+-  -.++ .+.++   .|-.|+||+|+..... .-....++    +...    ...|++++.||.|+.-.
T Consensus        90 PGH~rl--R~kl-~e~~~~~~~akaiVFVVDSa~f~k-~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tA  160 (238)
T KOG0090|consen   90 PGHSRL--RRKL-LEYLKHNYSAKAIVFVVDSATFLK-NVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTA  160 (238)
T ss_pred             CCcHHH--HHHH-HHHccccccceeEEEEEeccccch-hhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhc
Confidence            555442  2233 34455   7899999999865432 12223333    2221    35789999999998643

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=89.75  E-value=0.56  Score=32.81  Aligned_cols=36  Identities=8%  Similarity=0.120  Sum_probs=27.6

Q ss_pred             HHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccc
Q psy8220         123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIR  158 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl  158 (161)
                      .+.+.++|..++......+++...+=|.|+||||-+
T Consensus        34 ~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v   69 (127)
T PF06309_consen   34 VEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFV   69 (127)
T ss_pred             HHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHH
Confidence            456777777777655455678899999999999854

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>PRK06851 hypothetical protein; Provisional

Probab=89.70  E-value=0.16  Score=41.78  Aligned_cols=18  Identities=11%  Similarity=-0.225  Sum_probs=15.3

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.+.+-|.|++|||||+.
T Consensus       215 ~~~~i~G~pG~GKstl~~  232 (367)
T PRK06851        215 NRYFLKGRPGTGKSTMLK  232 (367)
T ss_pred             eEEEEeCCCCCcHHHHHH
Confidence            358888999999999974

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=89.66  E-value=0.71  Score=36.49  Aligned_cols=47  Identities=30%  Similarity=0.306  Sum_probs=34.8

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCCCCCcEEEEeecCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGTPGKKLVIVINKAGKP   67 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~~~k~~ilVlNK~Dl~   67 (161)
                      ..++..||.+|.|..++ |.+-.| ..+.+.+.. .+.|..+|+||.++.
T Consensus       180 i~sl~~aD~ai~VTEPT-p~glhD~kr~~el~~~-f~ip~~iViNr~~~g  227 (284)
T COG1149         180 IASLKGADLAILVTEPT-PFGLHDLKRALELVEH-FGIPTGIVINRYNLG  227 (284)
T ss_pred             HHhhccCCEEEEEecCC-ccchhHHHHHHHHHHH-hCCceEEEEecCCCC
Confidence            46888999999999876 444444 345555544 689999999999654

>PLN02199 shikimate kinase

Probab=89.60  E-value=0.29  Score=39.24  Aligned_cols=17  Identities=12%  Similarity=0.053  Sum_probs=15.3

Q ss_pred             eEEEEEeecCCCccccc
Q psy8220         143 ITVGVVGECNIAGSIRD  159 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~  159 (161)
                      -.|.+||++++||||+.
T Consensus       103 ~~I~LIG~~GSGKSTVg  119 (303)
T PLN02199        103 RSMYLVGMMGSGKTTVG  119 (303)
T ss_pred             CEEEEECCCCCCHHHHH
Confidence            47999999999999975

>KOG0097|consensus

Probab=89.53  E-value=1.6  Score=31.34  Aligned_cols=83  Identities=14%  Similarity=0.057  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhC---C--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVG---T--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~---~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~   86 (161)
                      |..+.+.+.-...|.-.|+|-|.+..-+  ..++..++.+   .  ++.-++++-||.||-...  .... +.    .+.
T Consensus        71 erfravtrsyyrgaagalmvyditrrst--ynhlsswl~dar~ltnpnt~i~lignkadle~qr--dv~y-ee----ak~  141 (215)
T KOG0097|consen   71 ERFRAVTRSYYRGAAGALMVYDITRRST--YNHLSSWLTDARNLTNPNTVIFLIGNKADLESQR--DVTY-EE----AKE  141 (215)
T ss_pred             HHHHHHHHHHhccccceeEEEEehhhhh--hhhHHHHHhhhhccCCCceEEEEecchhhhhhcc--cCcH-HH----HHH
Confidence            4555665666677888899999865422  2333333332   1  355678888999996541  1111 11    112


Q ss_pred             hccCCCCceeEEeecCC
Q psy8220          87 NSIQSIYSSPRFSSRSQ  103 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~  103 (161)
                      +.+..+.-.+..||+++
T Consensus       142 faeengl~fle~saktg  158 (215)
T KOG0097|consen  142 FAEENGLMFLEASAKTG  158 (215)
T ss_pred             HHhhcCeEEEEeccccc
Confidence            22224556778899998

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=89.45  E-value=0.12  Score=40.09  Aligned_cols=19  Identities=11%  Similarity=0.017  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.+++|||||..
T Consensus        39 Ge~~~i~G~nGsGKSTLl~   57 (260)
T PRK10744         39 NQVTAFIGPSGCGKSTLLR   57 (260)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3579999999999999964

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=89.44  E-value=0.29  Score=42.34  Aligned_cols=37  Identities=14%  Similarity=0.144  Sum_probs=23.5

Q ss_pred             HHHHHHHHHhHhhcCC---CCCceEEEEEeecCCCccccc
Q psy8220         123 AELLMLLLGNYTRNKD---IKTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~---~~~~~~v~vvG~pNVGKSsl~  159 (161)
                      ...++..|.+.++-..   ...+-.++|+|.++|||||++
T Consensus       328 ~~~l~~~L~~~l~v~~~~~l~~G~vIaLVGPtGvGKTTta  367 (559)
T PRK12727        328 RGLMLGLLSKRLPVAPVDPLERGGVIALVGPTGAGKTTTI  367 (559)
T ss_pred             HHHHHHHHHHhcCcCccccccCCCEEEEECCCCCCHHHHH
Confidence            3444455544443211   123468999999999999986

>PRK09183 transposase/IS protein; Provisional

Probab=89.40  E-value=0.26  Score=38.56  Aligned_cols=18  Identities=6%  Similarity=0.185  Sum_probs=15.9

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|-|++|||+|+.
T Consensus       103 ~~v~l~Gp~GtGKThLa~  120 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAI  120 (259)
T ss_pred             CeEEEEeCCCCCHHHHHH
Confidence            579999999999999864

>KOG3905|consensus

Probab=89.37  E-value=0.88  Score=37.18  Aligned_cols=64  Identities=13%  Similarity=0.099  Sum_probs=43.2

Q ss_pred             CCCcEEEEeecCCCCC-----cccccccHHHHHHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHH
Q psy8220          53 PGKKLVIVINKAGKPS-----TKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLM  127 (161)
Q Consensus        53 ~~k~~ilVlNK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~  127 (161)
                      .+.|+++|++|+|.+.     .+++.++++ .+..|++.|.-..+...++.|++..                 .+++-|.
T Consensus       221 lGi~vlVV~TK~D~~s~leke~eyrDehfd-fiq~~lRkFCLr~GaaLiyTSvKE~-----------------KNidlly  282 (473)
T KOG3905|consen  221 LGIPVLVVCTKCDAVSVLEKEHEYRDEHFD-FIQSHLRKFCLRYGAALIYTSVKET-----------------KNIDLLY  282 (473)
T ss_pred             CCCcEEEEEeccchhhHhhhcchhhHHHHH-HHHHHHHHHHHHcCceeEEeecccc-----------------cchHHHH
Confidence            4789999999999842     124445553 3566666553224666788898887                 6788887


Q ss_pred             HHHHhHh
Q psy8220         128 LLLGNYT  134 (161)
Q Consensus       128 ~~l~~~~  134 (161)
                      +.|....
T Consensus       283 KYivhr~  289 (473)
T KOG3905|consen  283 KYIVHRS  289 (473)
T ss_pred             HHHHHHh
Confidence            7776543

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=89.29  E-value=0.15  Score=45.99  Aligned_cols=21  Identities=10%  Similarity=0.001  Sum_probs=18.2

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .++..|+|+|.+|+|||||+.
T Consensus       288 ~R~pvV~ImGhvd~GKTSLl~  308 (787)
T PRK05306        288 PRPPVVTIMGHVDHGKTSLLD  308 (787)
T ss_pred             cCCCEEEEECCCCCCHHHHHH
Confidence            356799999999999999973

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=89.13  E-value=0.15  Score=38.73  Aligned_cols=19  Identities=16%  Similarity=0.169  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.+++|||||+.
T Consensus        48 Ge~~~i~G~nGsGKSTLl~   66 (224)
T cd03220          48 GERIGLIGRNGAGKSTLLR   66 (224)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3479999999999999974

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=89.07  E-value=0.26  Score=44.73  Aligned_cols=38  Identities=11%  Similarity=0.045  Sum_probs=25.6

Q ss_pred             ccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         120 CVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       120 ~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      -.|.++-.+.+.+.+....   .-.+.++|.|+||||+++.
T Consensus       181 ~igr~~ei~~~~~~L~r~~---~~n~lL~G~pGvGKTal~~  218 (821)
T CHL00095        181 VIGREKEIERVIQILGRRT---KNNPILIGEPGVGKTAIAE  218 (821)
T ss_pred             CCCcHHHHHHHHHHHcccc---cCCeEEECCCCCCHHHHHH
Confidence            3566666666666553321   2367899999999999863

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=88.96  E-value=0.34  Score=40.73  Aligned_cols=18  Identities=17%  Similarity=0.001  Sum_probs=15.6

Q ss_pred             ceEEEEEeecCCCccccc
Q psy8220         142 SITVGVVGECNIAGSIRD  159 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~  159 (161)
                      +..++++|.++|||||++
T Consensus       223 ~~vi~lvGptGvGKTTta  240 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSI  240 (432)
T ss_pred             CeEEEEECCCCCCHHHHH
Confidence            356889999999999986

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=88.86  E-value=0.16  Score=38.66  Aligned_cols=18  Identities=17%  Similarity=0.071  Sum_probs=15.9

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|..++|||||+.
T Consensus        36 e~~~l~G~nGsGKSTLl~   53 (233)
T PRK11629         36 EMMAIVGSSGSGKSTLLH   53 (233)
T ss_pred             cEEEEECCCCCCHHHHHH
Confidence            369999999999999974

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=88.85  E-value=0.22  Score=38.75  Aligned_cols=19  Identities=5%  Similarity=0.011  Sum_probs=16.3

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +.+..++|.|||||+||..
T Consensus       137 ~lntLiigpP~~GKTTlLR  155 (308)
T COG3854         137 WLNTLIIGPPQVGKTTLLR  155 (308)
T ss_pred             ceeeEEecCCCCChHHHHH
Confidence            4778999999999999853

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=88.83  E-value=0.41  Score=39.78  Aligned_cols=18  Identities=11%  Similarity=0.075  Sum_probs=15.9

Q ss_pred             ceEEEEEeecCCCccccc
Q psy8220         142 SITVGVVGECNIAGSIRD  159 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~  159 (161)
                      +..+++||.++|||||.+
T Consensus       174 ~~vi~lvGptGvGKTTT~  191 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTI  191 (388)
T ss_pred             CeEEEEECCCCCCHHHHH
Confidence            568999999999999975

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=88.80  E-value=0.16  Score=39.31  Aligned_cols=18  Identities=11%  Similarity=0.028  Sum_probs=16.0

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|.+++|||||+.
T Consensus        39 e~~~l~G~nGsGKSTLl~   56 (259)
T PRK14274         39 EVTAIIGPSGCGKSTFIK   56 (259)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            479999999999999974

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=88.74  E-value=0.15  Score=38.40  Aligned_cols=18  Identities=11%  Similarity=-0.068  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|.++.|||||..
T Consensus        38 e~~~i~G~nGsGKSTLl~   55 (214)
T PRK13543         38 EALLVQGDNGAGKTTLLR   55 (214)
T ss_pred             CEEEEEcCCCCCHHHHHH
Confidence            479999999999999964

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=88.71  E-value=0.28  Score=39.42  Aligned_cols=40  Identities=13%  Similarity=0.014  Sum_probs=25.1

Q ss_pred             cCHHHHHHHHHhHhhcC--CCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNK--DIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~--~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-++..+.+..++...  .....-.+.+.|.|++|||||+.
T Consensus        28 vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~   69 (328)
T PRK00080         28 IGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN   69 (328)
T ss_pred             cCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence            45666666665544321  01122367889999999999874

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=88.70  E-value=0.15  Score=39.83  Aligned_cols=19  Identities=11%  Similarity=0.008  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.+++|||||..
T Consensus        45 Ge~~~i~G~nGsGKSTLl~   63 (267)
T PRK14235         45 KTVTAFIGPSGCGKSTFLR   63 (267)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3579999999999999964

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=88.69  E-value=0.36  Score=40.66  Aligned_cols=21  Identities=5%  Similarity=0.067  Sum_probs=18.4

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+++-|||.|.++.|||||..
T Consensus       210 ~~PlIIGIsG~qGSGKSTLa~  230 (460)
T PLN03046        210 IPPLVIGFSAPQGCGKTTLVF  230 (460)
T ss_pred             CCCEEEEEECCCCCCHHHHHH
Confidence            367999999999999999963

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=88.64  E-value=0.2  Score=39.03  Aligned_cols=20  Identities=5%  Similarity=-0.047  Sum_probs=17.1

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ....+.+.|.|++||||++.
T Consensus        41 ~~~~vll~GppGtGKTtlA~   60 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVAR   60 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHH
Confidence            34689999999999999874

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=88.64  E-value=0.17  Score=39.45  Aligned_cols=19  Identities=11%  Similarity=0.029  Sum_probs=16.4

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.+++|||||+.
T Consensus        47 Ge~~~i~G~nGsGKSTLl~   65 (268)
T PRK14248         47 HAVTALIGPSGCGKSTFLR   65 (268)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3579999999999999964

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=88.64  E-value=0.18  Score=43.70  Aligned_cols=20  Identities=10%  Similarity=0.059  Sum_probs=17.5

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++-+++|||.++.|||||+.
T Consensus       375 ~G~~vaIvG~SGsGKSTL~~  394 (588)
T PRK11174        375 AGQRIALVGPSGAGKTSLLN  394 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            45689999999999999974

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=88.55  E-value=0.19  Score=41.45  Aligned_cols=20  Identities=5%  Similarity=0.131  Sum_probs=16.8

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-.++++|.|+|||||++.
T Consensus       136 ~g~ii~lvGptGvGKTTtia  155 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTA  155 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHH
Confidence            34678899999999999863

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=88.52  E-value=0.34  Score=39.36  Aligned_cols=18  Identities=6%  Similarity=-0.020  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      ..++|.|-+++|||||+.
T Consensus       161 ~nili~G~tgSGKTTll~  178 (332)
T PRK13900        161 KNIIISGGTSTGKTTFTN  178 (332)
T ss_pred             CcEEEECCCCCCHHHHHH
Confidence            579999999999999874

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=88.52  E-value=0.15  Score=39.84  Aligned_cols=19  Identities=11%  Similarity=0.067  Sum_probs=16.7

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.++.|||||+.
T Consensus        50 Ge~~~I~G~nGsGKSTLl~   68 (271)
T PRK14238         50 NEVTAIIGPSGCGKSTYIK   68 (271)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            4589999999999999974

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=88.50  E-value=0.17  Score=39.33  Aligned_cols=19  Identities=16%  Similarity=0.113  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.+++|||||+.
T Consensus        37 Ge~~~i~G~nGsGKSTLl~   55 (265)
T PRK10575         37 GKVTGLIGHNGSGKSTLLK   55 (265)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3579999999999999964

>CHL00181 cbbX CbbX; Provisional

Probab=88.49  E-value=0.32  Score=38.66  Aligned_cols=20  Identities=10%  Similarity=0.179  Sum_probs=17.0

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+..+.+.|-|++||||++.
T Consensus        58 ~~~~ill~G~pGtGKT~lAr   77 (287)
T CHL00181         58 PGLHMSFTGSPGTGKTTVAL   77 (287)
T ss_pred             CCceEEEECCCCCCHHHHHH
Confidence            35678999999999999874

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=88.49  E-value=0.17  Score=40.89  Aligned_cols=20  Identities=10%  Similarity=-0.007  Sum_probs=17.1

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+=.++|+|.++.|||||+.
T Consensus       107 ~Ge~v~IvG~~GsGKSTLl~  126 (329)
T PRK14257        107 RNKVTAFIGPSGCGKSTFLR  126 (329)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            34579999999999999974

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=88.45  E-value=0.16  Score=38.43  Aligned_cols=18  Identities=22%  Similarity=0.202  Sum_probs=16.0

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      =.++++|..++|||||..
T Consensus        37 e~~~i~G~nGsGKSTLl~   54 (228)
T PRK10584         37 ETIALIGESGSGKSTLLA   54 (228)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            479999999999999964

>PTZ00243 ABC transporter; Provisional

Probab=88.40  E-value=0.15  Score=49.24  Aligned_cols=20  Identities=30%  Similarity=0.297  Sum_probs=17.5

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-+|||||.++.|||||+.
T Consensus      1335 ~GekVaIVGrTGSGKSTLl~ 1354 (1560)
T PTZ00243       1335 PREKVGIVGRTGSGKSTLLL 1354 (1560)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            44689999999999999974

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=88.36  E-value=0.17  Score=43.55  Aligned_cols=20  Identities=25%  Similarity=0.135  Sum_probs=17.3

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++-+++|+|.+++|||||+.
T Consensus       357 ~G~~v~IvG~sGsGKSTLl~  376 (571)
T TIGR02203       357 PGETVALVGRSGSGKSTLVN  376 (571)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            44689999999999999974

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=88.35  E-value=0.16  Score=39.55  Aligned_cols=18  Identities=11%  Similarity=-0.014  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|..++|||||+.
T Consensus        37 e~~~i~G~nGsGKSTLl~   54 (264)
T PRK14243         37 QITAFIGPSGCGKSTILR   54 (264)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            479999999999999974

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=88.35  E-value=0.16  Score=40.10  Aligned_cols=18  Identities=17%  Similarity=0.019  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|.+++|||||+.
T Consensus        38 e~~~l~G~nGsGKSTLl~   55 (289)
T PRK13645         38 KVTCVIGTTGSGKSTMIQ   55 (289)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            479999999999999974

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=88.31  E-value=0.17  Score=44.68  Aligned_cols=20  Identities=20%  Similarity=0.059  Sum_probs=17.4

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-+++|||.++.|||||+.
T Consensus       478 ~Ge~vaIvG~sGsGKSTLlk  497 (686)
T TIGR03797       478 PGEFVAIVGPSGSGKSTLLR  497 (686)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            45689999999999999974

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=88.28  E-value=0.45  Score=38.88  Aligned_cols=40  Identities=15%  Similarity=0.037  Sum_probs=26.5

Q ss_pred             cCHHHHHHHHHhHhhc--C--------CCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRN--K--------DIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~--~--------~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|+++-.+.|.+++..  .        +...+-.+.+.|.|++|||+|+.
T Consensus       125 ~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lak  174 (364)
T TIGR01242       125 GGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAK  174 (364)
T ss_pred             CChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHH
Confidence            4667766666665421  0        11234568999999999999874

Many proteins may score above the trusted cutoff because an internal

>PRK06526 transposase; Provisional

Probab=88.25  E-value=0.32  Score=38.01  Aligned_cols=18  Identities=11%  Similarity=0.032  Sum_probs=15.8

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.+.++|.|++|||+|+.
T Consensus        99 ~nlll~Gp~GtGKThLa~  116 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAI  116 (254)
T ss_pred             ceEEEEeCCCCchHHHHH
Confidence            579999999999999863

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=88.17  E-value=0.2  Score=44.47  Aligned_cols=20  Identities=15%  Similarity=0.064  Sum_probs=17.4

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-+++|||.+++|||||+.
T Consensus       499 ~G~~vaIvG~SGsGKSTLlk  518 (708)
T TIGR01193       499 MNSKTTIVGMSGSGKSTLAK  518 (708)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            44689999999999999974

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>PRK14252 phosphate ABC transporter ATP-binding protein; Provisional

Probab=88.16  E-value=0.17  Score=39.39  Aligned_cols=19  Identities=11%  Similarity=0.015  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +=.++++|.++.|||||+.
T Consensus        42 Ge~~~i~G~nGsGKSTLl~   60 (265)
T PRK14252         42 KQVTALIGPSGCGKSTFLR   60 (265)
T ss_pred             CcEEEEECCCCCCHHHHHH
Confidence            3479999999999999974

>KOG0066|consensus

Probab=88.04  E-value=0.19  Score=42.63  Aligned_cols=18  Identities=17%  Similarity=0.161  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -||+|||..+||||||.+
T Consensus       614 SRiaIVGPNGVGKSTlLk  631 (807)
T KOG0066|consen  614 SRIAIVGPNGVGKSTLLK  631 (807)
T ss_pred             ceeEEECCCCccHHHHHH
Confidence            489999999999999853

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=88.01  E-value=0.19  Score=43.00  Aligned_cols=20  Identities=20%  Similarity=0.074  Sum_probs=17.5

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++-+++++|.++.|||||+.
T Consensus       347 ~G~~~~ivG~sGsGKSTL~~  366 (529)
T TIGR02857       347 PGERVALVGPSGAGKSTLLN  366 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            45689999999999999974

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=87.99  E-value=0.4  Score=38.21  Aligned_cols=36  Identities=11%  Similarity=0.045  Sum_probs=25.1

Q ss_pred             CHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         122 GAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       122 g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      |-+.+.+.|.+++.....   --+.+.|-|++||||++.
T Consensus        19 g~~~~~~~L~~~~~~~~~---~~lll~Gp~GtGKT~la~   54 (337)
T PRK12402         19 GQDEVVERLSRAVDSPNL---PHLLVQGPPGSGKTAAVR   54 (337)
T ss_pred             CCHHHHHHHHHHHhCCCC---ceEEEECCCCCCHHHHHH
Confidence            446667777776654321   137889999999999874

>PRK13531 regulatory ATPase RavA; Provisional

Probab=87.98  E-value=0.32  Score=41.59  Aligned_cols=35  Identities=17%  Similarity=-0.041  Sum_probs=27.1

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-++..+.+...+-..     -.|.+.|.|++|||+|+.
T Consensus        23 ~gre~vI~lll~aalag-----~hVLL~GpPGTGKT~LAr   57 (498)
T PRK13531         23 YERSHAIRLCLLAALSG-----ESVFLLGPPGIAKSLIAR   57 (498)
T ss_pred             cCcHHHHHHHHHHHccC-----CCEEEECCCChhHHHHHH
Confidence            56677777776666433     469999999999999874

>PHA02624 large T antigen; Provisional

Probab=87.91  E-value=0.52  Score=41.36  Aligned_cols=18  Identities=11%  Similarity=-0.149  Sum_probs=15.0

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.+.|-||+|||||+.
T Consensus       432 ~~il~~GPpnTGKTtf~~  449 (647)
T PHA02624        432 RYWLFKGPVNSGKTTLAA  449 (647)
T ss_pred             eEEEEECCCCCCHHHHHH
Confidence            467778999999999863

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=87.88  E-value=0.2  Score=39.14  Aligned_cols=19  Identities=11%  Similarity=0.038  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.+++|||||+.
T Consensus        39 Ge~~~l~G~nGsGKSTLl~   57 (269)
T PRK14259         39 GKVTALIGPSGCGKSTVLR   57 (269)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3579999999999999974

>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]

Probab=87.86  E-value=0.18  Score=41.77  Aligned_cols=20  Identities=25%  Similarity=0.091  Sum_probs=17.6

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..-++|+||.-++|||||.+
T Consensus        72 ~~~~vmvvG~vDSGKSTLt~   91 (398)
T COG1341          72 KVGVVMVVGPVDSGKSTLTT   91 (398)
T ss_pred             CCcEEEEECCcCcCHHHHHH
Confidence            45799999999999999964

>PLN02165 adenylate isopentenyltransferase

Probab=87.81  E-value=0.17  Score=41.20  Aligned_cols=18  Identities=17%  Similarity=0.126  Sum_probs=15.8

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      .-++|+|.+++|||||+.
T Consensus        44 ~iivIiGPTGSGKStLA~   61 (334)
T PLN02165         44 KVVVIMGATGSGKSRLSV   61 (334)
T ss_pred             CEEEEECCCCCcHHHHHH
Confidence            468999999999999974

>KOG4658|consensus

Probab=87.80  E-value=0.38  Score=44.11  Aligned_cols=37  Identities=24%  Similarity=0.223  Sum_probs=30.4

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+.-.+.+.+.+-..+   ...+++.||.+|||+||++
T Consensus       161 VG~e~~~~kl~~~L~~d~---~~iv~i~GMGGvGKTTL~~  197 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDD---VGIVGIYGMGGVGKTTLAR  197 (889)
T ss_pred             ccHHHHHHHHHHHhccCC---CCEEEEECCCcccHHHHHH
Confidence            788888888888776543   2689999999999999974

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=87.79  E-value=0.2  Score=44.54  Aligned_cols=20  Identities=20%  Similarity=0.139  Sum_probs=17.4

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-+++|||.++.|||||+.
T Consensus       504 ~Ge~vaIvG~sGsGKSTLlk  523 (710)
T TIGR03796       504 PGQRVALVGGSGSGKSTIAK  523 (710)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            44689999999999999974

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=87.78  E-value=0.18  Score=39.24  Aligned_cols=18  Identities=28%  Similarity=0.106  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|..++|||||+.
T Consensus        39 e~~~I~G~NGsGKSTLlk   56 (257)
T PRK11247         39 QFVAVVGRSGCGKSTLLR   56 (257)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            479999999999999964

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=87.78  E-value=0.21  Score=38.92  Aligned_cols=18  Identities=28%  Similarity=0.300  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|.+++|||||+.
T Consensus        38 e~~~i~G~nGsGKSTLl~   55 (265)
T TIGR02769        38 ETVGLLGRSGCGKSTLAR   55 (265)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            479999999999999974

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>PRK14271 phosphate ABC transporter ATP-binding protein; Provisional

Probab=87.76  E-value=0.18  Score=39.57  Aligned_cols=19  Identities=5%  Similarity=-0.034  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++|+|.+++|||||+.
T Consensus        47 Ge~~~I~G~nGsGKSTLl~   65 (276)
T PRK14271         47 RAVTSLMGPTGSGKTTFLR   65 (276)
T ss_pred             CcEEEEECCCCCCHHHHHH
Confidence            3479999999999999974

>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species

Probab=87.68  E-value=0.56  Score=39.02  Aligned_cols=37  Identities=11%  Similarity=0.087  Sum_probs=23.3

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCccccc
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~  159 (161)
                      ...-.++..++.+++..  ++.--+.|.|.||+|||.+.
T Consensus       243 v~~i~Fl~~lk~~Lkg~--PKKnClvi~GPPdTGKS~F~  279 (432)
T PF00519_consen  243 VEFISFLIALKQFLKGI--PKKNCLVIYGPPDTGKSMFC  279 (432)
T ss_dssp             --HHHHHHHHHHHHHTB--TTSSEEEEESSCCCSHHHHH
T ss_pred             ccHHHHHHHHHHHHhCC--CcccEEEEECCCCCchhHHH
Confidence            34445566666666432  23346788899999999764

The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=87.65  E-value=0.19  Score=43.42  Aligned_cols=20  Identities=15%  Similarity=0.051  Sum_probs=17.4

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-+|++||..++|||||+.
T Consensus       347 ~g~riaiiG~NG~GKSTLlk  366 (530)
T COG0488         347 RGDRIAIVGPNGAGKSTLLK  366 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            34699999999999999974

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=87.60  E-value=0.21  Score=39.04  Aligned_cols=19  Identities=21%  Similarity=0.151  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.++.|||||+.
T Consensus        50 Ge~~~liG~NGsGKSTLlk   68 (264)
T PRK13546         50 GDVIGLVGINGSGKSTLSN   68 (264)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3579999999999999964

>PLN03232 ABC transporter C family member; Provisional

Probab=87.59  E-value=0.2  Score=48.28  Aligned_cols=20  Identities=35%  Similarity=0.230  Sum_probs=17.4

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+=+|||||.++.|||||+.
T Consensus      1261 ~GekvaIVG~SGSGKSTL~~ 1280 (1495)
T PLN03232       1261 PSEKVGVVGRTGAGKSSMLN 1280 (1495)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            34689999999999999974

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=87.58  E-value=0.19  Score=38.92  Aligned_cols=18  Identities=11%  Similarity=0.019  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|.++.|||||..
T Consensus        39 e~~~i~G~nGsGKSTLl~   56 (258)
T PRK14268         39 SVTALIGPSGCGKSTFIR   56 (258)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            469999999999999964

>COG1493 HprK Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]

Probab=87.58  E-value=2.6  Score=33.82  Aligned_cols=41  Identities=22%  Similarity=0.203  Sum_probs=28.1

Q ss_pred             cCHHHHHHHHHhHhhcCCCC-----------CceEEEEEeecCCCcccccCC
Q psy8220         121 VGAELLMLLLGNYTRNKDIK-----------TSITVGVVGECNIAGSIRDLE  161 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~-----------~~~~v~vvG~pNVGKSsl~~~  161 (161)
                      ....+|...|..|+......           -++=|.+.|.+|+|||.+++|
T Consensus       113 ~~ts~l~~~l~~yL~~~lA~~~~vHGvl~~I~GvGVLItG~SG~GKSElALe  164 (308)
T COG1493         113 LSTSELSFTLTNYLSRPLAERVNVHGVLLDIFGVGVLITGPSGAGKSELALE  164 (308)
T ss_pred             chHHHHHHHHHHHhhhhcccceeeeeEEEEEeeeEEEEECCCCCCHhHHHHH
Confidence            34577778887777543211           135578889999999988764

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=87.56  E-value=0.19  Score=40.48  Aligned_cols=19  Identities=11%  Similarity=-0.017  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.+++|||||+.
T Consensus        52 Ge~~~I~G~nGsGKSTLl~   70 (320)
T PRK13631         52 NKIYFIIGNSGSGKSTLVT   70 (320)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3579999999999999974

>TIGR01271 CFTR_protein cystic fibrosis transmembrane conductor regulator (CFTR)

Probab=87.55  E-value=0.19  Score=48.47  Aligned_cols=20  Identities=20%  Similarity=0.145  Sum_probs=15.7

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+=+|||||.++.|||||+.
T Consensus      1244 ~GekvaIvGrSGsGKSTLl~ 1263 (1490)
T TIGR01271      1244 GGQRVGLLGRTGSGKSTLLS 1263 (1490)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            34578888888888888864

The model describes the cystis fibrosis transmembrane conductor regulator (CFTR) in eukaryotes. The principal role of this protein is chloride ion conductance. The protein is predicted to consist of 12 transmembrane domains. Mutations or lesions in the genetic loci have been linked to the aetiology of asthma, bronchiectasis, chronic obstructive pulmonary disease etc. Disease-causing mutations have been studied by 36Cl efflux assays in vitro cell cultures and electrophysiology, all of which point to the impairment of chloride channel stability and not the biosynthetic processing per se.

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=87.53  E-value=0.55  Score=42.50  Aligned_cols=40  Identities=13%  Similarity=0.057  Sum_probs=29.1

Q ss_pred             cCHHHHHHHHHhHhhcC---CCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNK---DIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~---~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +|.+...+.|.+++...   ....+-.++++|.|++||||++.
T Consensus       325 ~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~  367 (784)
T PRK10787        325 YGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQ  367 (784)
T ss_pred             cCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHH
Confidence            78999999888765421   11123358999999999999863

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=87.51  E-value=0.51  Score=40.30  Aligned_cols=18  Identities=6%  Similarity=0.171  Sum_probs=16.0

Q ss_pred             ceEEEEEeecCCCccccc
Q psy8220         142 SITVGVVGECNIAGSIRD  159 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~  159 (161)
                      +-.+++||.++|||||++
T Consensus       256 g~Vi~LvGpnGvGKTTTi  273 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTT  273 (484)
T ss_pred             CcEEEEECCCCccHHHHH
Confidence            457999999999999986

>PRK10867 signal recognition particle protein; Provisional

Probab=87.49  E-value=0.6  Score=39.36  Aligned_cols=19  Identities=11%  Similarity=0.095  Sum_probs=16.3

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+..++++|.|+|||||++
T Consensus        99 ~p~vI~~vG~~GsGKTTta  117 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTA  117 (433)
T ss_pred             CCEEEEEECCCCCcHHHHH
Confidence            3578899999999999965

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=87.42  E-value=0.22  Score=38.90  Aligned_cols=18  Identities=17%  Similarity=0.095  Sum_probs=15.9

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|.+++|||||..
T Consensus        36 e~~~l~G~nGsGKSTLl~   53 (271)
T PRK13632         36 EYVAILGHNGSGKSTISK   53 (271)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            479999999999999964

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=87.39  E-value=0.2  Score=39.10  Aligned_cols=18  Identities=17%  Similarity=0.030  Sum_probs=16.0

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      =.++++|.++.|||||..
T Consensus        36 e~~~I~G~nGsGKSTLl~   53 (269)
T PRK13648         36 QWTSIVGHNGSGKSTIAK   53 (269)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            479999999999999964

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=87.30  E-value=0.2  Score=39.26  Aligned_cols=19  Identities=11%  Similarity=0.043  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +=.++++|..+.|||||+.
T Consensus        46 Ge~~~IiG~nGsGKSTLl~   64 (274)
T PRK14265         46 KKIIAFIGPSGCGKSTLLR   64 (274)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3479999999999999974

>PLN03130 ABC transporter C family member; Provisional

Probab=87.28  E-value=0.2  Score=48.69  Aligned_cols=20  Identities=30%  Similarity=0.225  Sum_probs=17.0

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+=+|||||.++.|||||+.
T Consensus      1264 ~GekVaIVGrSGSGKSTLl~ 1283 (1622)
T PLN03130       1264 PSEKVGIVGRTGAGKSSMLN 1283 (1622)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            34589999999999999974

>cd03288 ABCC_SUR2 The SUR domain 2

Probab=87.27  E-value=0.23  Score=38.47  Aligned_cols=19  Identities=26%  Similarity=0.333  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++|+|.+++|||||+.
T Consensus        47 Ge~~~i~G~nGsGKSTLl~   65 (257)
T cd03288          47 GQKVGICGRTGSGKSSLSL   65 (257)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3579999999999999974

The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>cd03291 ABCC_CFTR1 The CFTR subfamily domain 1

Probab=87.18  E-value=0.23  Score=39.27  Aligned_cols=19  Identities=5%  Similarity=0.057  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.+++|||||+.
T Consensus        63 Ge~~~liG~NGsGKSTLl~   81 (282)
T cd03291          63 GEMLAITGSTGSGKTSLLM   81 (282)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            4579999999999999974

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits, or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PHA02774 E1; Provisional

Probab=87.09  E-value=0.61  Score=40.73  Aligned_cols=33  Identities=12%  Similarity=0.156  Sum_probs=22.0

Q ss_pred             HHHHHHHhHhhcCCCCCceEEEEEeecCCCccccc
Q psy8220         125 LLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       125 ~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~  159 (161)
                      .++..|+.++..  .++.-.+.|.|.||+|||.|.
T Consensus       419 ~fl~~lk~~l~~--~PKknciv~~GPP~TGKS~fa  451 (613)
T PHA02774        419 SFLTALKDFLKG--IPKKNCLVIYGPPDTGKSMFC  451 (613)
T ss_pred             HHHHHHHHHHhc--CCcccEEEEECCCCCCHHHHH
Confidence            445555555542  222347888999999999874

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=87.08  E-value=0.65  Score=38.67  Aligned_cols=40  Identities=10%  Similarity=0.024  Sum_probs=27.4

Q ss_pred             cCHHHHHHHHHhHhh----------cCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTR----------NKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~----------~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+...+.|.+...          ..+...+--+.+.|.|++|||+|+.
T Consensus       148 gGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAk  197 (398)
T PTZ00454        148 GGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAK  197 (398)
T ss_pred             CCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHH
Confidence            467777777766542          1122345678999999999999864

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=87.02  E-value=0.24  Score=38.60  Aligned_cols=18  Identities=22%  Similarity=0.233  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|..++|||||+.
T Consensus        40 e~~~i~G~NGsGKSTLl~   57 (267)
T PRK15112         40 QTLAIIGENGSGKSTLAK   57 (267)
T ss_pred             CEEEEEcCCCCCHHHHHH
Confidence            479999999999999964

>COG4167 SapF ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=86.98  E-value=0.25  Score=37.30  Aligned_cols=19  Identities=21%  Similarity=0.228  Sum_probs=16.9

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-+++|||..++|||||+.
T Consensus        39 ~QTlaiIG~NGSGKSTLak   57 (267)
T COG4167          39 GQTLAIIGENGSGKSTLAK   57 (267)
T ss_pred             CcEEEEEccCCCcHhHHHH
Confidence            4689999999999999974

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=86.95  E-value=0.59  Score=34.20  Aligned_cols=43  Identities=28%  Similarity=0.196  Sum_probs=26.4

Q ss_pred             hhccEEEEEEeCCCCCC--CCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          23 EAADVILEVVDARDPMG--TRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      -.-+.++.|+|+.....  .....+.+.+.    -.=++|+||+|+++.
T Consensus       112 ~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~----~ADvIvlnK~D~~~~  156 (178)
T PF02492_consen  112 FRLDSIITVVDATNFDELENIPELLREQIA----FADVIVLNKIDLVSD  156 (178)
T ss_dssp             ESESEEEEEEEGTTHGGHTTHCHHHHHHHC----T-SEEEEE-GGGHHH
T ss_pred             ccccceeEEeccccccccccchhhhhhcch----hcCEEEEeccccCCh
Confidence            35678999999965321  12233444443    233789999999876

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=86.94  E-value=0.45  Score=35.06  Aligned_cols=18  Identities=6%  Similarity=-0.086  Sum_probs=14.8

Q ss_pred             ceEEEEEeecCCCccccc
Q psy8220         142 SITVGVVGECNIAGSIRD  159 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~  159 (161)
                      +-.+.+.|.|++|||.|+
T Consensus        47 ~~~l~l~G~~G~GKThLa   64 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLA   64 (178)
T ss_dssp             --EEEEEESTTSSHHHHH
T ss_pred             CeEEEEEhhHhHHHHHHH
Confidence            357999999999999886

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>PRK14246 phosphate ABC transporter ATP-binding protein; Provisional

Probab=86.89  E-value=0.25  Score=38.40  Aligned_cols=18  Identities=17%  Similarity=0.123  Sum_probs=16.1

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      =.++|+|.++.|||||+.
T Consensus        37 e~~~i~G~nGsGKSTLl~   54 (257)
T PRK14246         37 SIFGIMGPSGSGKSTLLK   54 (257)
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            479999999999999974

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=86.82  E-value=0.24  Score=43.88  Aligned_cols=20  Identities=15%  Similarity=0.089  Sum_probs=17.3

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-+++|||.++.|||||+.
T Consensus       490 ~G~~iaIvG~sGsGKSTLlk  509 (694)
T TIGR03375       490 PGEKVAIIGRIGSGKSTLLK  509 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            34689999999999999974

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>CHL00195 ycf46 Ycf46; Provisional

Probab=86.75  E-value=0.66  Score=39.72  Aligned_cols=40  Identities=20%  Similarity=0.102  Sum_probs=26.9

Q ss_pred             cCHHHHHHHHHhHhh-------cCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTR-------NKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~-------~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+.+.+++.+...       ..+.+.+--+.+.|.|++|||.++.
T Consensus       231 gGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAk  277 (489)
T CHL00195        231 GGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAK  277 (489)
T ss_pred             cCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHH
Confidence            477777777765321       1122334458899999999999864

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=86.75  E-value=0.27  Score=42.64  Aligned_cols=20  Identities=25%  Similarity=0.147  Sum_probs=17.2

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++-+++|+|.++.|||||+.
T Consensus       360 ~G~~v~IvG~sGsGKSTLl~  379 (588)
T PRK13657        360 PGQTVAIVGPTGAGKSTLIN  379 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            34589999999999999974

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=86.71  E-value=0.23  Score=37.98  Aligned_cols=19  Identities=16%  Similarity=0.146  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|..++|||||..
T Consensus        47 Ge~~~i~G~NGsGKSTLl~   65 (236)
T cd03267          47 GEIVGFIGPNGAGKTTTLK   65 (236)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            4579999999999999964

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=86.69  E-value=0.45  Score=42.64  Aligned_cols=38  Identities=13%  Similarity=-0.015  Sum_probs=25.0

Q ss_pred             ccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         120 CVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       120 ~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      -.|-++..+.+.+.+....   .-.+.++|-|+||||+|+.
T Consensus       184 ~igr~~ei~~~~~~L~~~~---~~n~lL~G~pG~GKT~l~~  221 (731)
T TIGR02639       184 LIGREDELERTIQVLCRRK---KNNPLLVGEPGVGKTAIAE  221 (731)
T ss_pred             ccCcHHHHHHHHHHHhcCC---CCceEEECCCCCCHHHHHH
Confidence            3555555555555543321   2368899999999999863

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	161
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	2e-11
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	5e-10
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	4e-07
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	2e-06
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	4e-05
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	3e-04
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	4e-04

>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 Length = 282

 Score = 59.2 bits (144), Expect = 2e-11
 Identities = 26/136 (19%), Positives = 57/136 (41%), Gaps = 31/136 (22%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQ 78
              ++  D++ E+VDAR PM +R  + ED++     K  ++++NKA K    +       
Sbjct: 18  TEKLKLIDIVYELVDARIPMSSRNPMIEDIL---KNKPRIMLLNKADKADAAVT------ 68

Query: 79  IFQTWIPYNSIQSIYSSPRFSSRSQK----DAQTERDLKAINVSSCVGAELLMLLLGNYT 134
             Q W  +           F ++  +    ++   + L  I  +    ++ ++    +  
Sbjct: 69  --QQWKEH-----------FENQGIRSLSINSVNGQGLNQIVPA----SKEILQEKFDRM 111

Query: 135 RNKDIKT-SITVGVVG 149
           R K +K  +I   ++G
Sbjct: 112 RAKGVKPRAIRALIIG 127

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A* Length = 262

 Score = 55.3 bits (134), Expect = 5e-10
 Identities = 11/46 (23%), Positives = 22/46 (47%), Gaps = 5/46 (10%)

Query: 19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKA 64
          + ++   + ++EV DAR P  T     +        K+ +I++NK 
Sbjct: 16 KDLLRLVNTVVEVRDARAPFATSAYGVD-----FSRKETIILLNKV 56

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus} Length = 369

 Score = 47.2 bits (112), Expect = 4e-07
 Identities = 9/46 (19%), Positives = 19/46 (41%), Gaps = 3/46 (6%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKA 64
             + E+  +++ +VD  D  G+                +++V NKA
Sbjct: 66  HRIGESKALVVNIVDIFDFNGSFIPGLPRFA---ADNPILLVGNKA 108

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str} Length = 368

 Score = 45.7 bits (108), Expect = 2e-06
 Identities = 10/46 (21%), Positives = 22/46 (47%), Gaps = 3/46 (6%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKA 64
             + ++  +++++VD  D  G+        V      K+++V NKA
Sbjct: 64  NGIGKSDALVVKIVDIFDFNGSWLPGLHRFV---GNNKVLLVGNKA 106

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A* Length = 476

 Score = 41.4 bits (98), Expect = 4e-05
 Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 3/51 (5%)

Query: 17  IERS--VVEAADVILEVVDARDPMGTR-CKVAEDLVVGTPGKKLVIVINKA 64
           I RS   +  AD+IL ++D              +L    P  K + V NK 
Sbjct: 303 IRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAAHPAAKFLTVANKL 353

>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} Length = 462

 Score = 39.0 bits (92), Expect = 3e-04
 Identities = 13/52 (25%), Positives = 22/52 (42%), Gaps = 9/52 (17%)

Query: 17  IERS--VVEAADVILEVVDARDPMGTRCKVAED--LVVGTPGKKLVIVINKA 64
           +ERS      AD++L  +DA            D  +      + L++V+NK 
Sbjct: 294 VERSRQAANTADLVLLTIDAATGWT-----TGDQEIYEQVKHRPLILVMNKI 340

>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* Length = 482

 Score = 38.7 bits (91), Expect = 4e-04
 Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 9/52 (17%)

Query: 17  IERS--VVEAADVILEVVDARDPMGTRCKVAED--LVVGTPGKKLVIVINKA 64
           IER+   +E AD++L V+DA  P+       ED  ++     K+ ++VINK 
Sbjct: 314 IERTLQEIEKADIVLFVLDASSPLD-----EEDRKILERIKNKRYLVVINKV 360

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	161
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	99.92
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	99.86
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.8
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.8
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.78
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.78
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.73
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.64
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	99.63
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.59
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	99.58
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.3
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.28
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.27
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.19
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.16
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.15
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.15
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.12
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.1
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.08
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.07
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.05
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.01
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	98.95
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	98.94
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	98.94
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.9
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.89
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	98.88
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	98.88
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	98.87
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	98.86
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	98.86
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	98.86
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	98.86
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	98.85
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	98.84
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	98.84
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	98.84
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	98.84
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	98.83
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	98.83
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	98.81
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	98.81
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	98.81
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	98.8
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	98.79
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	98.79
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	98.79
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	98.78
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	98.78
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	98.78
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	98.78
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	98.77
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	98.77
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.76
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	98.76
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	98.76
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	98.76
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	98.76
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	98.76
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	98.76
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	98.75
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	98.74
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	98.74
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	98.74
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	98.74
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	98.74
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	98.74
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	98.73
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	98.73
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	98.73
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	98.71
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	98.71
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	98.71
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	98.7
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.7
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	98.7
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	98.7
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	98.69
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	98.69
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	98.69
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	98.68
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	98.68
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	98.68
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	98.68
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	98.68
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	98.68
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	98.67
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	98.66
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	98.66
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	98.66
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	98.65
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	98.65
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	98.65
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	98.65
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	98.65
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	98.65
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	98.65
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	98.65
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.65
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	98.64
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	98.64
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	98.64
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	98.64
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	98.63
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.63
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	98.62
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	98.62
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	98.62
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	98.62
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	98.61
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	98.61
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	98.61
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	98.61
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	98.61
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	98.61
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	98.61
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	98.6
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	98.6
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	98.59
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.59
2wji_A	165	Ferrous iron transport protein B homolog; membrane	98.59
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	98.58
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	98.58
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	98.58
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	98.56
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	98.56
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	98.55
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.54
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	98.54
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	98.53
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	98.52
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	98.52
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	97.92
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	98.52
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	98.51
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	98.51
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	98.49
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	98.48
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	98.48
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	98.48
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	98.48
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	98.47
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	98.46
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	98.46
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.45
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	98.44
3llu_A	196	RAS-related GTP-binding protein C; structural geno	98.44
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	98.43
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	98.43
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	98.42
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	98.41
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	98.4
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	98.39
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	98.39
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	98.37
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	98.36
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	98.36
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	98.34
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	98.34
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	98.33
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	98.33
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.31
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.31
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	98.31
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	98.3
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	98.29
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	98.28
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	98.28
2fh5_B	214	SR-beta, signal recognition particle receptor beta	98.25
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	98.25
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	98.25
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.23
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	98.22
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.22
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.2
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.19
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	98.18
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.15
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.14
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	98.13
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	98.08
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	98.08
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.06
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	98.06
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.02
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	98.01
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	98.0
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	97.95
1wxq_A	397	GTP-binding protein; structural genomics, riken st	97.92
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	97.89
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	97.88
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	97.82
1nrj_B	218	SR-beta, signal recognition particle receptor beta	97.78
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	97.66
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.66
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	97.5
2ged_A	193	SR-beta, signal recognition particle receptor beta	97.49
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	97.42
2hf9_A	226	Probable hydrogenase nickel incorporation protein	97.39
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	97.39
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	97.35
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	97.34
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.28
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	97.27
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	97.25
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	97.18
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	97.18
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	97.17
2ged_A	193	SR-beta, signal recognition particle receptor beta	97.16
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	97.14
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	97.12
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	97.07
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	97.03
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	97.03
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	97.02
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	97.0
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.9
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	96.86
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	96.86
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	96.84
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	96.81
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	96.77
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	96.69
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	96.62
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.53
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	96.52
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	96.47
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	96.44
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	96.4
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	96.21
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	96.18
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	96.15
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	96.1
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	96.03
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	96.03
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.95
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	95.91
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	95.86
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.83
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	95.78
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	95.7
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.65
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	95.57
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	95.43
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	95.34
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.27
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.15
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.11
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	94.9
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.68
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	94.68
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	94.6
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	94.47
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	94.43
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	94.31
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	94.16
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.15
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	94.0
1tue_A	212	Replication protein E1; helicase, replication, E1E	93.6
2chg_A	226	Replication factor C small subunit; DNA-binding pr	93.5
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	93.42
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	93.41
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.23
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	93.17
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	93.07
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	92.96
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	92.8
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	92.78
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	92.77
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	92.77
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	92.72
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	92.71
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	92.6
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	92.59
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	92.54
3bos_A	242	Putative DNA replication factor; P-loop containing	92.37
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	92.24
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	92.22
2og2_A	359	Putative signal recognition particle receptor; nuc	92.13
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	92.05
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	92.01
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	91.94
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	91.69
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	91.68
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	91.53
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	91.53
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	91.53
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	91.51
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	91.43
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	91.38
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	91.31
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	91.19
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	91.16
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	90.85
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	90.81
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	90.76
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	90.49
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	90.25
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	90.22
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	90.22
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	90.09
2xxa_A	433	Signal recognition particle protein; protein trans	90.05
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	90.04
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	89.9
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	89.89
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	89.79
2ghi_A	260	Transport protein; multidrug resistance protein, M	89.7
1sgw_A	214	Putative ABC transporter; structural genomics, P p	89.65
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	89.62
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	89.56
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	89.53
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	89.46
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	89.31
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	89.3
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	89.19
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	89.1
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	89.01
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	88.96
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	88.95
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	88.89
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	88.87
2r6a_A	454	DNAB helicase, replicative helicase; replication,	88.86
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	88.83
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	88.75
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	88.73
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	88.71
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	88.56
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	88.56
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	88.55
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	88.5
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	88.43
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	88.35
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	88.22
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	88.14
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	88.13
2qgz_A	308	Helicase loader, putative primosome component; str	88.12
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	87.96
3end_A	307	Light-independent protochlorophyllide reductase ir	87.95
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	87.9
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	87.79
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	87.63
2ewv_A	372	Twitching motility protein PILT; pilus retraction	87.59
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	87.45
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	87.41
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	87.4
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	87.31
2r44_A	331	Uncharacterized protein; putative ATPase, structur	87.12
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	87.01
2chq_A	319	Replication factor C small subunit; DNA-binding pr	86.99
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	86.99
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	86.82
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	86.76
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	86.74
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	86.63
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	86.59
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	86.33
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	86.27
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	86.19
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	86.11
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	86.04
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	86.03
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	85.97
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	85.7
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	85.55
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	85.5
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	85.4
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	85.33
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	85.24
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	85.01
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	85.0
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	84.85
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	84.85
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	84.65
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	84.62
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	84.54
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	84.48
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	84.41
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	84.31
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	84.3
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	84.22
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	84.12
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	84.08
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	83.85
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	83.76
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	83.48
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	83.4
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	83.39
3pvs_A	447	Replication-associated recombination protein A; ma	83.29
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	83.08
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	83.05
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	82.95
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	82.88
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	82.53
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	82.47
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	82.33
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	82.32
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	82.09
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	81.94
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	81.58
1p9r_A	418	General secretion pathway protein E; bacterial typ	81.56
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	81.46
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	81.4
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	81.24
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	81.19
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	80.87
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	80.44
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	80.3

>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=99.92  E-value=6.1e-25  Score=172.13  Aligned_cols=124  Identities=23%  Similarity=0.290  Sum_probs=101.6

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      |.|+.. .++++ ++.+++||+|++|+|+++|.++.++.+.+++   .++|.++|+||+||++.        +..+.|.+
T Consensus         7 PGhm~k-a~~~~-~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l---~~kp~ilVlNK~DL~~~--------~~~~~~~~   73 (282)
T 1puj_A            7 PGHMAK-ARREV-TEKLKLIDIVYELVDARIPMSSRNPMIEDIL---KNKPRIMLLNKADKADA--------AVTQQWKE   73 (282)
T ss_dssp             --CTTH-HHHHH-HHHGGGCSEEEEEEETTSTTTTSCHHHHHHC---SSSCEEEEEECGGGSCH--------HHHHHHHH
T ss_pred             chHHHH-HHHHH-HHHHhhCCEEEEEEeCCCCCccCCHHHHHHH---CCCCEEEEEECcccCCH--------HHHHHHHH
Confidence            889885 58888 7999999999999999999998888888876   46999999999999986        55678888


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc-------CC-CCCceEEEEEeecCCCccc
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN-------KD-IKTSITVGVVGECNIAGSI  157 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~-------~~-~~~~~~v~vvG~pNVGKSs  157 (161)
                      ++.. .+.+++++||.++                 .|+++|.+.+.+.++.       .+ ...++++++||.|||||||
T Consensus        74 ~~~~-~g~~~i~iSA~~~-----------------~gi~~L~~~i~~~l~~~~~~~~~~~~~~~~~~v~~vG~~nvGKSs  135 (282)
T 1puj_A           74 HFEN-QGIRSLSINSVNG-----------------QGLNQIVPASKEILQEKFDRMRAKGVKPRAIRALIIGIPNVGKST  135 (282)
T ss_dssp             HHHT-TTCCEEECCTTTC-----------------TTGGGHHHHHHHHHHHHHHHHHHTTCCCCCEEEEEEESTTSSHHH
T ss_pred             HHHh-cCCcEEEEECCCc-----------------ccHHHHHHHHHHHHHHHHHHHHhcCCCCCCceEEEEecCCCchHH
Confidence            8752 3568899999988                 8899988888776642       11 2356899999999999999


Q ss_pred             ccC
Q psy8220         158 RDL  160 (161)
Q Consensus       158 l~~  160 (161)
                      |++
T Consensus       136 liN  138 (282)
T 1puj_A          136 LIN  138 (282)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            985

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=99.86  E-value=6.3e-23  Score=159.13  Aligned_cols=113  Identities=19%  Similarity=0.236  Sum_probs=90.2

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      |.|+.. .++++ ++.++++|+|++|+|+++|..+.++.+. ++    ++|.++|+||+||++.        +..+.|.+
T Consensus         5 PGhm~k-a~~~~-~~~l~~~D~vl~VvDar~P~~~~~~~l~-ll----~k~~iivlNK~DL~~~--------~~~~~~~~   69 (262)
T 3cnl_A            5 PGHIEK-AKRQI-KDLLRLVNTVVEVRDARAPFATSAYGVD-FS----RKETIILLNKVDIADE--------KTTKKWVE   69 (262)
T ss_dssp             ----CC-TTHHH-HHHHTTCSEEEEEEETTSTTTTSCTTSC-CT----TSEEEEEEECGGGSCH--------HHHHHHHH
T ss_pred             chHHHH-HHHHH-HHHHhhCCEEEEEeeCCCCCcCcChHHH-hc----CCCcEEEEECccCCCH--------HHHHHHHH
Confidence            788875 47888 7999999999999999999988766555 43    5999999999999986        55678888


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++.. .+.++ ++||.++                 .|+++|.+.|.+.+        .++++||.||||||||++
T Consensus        70 ~~~~-~g~~v-~iSa~~~-----------------~gi~~L~~~l~~~~--------~~v~~vG~~~vGKSslin  117 (262)
T 3cnl_A           70 FFKK-QGKRV-ITTHKGE-----------------PRKVLLKKLSFDRL--------ARVLIVGVPNTGKSTIIN  117 (262)
T ss_dssp             HHHH-TTCCE-EECCTTS-----------------CHHHHHHHHCCCTT--------CEEEEEESTTSSHHHHHH
T ss_pred             HHHH-cCCeE-EEECCCC-----------------cCHHHHHHHHHHhh--------hheEEeCCCCCCHHHHHH
Confidence            7752 36677 9999998                 89999888875543        589999999999999974

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.80  E-value=1.7e-19  Score=148.63  Aligned_cols=119  Identities=16%  Similarity=0.189  Sum_probs=91.1

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      +.+++.+..++++||++|+|+|++++.+..+..+.+++.. .++|+++|+||+|+.+.        .  ....+.+.  .
T Consensus        70 ~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d~~~~~~l~~-~~~pvilv~NK~D~~~~--------~--~~~~~~~~--l  136 (436)
T 2hjg_A           70 AQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYR-TKKPVVLAVNKLDNTEM--------R--ANIYDFYS--L  136 (436)
T ss_dssp             HHHHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHTT-CCSCEEEEEECCCC---------------CCCSSGG--G
T ss_pred             HHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH-cCCCEEEEEECccCccc--------h--hhHHHHHH--c
Confidence            4566666889999999999999999888777788887776 68999999999998754        1  11112222  1


Q ss_pred             CC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC----CCCceEEEEEeecCCCcccccC
Q psy8220          92 IY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD----IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        92 ~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~----~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +. +++++||+++                 .|+++|++.|.+.++...    ....++|++||.||||||||+.
T Consensus       137 g~~~~~~iSA~~g-----------------~gv~~L~~~i~~~l~~~~~~~~~~~~~ki~lvG~~nvGKSSLin  193 (436)
T 2hjg_A          137 GFGEPYPISGTHG-----------------LGLGDLLDAVAEHFKNIPETKYNEEVIQFCLIGRPNVGKSSLVN  193 (436)
T ss_dssp             SSCCCEECBTTTT-----------------BTHHHHHHHHHHTGGGCCSSCCCTTCEEEEEECSTTSSHHHHHH
T ss_pred             CCCCeEEEeCcCC-----------------CChHHHHHHHHHhcCccccccccccCcEEEEEcCCCCCHHHHHH
Confidence            22 6789999999                 999999999998876432    1245899999999999999974

>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=99.80  E-value=1.3e-19  Score=149.40  Aligned_cols=121  Identities=18%  Similarity=0.181  Sum_probs=91.6

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      +.++..+..++++||++|+|+|++.+.+..+..+.+++.. .++|+++|+||+|+...        .....+.++..  .
T Consensus        69 ~~~~~~~~~~~~~ad~il~V~D~~~~~~~~d~~i~~~l~~-~~~p~ilv~NK~D~~~~--------~~~~~~~~~~~--l  137 (439)
T 1mky_A           69 QKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRK-STVDTILVANKAENLRE--------FEREVKPELYS--L  137 (439)
T ss_dssp             HHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHH-HTCCEEEEEESCCSHHH--------HHHHTHHHHGG--G
T ss_pred             HHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHH-cCCCEEEEEeCCCCccc--------cHHHHHHHHHh--c
Confidence            4466666889999999999999999887777778777765 57999999999998532        01111112222  2


Q ss_pred             CC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC--------CCCceEEEEEeecCCCcccccC
Q psy8220          92 IY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD--------IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        92 ~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~--------~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +. +++++||+++                 .|+++|++.|.+.++...        ....++|++||.||||||||+.
T Consensus       138 g~~~~~~iSA~~g-----------------~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln  198 (439)
T 1mky_A          138 GFGEPIPVSAEHN-----------------INLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFN  198 (439)
T ss_dssp             SSCSCEECBTTTT-----------------BSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHH
T ss_pred             CCCCEEEEeccCC-----------------CCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHH
Confidence            33 5789999999                 999999999988776322        1245899999999999999974

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.78  E-value=2.6e-19  Score=144.86  Aligned_cols=118  Identities=17%  Similarity=0.142  Sum_probs=88.5

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .++.+..+....+|++++|+|++++..+..+.+.+++   .++|+++|+||+|+.+...   . .+.+..|...+....+
T Consensus        60 ~f~~~L~~~~~~~~lil~VvD~~d~~~s~~~~l~~~l---~~~piilV~NK~DLl~~~~---~-~~~~~~~l~~~~~~~g  132 (369)
T 3ec1_A           60 DFLSMLHRIGESKALVVNIVDIFDFNGSFIPGLPRFA---ADNPILLVGNKADLLPRSV---K-YPKLLRWMRRMAEELG  132 (369)
T ss_dssp             HHHHHHHHHHHHCCEEEEEEETTCSGGGCCSSHHHHC---TTSCEEEEEECGGGSCTTC---C-HHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhccCcEEEEEEECCCCCCchhhHHHHHh---CCCCEEEEEEChhcCCCcc---C-HHHHHHHHHHHHHHcC
Confidence            3445535555889999999999999887777777765   3699999999999987510   0 1234556543211123


Q ss_pred             C---ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          93 Y---SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        93 ~---~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .   +++.+||+++                 .|+++|.+.|.++...      .+++++|.||||||||++
T Consensus       133 ~~~~~v~~iSA~~g-----------------~gi~~L~~~I~~~~~~------~~i~~vG~~nvGKStliN  180 (369)
T 3ec1_A          133 LCPVDVCLVSAAKG-----------------IGMAKVMEAINRYREG------GDVYVVGCTNVGKSTFIN  180 (369)
T ss_dssp             CCCSEEEECBTTTT-----------------BTHHHHHHHHHHHHTT------SCEEEECCTTSSHHHHHH
T ss_pred             CCcccEEEEECCCC-----------------CCHHHHHHHHHhhccc------CcEEEEcCCCCchHHHHH
Confidence            3   5789999999                 9999999999887643      479999999999999975

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.78  E-value=1.9e-19  Score=145.65  Aligned_cols=119  Identities=20%  Similarity=0.170  Sum_probs=87.0

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      +.++.++.+....+|++|+|+|++++..+..+.+.+++   .++|+++|+||+||.+...   . .+.+..|...+....
T Consensus        57 e~f~~~l~~i~~~~~~il~VvD~~d~~~~~~~~l~~~~---~~~p~ilV~NK~DL~~~~~---~-~~~~~~~l~~~~~~~  129 (368)
T 3h2y_A           57 DDFLRILNGIGKSDALVVKIVDIFDFNGSWLPGLHRFV---GNNKVLLVGNKADLIPKSV---K-HDKVKHWMRYSAKQL  129 (368)
T ss_dssp             HHHHHHHHHHHHSCCEEEEEEETTSHHHHCCTTHHHHS---SSSCEEEEEECGGGSCTTS---C-HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccCcEEEEEEECCCCcccHHHHHHHHh---CCCcEEEEEEChhcCCccc---C-HHHHHHHHHHHHHHc
Confidence            44556645556677799999999987655556666654   3699999999999986510   0 123455644332112


Q ss_pred             CC---ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          92 IY---SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        92 ~~---~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +.   +++.+||+++                 .|+++|.+.|.++.+.      .+++++|.||||||||++
T Consensus       130 g~~~~~v~~iSA~~g-----------------~gi~~L~~~l~~~~~~------~~i~~vG~~nvGKStliN  178 (368)
T 3h2y_A          130 GLKPEDVFLISAAKG-----------------QGIAELADAIEYYRGG------KDVYVVGCTNVGKSTFIN  178 (368)
T ss_dssp             TCCCSEEEECCTTTC-----------------TTHHHHHHHHHHHHTT------SCEEEEEBTTSSHHHHHH
T ss_pred             CCCcccEEEEeCCCC-----------------cCHHHHHhhhhhhccc------ceEEEecCCCCChhHHHH
Confidence            44   6789999999                 9999999999887643      479999999999999975

>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=99.73  E-value=1.4e-17  Score=137.89  Aligned_cols=121  Identities=16%  Similarity=0.167  Sum_probs=89.9

Q ss_pred             HHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          11 GVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        11 ~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .+.+++.+..++.+||++|+|+|++.++...+..+.+++.. .++|+++|+||+|+.+.        .  ..+.+.+. .
T Consensus        89 ~~~~~~~~~~~~~~ad~il~VvD~~~~~~~~d~~l~~~l~~-~~~pvilV~NK~D~~~~--------~--~~~~e~~~-l  156 (456)
T 4dcu_A           89 LAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYR-TKKPVVLAVNKLDNTEM--------R--ANIYDFYS-L  156 (456)
T ss_dssp             HHHHHHHHHHHHHHCSEEEEEEESSSCSCHHHHHHHHHHTT-CCSCEEEEEECC-------------------CCSGG-G
T ss_pred             HHHHHHHHHhhHhhCCEEEEEEeCCCCCChHHHHHHHHHHH-cCCCEEEEEECccchhh--------h--hhHHHHHH-c
Confidence            45566666889999999999999999888888888888876 78999999999998754        1  11222222 1


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC----CCCceEEEEEeecCCCcccccC
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD----IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~----~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ...+.+++||+++                 .|+++|++.+.+.++...    .....+|+++|.||||||||+.
T Consensus       157 g~~~~~~iSA~~g-----------------~gv~~L~~~i~~~l~~~~~~~~~~~~~ki~ivG~~~vGKSslin  213 (456)
T 4dcu_A          157 GFGEPYPISGTHG-----------------LGLGDLLDAVAEHFKNIPETKYNEEVIQFCLIGRPNVGKSSLVN  213 (456)
T ss_dssp             SSSSEEECCTTTC-----------------TTHHHHHHHHHTTGGGSCSSCCCTTCEEEEEECSTTSSHHHHHH
T ss_pred             CCCceEEeecccc-----------------cchHHHHHHHHhhcccccccccccccceeEEecCCCCCHHHHHH
Confidence            1234679999998                 999999999988775432    1346899999999999999974

>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=99.64  E-value=2.8e-16  Score=123.87  Aligned_cols=106  Identities=17%  Similarity=0.160  Sum_probs=76.4

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCcHHHHHH---HhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          20 SVVEAADVILEVVDARDPMGTRCKVAEDL---VVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~~~i~~~---l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      ..+..+|++++|+|+++|..+.+ .+.++   +.. .+.|+++|+||+||.++.    .. +....|...+.. .+++++
T Consensus        75 ~~~~naD~vliV~d~~~p~~s~~-~l~~~l~~~~~-~~~~~ilV~NK~DL~~~~----~v-~~~~~~~~~~~~-~g~~~~  146 (302)
T 2yv5_A           75 PKVANVDRVIIVETLKMPEFNNY-LLDNMLVVYEY-FKVEPVIVFNKIDLLNEE----EK-KELERWISIYRD-AGYDVL  146 (302)
T ss_dssp             TEEESCCEEEEEECSTTTTCCHH-HHHHHHHHHHH-TTCEEEEEECCGGGCCHH----HH-HHHHHHHHHHHH-TTCEEE
T ss_pred             HHHHhcCEEEEEEECCCCCCCHH-HHHHHHHHHHh-CCCCEEEEEEcccCCCcc----cc-HHHHHHHHHHHH-CCCeEE
Confidence            46789999999999998854433 23333   333 579999999999998751    00 013445444432 357899


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++||+++                 .|+++|.+.+.    .      -.++++|.+|||||||++
T Consensus       147 ~~SA~~g-----------------~gi~~L~~~l~----G------~i~~l~G~sG~GKSTLln  183 (302)
T 2yv5_A          147 KVSAKTG-----------------EGIDELVDYLE----G------FICILAGPSGVGKSSILS  183 (302)
T ss_dssp             ECCTTTC-----------------TTHHHHHHHTT----T------CEEEEECSTTSSHHHHHH
T ss_pred             EEECCCC-----------------CCHHHHHhhcc----C------cEEEEECCCCCCHHHHHH
Confidence            9999999                 89999887642    1      368999999999999975

>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=99.63  E-value=2.4e-17  Score=130.36  Aligned_cols=109  Identities=16%  Similarity=0.074  Sum_probs=80.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      +..++.+|++++|+|++.|..+.+ .+.+++..  ..++|.++|+||+||.++.    ...+.+..|.+.+.. .+++++
T Consensus        81 R~~~anvD~v~~V~~~~~p~~~~~-~i~r~L~~~~~~~~~~vivlnK~DL~~~~----~~~~~~~~~~~~y~~-~g~~v~  154 (307)
T 1t9h_A           81 RPPICNVDQAVLVFSAVQPSFSTA-LLDRFLVLVEANDIQPIICITKMDLIEDQ----DTEDTIQAYAEDYRN-IGYDVY  154 (307)
T ss_dssp             TTTEECCCEEEEEEESTTTTCCHH-HHHHHHHHHHTTTCEEEEEEECGGGCCCH----HHHHHHHHHHHHHHH-HTCCEE
T ss_pred             HHHHHhCCEEEEEEeCCCCCCCHH-HHHHHHHHHHHCCCCEEEEEECCccCchh----hhHHHHHHHHHHHHh-CCCeEE
Confidence            357899999999999999887765 67777631  1579999999999999861    000014667776642 367899


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++||.++                 .|+++|++.    .+      +-.++++|.||||||||++
T Consensus       155 ~~sa~~~-----------------~g~~~L~~~----~~------G~~~~lvG~sG~GKSTLln  191 (307)
T 1t9h_A          155 LTSSKDQ-----------------DSLADIIPH----FQ------DKTTVFAGQSGVGKSSLLN  191 (307)
T ss_dssp             ECCHHHH-----------------TTCTTTGGG----GT------TSEEEEEESHHHHHHHHHH
T ss_pred             EEecCCC-----------------CCHHHHHhh----cC------CCEEEEECCCCCCHHHHHH
Confidence            9999887                 777666543    22      2479999999999999975

>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=99.59  E-value=2.5e-15  Score=118.29  Aligned_cols=108  Identities=19%  Similarity=0.118  Sum_probs=76.6

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      +...+..+|++|+|+|++++..+.+  ..+...+.. .+.|+++|+||+||.+..    .. +....|.+.+.. . .++
T Consensus        78 ~~~~~~~ad~vilV~D~~~~~~s~~~l~~~l~~~~~-~~~piilv~NK~DL~~~~----~v-~~~~~~~~~~~~-~-~~~  149 (301)
T 1u0l_A           78 TKPHVANVDQVILVVTVKMPETSTYIIDKFLVLAEK-NELETVMVINKMDLYDED----DL-RKVRELEEIYSG-L-YPI  149 (301)
T ss_dssp             TTTTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH-TTCEEEEEECCGGGCCHH----HH-HHHHHHHHHHTT-T-SCE
T ss_pred             eccccccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH-CCCCEEEEEeHHHcCCch----hH-HHHHHHHHHHhh-h-CcE
Confidence            3456889999999999998764322  122222333 579999999999998651    00 113455555431 1 678


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +.+||+++                 .|+++|.+.+.    .      -.++++|.+|+|||||++
T Consensus       150 ~~~SAktg-----------------~gv~~lf~~l~----g------eiv~l~G~sG~GKSTll~  187 (301)
T 1u0l_A          150 VKTSAKTG-----------------MGIEELKEYLK----G------KISTMAGLSGVGKSSLLN  187 (301)
T ss_dssp             EECCTTTC-----------------TTHHHHHHHHS----S------SEEEEECSTTSSHHHHHH
T ss_pred             EEEECCCC-----------------cCHHHHHHHhc----C------CeEEEECCCCCcHHHHHH
Confidence            99999999                 89999887652    1      368999999999999974

>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=99.58  E-value=2.1e-15  Score=121.39  Aligned_cols=107  Identities=20%  Similarity=0.117  Sum_probs=78.0

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      +..++.+|.+++| |++.|..+. ..+.+++..  ..++|.++|+||+||.++.     ..+.+..|...+.. .+++++
T Consensus       125 ~~i~anvD~v~iv-~a~~P~~~~-~~i~r~L~~a~~~~~~~iivlNK~DL~~~~-----~~~~~~~~~~~y~~-~G~~v~  196 (358)
T 2rcn_A          125 KPIAANIDQIVIV-SAILPELSL-NIIDRYLVGCETLQVEPLIVLNKIDLLDDE-----GMDFVNEQMDIYRN-IGYRVL  196 (358)
T ss_dssp             EEEEECCCEEEEE-EESTTTCCH-HHHHHHHHHHHHHTCEEEEEEECGGGCCHH-----HHHHHHHHHHHHHT-TTCCEE
T ss_pred             HHHHhcCCEEEEE-EeCCCCCCH-HHHHHHHHHHHhcCCCEEEEEECccCCCch-----hHHHHHHHHHHHHh-CCCcEE
Confidence            3457899999965 777776543 356666531  0478899999999999761     00125567777652 478899


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++||.++                 .|++.|...+    +.      -.++++|.||||||||+.
T Consensus       197 ~~Sa~~~-----------------~gl~~L~~~~----~G------~~~~lvG~sG~GKSTLln  233 (358)
T 2rcn_A          197 MVSSHTQ-----------------DGLKPLEEAL----TG------RISIFAGQSGVGKSSLLN  233 (358)
T ss_dssp             ECBTTTT-----------------BTHHHHHHHH----TT------SEEEEECCTTSSHHHHHH
T ss_pred             EEecCCC-----------------cCHHHHHHhc----CC------CEEEEECCCCccHHHHHH
Confidence            9999998                 8998887653    21      369999999999999974

>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=99.30  E-value=5.9e-12  Score=99.23  Aligned_cols=105  Identities=21%  Similarity=0.271  Sum_probs=77.8

Q ss_pred             cchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHH-HHHHhCCCCCcEEEEeecCCCC-CcccccccHHHHHHHHhh
Q psy8220           8 EMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVA-EDLVVGTPGKKLVIVINKAGKP-STKIQSGSMAQIFQTWIP   85 (161)
Q Consensus         8 ~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i-~~~l~~~~~k~~ilVlNK~Dl~-~~~~~~~~~~~~~~~~~~   85 (161)
                      +.+++.+...+...+..+|++|+|+|++++.+..+..+ .+.+.. .+.|+++|+||+|+. +..    ...+....+.+
T Consensus        76 ~~l~~~~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~-~~~pvilV~NK~Dl~~~~~----~~~~~~~~l~~  150 (308)
T 3iev_A           76 DVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKP-LNKPVIVVINKIDKIGPAK----NVLPLIDEIHK  150 (308)
T ss_dssp             CHHHHHHHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGG-GCCCEEEEEECGGGSSSGG----GGHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHh-cCCCEEEEEECccCCCCHH----HHHHHHHHHHH
Confidence            56778888888899999999999999998877666665 666655 579999999999998 431    11122233333


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.  ...+++++||+++                 .|+++|.+.|.+.++.
T Consensus       151 ~~~--~~~~i~~vSA~~g-----------------~gv~~L~~~l~~~l~~  182 (308)
T 3iev_A          151 KHP--ELTEIVPISALKG-----------------ANLDELVKTILKYLPE  182 (308)
T ss_dssp             HCT--TCCCEEECBTTTT-----------------BSHHHHHHHHHHHSCB
T ss_pred             hcc--CCCeEEEEeCCCC-----------------CCHHHHHHHHHHhCcc
Confidence            331  2367899999999                 8999999988887754

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.28  E-value=3.9e-12  Score=92.19  Aligned_cols=111  Identities=12%  Similarity=-0.127  Sum_probs=63.7

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      ++...+..+|++|+|+|++++..... ..+...+...   .+.|+++|+||+|+.+..   ... +....+...    .+
T Consensus        80 ~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~---~~~-~~~~~~~~~----~~  151 (195)
T 1x3s_A           80 LTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENRE---VDR-NEGLKFARK----HS  151 (195)
T ss_dssp             SHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCC---SCH-HHHHHHHHH----TT
T ss_pred             hhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcccc---cCH-HHHHHHHHH----cC
Confidence            34567789999999999987643211 2233333321   368999999999995431   011 112222222    35


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCccc
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSI  157 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSs  157 (161)
                      .+++.+||+++                 .|+++|.+.|.+.+.......     --+.+|+||||
T Consensus       152 ~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~~~~~~~-----~~~~~n~gkSs  194 (195)
T 1x3s_A          152 MLFIEASAKTC-----------------DGVQCAFEELVEKIIQTPGLW-----ESENQNSGPSS  194 (195)
T ss_dssp             CEEEECCTTTC-----------------TTHHHHHHHHHHHHHTSGGGT-----CC---------
T ss_pred             CEEEEecCCCC-----------------CCHHHHHHHHHHHHHhhhhhh-----cccccCCCCCC
Confidence            67889999998                 999999999988775432100     01556999998

>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=99.27  E-value=1.2e-11  Score=97.21  Aligned_cols=103  Identities=15%  Similarity=0.044  Sum_probs=75.5

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCC--CCcEEEEeecCCCCCcccccccHHHH-HH
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTP--GKKLVIVINKAGKPSTKIQSGSMAQI-FQ   81 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~--~k~~ilVlNK~Dl~~~~~~~~~~~~~-~~   81 (161)
                      +|.+.+++++...+..++..||++|+|+|++++.+..+..+.+.+.. .  +.|+++|+||+|+.+.        .. +.
T Consensus        67 ~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~~~~~~~~i~~~l~~-~~~~~p~ilV~NK~Dl~~~--------~~~~~  137 (301)
T 1wf3_A           67 KPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKP-LVGKVPILLVGNKLDAAKY--------PEEAM  137 (301)
T ss_dssp             CCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGG-GTTTSCEEEEEECGGGCSS--------HHHHH
T ss_pred             chhhHHHHHHHHHHHHHHhcCCEEEEEEECCCCCChHHHHHHHHHHh-hcCCCCEEEEEECcccCCc--------hHHHH
Confidence            34556677777777899999999999999998877666666666665 3  7999999999999865        22 22


Q ss_pred             HHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          82 TWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        82 ~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+...+.  ...+++++||+++                 .|+++|.+.|.+.++
T Consensus       138 ~~~~~~~--~~~~~~~iSA~~g-----------------~gv~~l~~~l~~~l~  172 (301)
T 1wf3_A          138 KAYHELL--PEAEPRMLSALDE-----------------RQVAELKADLLALMP  172 (301)
T ss_dssp             HHHHHTS--TTSEEEECCTTCH-----------------HHHHHHHHHHHTTCC
T ss_pred             HHHHHhc--CcCcEEEEeCCCC-----------------CCHHHHHHHHHHhcc
Confidence            2222222  2446899999988                 777777777776554

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.19  E-value=2.6e-10  Score=97.29  Aligned_cols=129  Identities=14%  Similarity=0.087  Sum_probs=89.8

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      +|.|..  |..+. ...+..+|.+|+|+|++++...+.......... .+.|+++|+||+|+.+..     .......+.
T Consensus        78 TPGh~d--F~~ev-~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~-~~ipiIvViNKiDl~~a~-----~~~v~~ei~  148 (599)
T 3cb4_D           78 TPGHVD--FSYEV-SRSLAACEGALLVVDAGQGVEAQTLANCYTAME-MDLEVVPVLNKIDLPAAD-----PERVAEEIE  148 (599)
T ss_dssp             CCCCGG--GHHHH-HHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH-TTCEEEEEEECTTSTTCC-----HHHHHHHHH
T ss_pred             CCCchH--HHHHH-HHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH-CCCCEEEeeeccCccccc-----HHHHHHHHH
Confidence            356532  44444 678899999999999998876555444333333 579999999999997641     112234444


Q ss_pred             hhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC--CCCceEEEEEee---cCCCccccc
Q psy8220          85 PYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD--IKTSITVGVVGE---CNIAGSIRD  159 (161)
Q Consensus        85 ~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~--~~~~~~v~vvG~---pNVGKSsl~  159 (161)
                      +.+. ....+++++||+++                 .|+++|++.|.+.++...  ...+.+..|.+.   |++|+.+++
T Consensus       149 ~~lg-~~~~~vi~vSAktg-----------------~GI~~Ll~~I~~~lp~p~~~~~~p~~alI~d~~~d~~~G~v~~~  210 (599)
T 3cb4_D          149 DIVG-IDATDAVRCSAKTG-----------------VGVQDVLERLVRDIPPPEGDPEGPLQALIIDSWFDNYLGVVSLI  210 (599)
T ss_dssp             HHTC-CCCTTCEEECTTTC-----------------TTHHHHHHHHHHHSCCCCCCTTSCCEEEEEEEEEETTTEEEEEE
T ss_pred             HHhC-CCcceEEEeecccC-----------------CCchhHHHHHhhcCCCccccccCCceeeeeeccccccccEEEEE
Confidence            4443 11235899999999                 999999999998886432  234677777777   999998875


Q ss_pred             C
Q psy8220         160 L  160 (161)
Q Consensus       160 ~  160 (161)
                      +
T Consensus       211 r  211 (599)
T 3cb4_D          211 R  211 (599)
T ss_dssp             E
T ss_pred             E
Confidence            3

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.16  E-value=1.3e-10  Score=86.24  Aligned_cols=95  Identities=14%  Similarity=0.141  Sum_probs=66.7

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc------CCCCc
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI------QSIYS   94 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~------~~~~~   94 (161)
                      ....+|++++|+|++++....+..+.+.+.. .+.|+++|+||+|+.+..    ........+.+.+..      ....+
T Consensus       112 ~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~-~~~p~i~v~nK~Dl~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~~  186 (223)
T 4dhe_A          112 TRPQLCGMILMMDARRPLTELDRRMIEWFAP-TGKPIHSLLTKCDKLTRQ----ESINALRATQKSLDAYRDAGYAGKLT  186 (223)
T ss_dssp             HCTTEEEEEEEEETTSCCCHHHHHHHHHHGG-GCCCEEEEEECGGGSCHH----HHHHHHHHHHHHHHHHHHHTCCSCEE
T ss_pred             cCcCcCEEEEEEeCCCCCCHHHHHHHHHHHh-cCCCEEEEEeccccCChh----hHHHHHHHHHHHHHhhhhcccCCCCe
Confidence            3444899999999998877666677777765 679999999999998751    000111222222221      13557


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      ++++||+++                 .|+++|.+.|.+.++..
T Consensus       187 ~~~~SA~~g-----------------~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          187 VQLFSALKR-----------------TGLDDAHALIESWLRPA  212 (223)
T ss_dssp             EEEEBTTTT-----------------BSHHHHHHHHHHHHC--
T ss_pred             EEEeecCCC-----------------cCHHHHHHHHHHhcCcc
Confidence            899999999                 99999999999887653

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.15  E-value=3.7e-10  Score=81.50  Aligned_cols=101  Identities=16%  Similarity=0.115  Sum_probs=68.4

Q ss_pred             HHHHHHHHh---hhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVV---EAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i---~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+   ..+|++++|+|++.+....+..+.+++.. .+.|+++|+||+|+.+..    ......+.....+...
T Consensus        91 ~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~-~~~p~i~v~nK~Dl~~~~----~~~~~~~~~~~~~~~~  165 (195)
T 3pqc_A           91 WKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKS-LNIPFTIVLTKMDKVKMS----ERAKKLEEHRKVFSKY  165 (195)
T ss_dssp             HHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH-TTCCEEEEEECGGGSCGG----GHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHH-cCCCEEEEEEChhcCChH----HHHHHHHHHHHHHhhc
Confidence            444433334   44599999999988766656666666665 579999999999998651    1111122222333311


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ...+++.+||+++                 .|+++|.+.|.+.+++
T Consensus       166 ~~~~~~~~Sa~~~-----------------~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          166 GEYTIIPTSSVTG-----------------EGISELLDLISTLLKE  194 (195)
T ss_dssp             CCSCEEECCTTTC-----------------TTHHHHHHHHHHHHC-
T ss_pred             CCCceEEEecCCC-----------------CCHHHHHHHHHHHhhc
Confidence            2457899999999                 9999999999887653

>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=99.15  E-value=4.2e-10  Score=81.54  Aligned_cols=102  Identities=12%  Similarity=0.075  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHhhhc---cEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          12 VVVQEIERSVVEAA---DVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        12 ~~~~~~~~~~i~~a---DviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      +.+..++...+..+   |++++|+|++++....+..+.+++.. .+.|+++|+||+|+.+..    ..........+.+.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~-~~~p~i~v~nK~Dl~~~~----~~~~~~~~~~~~~~  164 (195)
T 1svi_A           90 EAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKY-YGIPVIVIATKADKIPKG----KWDKHAKVVRQTLN  164 (195)
T ss_dssp             HHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH-TTCCEEEEEECGGGSCGG----GHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHHHHHHHHH-cCCCEEEEEECcccCChH----HHHHHHHHHHHHHc
Confidence            33444444555555   99999999998876655556666665 679999999999998751    11111223333333


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .....+++.+||+++                 .|+++|.+.|.+.++
T Consensus       165 ~~~~~~~~~~Sa~~~-----------------~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          165 IDPEDELILFSSETK-----------------KGKDEAWGAIKKMIN  194 (195)
T ss_dssp             CCTTSEEEECCTTTC-----------------TTHHHHHHHHHHHHT
T ss_pred             ccCCCceEEEEccCC-----------------CCHHHHHHHHHHHhc
Confidence            223567899999998                 999999999987654

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.12  E-value=2.7e-11  Score=86.93  Aligned_cols=105  Identities=12%  Similarity=-0.041  Sum_probs=64.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHH-hCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLV-VGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l-~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+..+|++++|+|++++..... ..+...+ ...  .+.|+++|.||+|+.+..  .... +....+...    .+.+
T Consensus        72 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~~~~  144 (181)
T 3t5g_A           72 QTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMER--VISY-EEGKALAES----WNAA  144 (181)
T ss_dssp             GGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTC--CSCH-HHHHHHHHH----TTCE
T ss_pred             HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcc--eecH-HHHHHHHHH----hCCc
Confidence            456778999999999987532111 1111112 110  368999999999996531  1111 222333332    3567


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCccc
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSI  157 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSs  157 (161)
                      ++.+||+++                 .|++++.+.|.+.+....          |.+++||||
T Consensus       145 ~~~~Sa~~~-----------------~~v~~l~~~l~~~~~~~~----------~~~~~gkss  180 (181)
T 3t5g_A          145 FLESSAKEN-----------------QTAVDVFRRIILEAEKMD----------GACSQGKSS  180 (181)
T ss_dssp             EEECCTTSH-----------------HHHHHHHHHHHHHHHTC---------------CCBSC
T ss_pred             EEEEecCCC-----------------CCHHHHHHHHHHHHHHhc----------CCcccCcCC
Confidence            899999998                 899999999988876543          788999998

>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=99.10  E-value=3.5e-10  Score=93.45  Aligned_cols=114  Identities=17%  Similarity=0.102  Sum_probs=77.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      ...++.||++|+|+|++++....+..+..++.+ .++|+++|+||+|+.+..  .....+..+...+.+....+.|++++
T Consensus       272 ~~~~~~ad~~llviD~~~~~~~~~~~~~~~~~~-~~~~~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~  348 (456)
T 4dcu_A          272 LKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHE-AGKAVVIVVNKWDAVDKD--ESTMKEFEENIRDHFQFLDYAPILFM  348 (456)
T ss_dssp             HHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHH-TTCEEEEEEECGGGSCCC--SSHHHHHHHHHHHHCGGGTTSCEEEC
T ss_pred             HHHHhhCCEEEEEEeCCCCcCHHHHHHHHHHHH-cCCCEEEEEEChhcCCCc--hHHHHHHHHHHHHhcccCCCCCEEEE
Confidence            468899999999999999888888888887776 689999999999998641  11111111111122221135689999


Q ss_pred             eecCCCCcchhh---hhhhhccccccCHHHHHHHHHhHhh
Q psy8220          99 SSRSQKDAQTER---DLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        99 Sa~~~~~~~~~~---~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ||+++.+....+   ...+.....+.....|.+.+.+...
T Consensus       349 SA~~g~gv~~l~~~i~~~~~~~~~~~~t~~ln~~l~~~~~  388 (456)
T 4dcu_A          349 SALTKKRIHTLMPAIIKASENHSLRVQTNVLNDVIMDAVA  388 (456)
T ss_dssp             CTTTCTTGGGHHHHHHHHHHHHTCCCCHHHHHHHHHHHHH
T ss_pred             cCCCCcCHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHH
Confidence            999986555443   3455556667777777777766553

>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=99.08  E-value=6.1e-10  Score=90.62  Aligned_cols=126  Identities=14%  Similarity=0.108  Sum_probs=78.9

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCC-CCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPM-GTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~-~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      |.|..  |.... ...+..+|++|+|+|++++. ..+..+....+.....+|+++|+||+|+.+..    ...+..+...
T Consensus        83 PGh~~--~~~~~-~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~----~~~~~~~~i~  155 (403)
T 3sjy_A           83 PGHEV--LMATM-LSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSKE----EALSQYRQIK  155 (403)
T ss_dssp             CCCGG--GHHHH-HHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHH----HHHHHHHHHH
T ss_pred             CCcHH--HHHHH-HHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECccccchH----HHHHHHHHHH
Confidence            55433  34444 67888999999999999875 33333333333321246999999999998751    0101112222


Q ss_pred             hhhcc--CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC--CCCceEEEEEeecCCCc
Q psy8220          85 PYNSI--QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD--IKTSITVGVVGECNIAG  155 (161)
Q Consensus        85 ~~~~~--~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~--~~~~~~v~vvG~pNVGK  155 (161)
                      +.+..  ....+++++||+++                 .|+++|++.|.+.++...  ...+.+..|....+|.+
T Consensus       156 ~~l~~~~~~~~~ii~vSA~~g-----------------~gi~~L~~~l~~~l~~~~~~~~~~~~~~v~~~~~v~~  213 (403)
T 3sjy_A          156 QFTKGTWAENVPIIPVSALHK-----------------INIDSLIEGIEEYIKTPYRDLSQKPVMLVIRSFDVNK  213 (403)
T ss_dssp             HHHTTSTTTTCCEEECBTTTT-----------------BSHHHHHHHHHHHSCCCCCCTTSCCEEEEEEEECCCC
T ss_pred             HHHHhhCCCCCEEEEEECCCC-----------------cChHHHHHHHHHhCCCCCCCCCCCcEEEEEEEEeecC
Confidence            22221  12567999999999                 999999999998765432  23456777766555544

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.07  E-value=5.4e-10  Score=78.25  Aligned_cols=91  Identities=21%  Similarity=0.226  Sum_probs=67.1

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      +.+.+...+..+|++++|+|++++....+..+.+++.. .+.|+++|+||+|+.+..       +....+.   .  .+.
T Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~-------~~~~~~~---~--~~~  135 (161)
T 2dyk_A           69 IQEKVDRALEDAEVVLFAVDGRAELTQADYEVAEYLRR-KGKPVILVATKVDDPKHE-------LYLGPLY---G--LGF  135 (161)
T ss_dssp             HHHHHHHHTTTCSEEEEEEESSSCCCHHHHHHHHHHHH-HTCCEEEEEECCCSGGGG-------GGCGGGG---G--GSS
T ss_pred             HHHHHHHHHHhCCEEEEEEECCCcccHhHHHHHHHHHh-cCCCEEEEEECcccccch-------HhHHHHH---h--CCC
Confidence            45555678899999999999998766555566666654 579999999999997541       1111111   1  234


Q ss_pred             -ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          94 -SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        94 -~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       +++.+||+++                 .|+++|.+.|.+.+
T Consensus       136 ~~~~~~Sa~~~-----------------~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          136 GDPIPTSSEHA-----------------RGLEELLEAIWERL  160 (161)
T ss_dssp             CSCEECBTTTT-----------------BSHHHHHHHHHHHC
T ss_pred             CCeEEEecccC-----------------CChHHHHHHHHHhC
Confidence             6899999998                 99999999987654

>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=99.05  E-value=1.2e-10  Score=91.48  Aligned_cols=95  Identities=8%  Similarity=0.150  Sum_probs=64.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      +.+.+..+++.+|++++|+|++. +...+..+.+.+.. .+.|+++|+||+|+....       ..+......+.+..++
T Consensus        78 ~~~~~~~~l~~~D~vl~Vvd~~~-~~~~~~~i~~~l~~-~~~P~ilvlNK~D~~~~~-------~~~~~~l~~l~~~~~~  148 (301)
T 1ega_A           78 MNKAASSSIGDVELVIFVVEGTR-WTPDDEMVLNKLRE-GKAPVILAVNKVDNVQEK-------ADLLPHLQFLASQMNF  148 (301)
T ss_dssp             HTCCTTSCCCCEEEEEEEEETTC-CCHHHHHHHHHHHS-SSSCEEEEEESTTTCCCH-------HHHHHHHHHHHTTSCC
T ss_pred             HHHHHHHHHhcCCEEEEEEeCCC-CCHHHHHHHHHHHh-cCCCEEEEEECcccCccH-------HHHHHHHHHHHHhcCc
Confidence            33434678899999999999987 66666777777765 579999999999998621       2223333333321233


Q ss_pred             -ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          94 -SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        94 -~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       +++++||+++                 .|+++|.+.|.+.+
T Consensus       149 ~~~i~iSA~~g-----------------~~v~~l~~~i~~~l  173 (301)
T 1ega_A          149 LDIVPISAETG-----------------LNVDTIAAIVRKHL  173 (301)
T ss_dssp             SEEEECCTTTT-----------------TTHHHHHHHHHTTC
T ss_pred             CceEEEECCCC-----------------CCHHHHHHHHHHhC
Confidence             5889999998                 56666666665543

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.01  E-value=1.5e-09  Score=89.13  Aligned_cols=114  Identities=17%  Similarity=0.102  Sum_probs=78.2

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      ...++.||++|+|+|++++.+.++..+...+.. .++|+++|+||+|+.+..  .....+........+....+.|++++
T Consensus       252 ~~~~~~ad~~llv~D~~~~~s~~~~~~~~~~~~-~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~l~~~~~~~~~~~  328 (436)
T 2hjg_A          252 LKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHE-AGKAVVIVVNKWDAVDKD--ESTMKEFEENIRDHFQFLDYAPILFM  328 (436)
T ss_dssp             HHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHH-TTCEEEEEEECGGGSCCC--TTHHHHHHHHHHHHCGGGTTSCEEEC
T ss_pred             HHHHHhCCEEEEEEcCCcCCcHHHHHHHHHHHH-cCCcEEEEEECccCCCcc--hHHHHHHHHHHHHhcccCCCCCEEEE
Confidence            368899999999999999888777777776665 689999999999998651  11111111222223322236789999


Q ss_pred             eecCCCCcchhh---hhhhhccccccCHHHHHHHHHhHhh
Q psy8220          99 SSRSQKDAQTER---DLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        99 Sa~~~~~~~~~~---~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ||+++.+....+   ...+.....+..+..|.+.|.+...
T Consensus       329 SA~tg~~v~~l~~~i~~~~~~~~~~~~t~~ln~~l~~~~~  368 (436)
T 2hjg_A          329 SALTKKRIHTLMPAIIKASENHSLRVQTNVLNDVIMDAVA  368 (436)
T ss_dssp             CTTTCTTGGGHHHHHHHHHHHHTCCCCHHHHHHHHHHHHH
T ss_pred             ecccCCCHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHH
Confidence            999996655543   3445556677778888888777653

>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=98.95  E-value=2.1e-09  Score=75.96  Aligned_cols=100  Identities=14%  Similarity=0.056  Sum_probs=64.5

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHh-hhhcc
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI-PYNSI   89 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~-~~~~~   89 (161)
                      +.++...+..+|++++|+|++++..-  ....+...+...  .+.|+++|+||+|+.+..    .. ..+.... .....
T Consensus        65 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~-~~~~~~~~~~~~~  139 (171)
T 1upt_A           65 RPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAM----TS-SEMANSLGLPALK  139 (171)
T ss_dssp             GGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC----CH-HHHHHHHTGGGCT
T ss_pred             hHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCC----CH-HHHHHHhCchhcc
Confidence            34445678899999999999887432  122333333321  378999999999997641    01 1122111 11111


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ..+.+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       140 ~~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~~  169 (171)
T 1upt_A          140 DRKWQIFKTSATKG-----------------TGLDEAMEWLVETLKS  169 (171)
T ss_dssp             TSCEEEEECCTTTC-----------------TTHHHHHHHHHHHHHT
T ss_pred             CCceEEEECcCCCC-----------------cCHHHHHHHHHHHHhh
Confidence            12456889999999                 9999999999887654

>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=98.94  E-value=4.4e-09  Score=73.86  Aligned_cols=100  Identities=14%  Similarity=0.084  Sum_probs=63.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh-hhc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP-YNS   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~-~~~   88 (161)
                      ++.++...+..+|++++|+|++++.+-  ....+...+...  .+.|+++|.||+|+.+..    .. +.+..... ...
T Consensus        57 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~-~~~~~~~~~~~~  131 (164)
T 1r8s_A           57 IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM----NA-AEITDKLGLHSL  131 (164)
T ss_dssp             GHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC----CH-HHHHHHTTGGGC
T ss_pred             hHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCC----CH-HHHHHHhCcccc
Confidence            445556778999999999999876321  112233333211  378999999999997641    11 11222211 111


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ...+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       132 ~~~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~  161 (164)
T 1r8s_A          132 RHRNWYIQATCATSG-----------------DGLYEGLDWLSNQLR  161 (164)
T ss_dssp             SSCCEEEEECBTTTT-----------------BTHHHHHHHHHHHC-
T ss_pred             cCccEEEEEcccCCC-----------------cCHHHHHHHHHHHHh
Confidence            112456889999998                 999999999987654

>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=98.94  E-value=2.7e-09  Score=88.93  Aligned_cols=86  Identities=21%  Similarity=0.198  Sum_probs=62.8

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      ++.++.||++|+|+|++++....+..+.+.+   .++|+++|+||+|+.+..    .. +.+..   .+.  ...+++.+
T Consensus       318 ~~~~~~aD~vl~VvD~s~~~s~~~~~il~~l---~~~piivV~NK~DL~~~~----~~-~~~~~---~~~--~~~~~i~i  384 (482)
T 1xzp_A          318 LQEIEKADIVLFVLDASSPLDEEDRKILERI---KNKRYLVVINKVDVVEKI----NE-EEIKN---KLG--TDRHMVKI  384 (482)
T ss_dssp             HHHHHHCSEEEEEEETTSCCCHHHHHHHHHH---TTSSEEEEEEECSSCCCC----CH-HHHHH---HHT--CSTTEEEE
T ss_pred             HHHhhcccEEEEEecCCCCCCHHHHHHHHHh---cCCCEEEEEECccccccc----CH-HHHHH---Hhc--CCCcEEEE
Confidence            5678999999999999888665555555555   368999999999997531    11 11222   222  23578999


Q ss_pred             eecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          99 SSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        99 Sa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ||+++                 .|+++|.+.|.+.+
T Consensus       385 SAktg-----------------~Gi~eL~~~l~~~~  403 (482)
T 1xzp_A          385 SALKG-----------------EGLEKLEESIYRET  403 (482)
T ss_dssp             EGGGT-----------------CCHHHHHHHHHHHT
T ss_pred             ECCCC-----------------CCHHHHHHHHHHHH
Confidence            99999                 89999999988754

>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=98.90  E-value=4.5e-09  Score=87.57  Aligned_cols=105  Identities=17%  Similarity=0.139  Sum_probs=70.9

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      |.|.  .|...+ ...+..+|++|+|+|++++...+..+....+.. .+.|.++|+||+|+.+..    ..........+
T Consensus        81 PGh~--~~~~~~-~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~-~~ip~IvviNK~Dl~~~~----~~~~~~~~l~~  152 (482)
T 1wb1_A           81 PGHA--DLIRAV-VSAADIIDLALIVVDAKEGPKTQTGEHMLILDH-FNIPIIVVITKSDNAGTE----EIKRTEMIMKS  152 (482)
T ss_dssp             SSHH--HHHHHH-HHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHH-TTCCBCEEEECTTSSCHH----HHHHHHHHHHH
T ss_pred             CChH--HHHHHH-HHHHhhCCEEEEEEecCCCccHHHHHHHHHHHH-cCCCEEEEEECCCcccch----hHHHHHHHHHH
Confidence            5553  345555 688899999999999998765555444444444 578999999999998641    01111112222


Q ss_pred             hhccC---CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          86 YNSIQ---SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        86 ~~~~~---~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+...   ...+++++||+++                 .|+++|++.|.+.++
T Consensus       153 ~l~~~~~~~~~~ii~vSA~~g-----------------~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          153 ILQSTHNLKNSSIIPISAKTG-----------------FGVDELKNLIITTLN  188 (482)
T ss_dssp             HHHHSSSGGGCCEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             HHhhhcccccceEEEEECcCC-----------------CCHHHHHHHHHHhhc
Confidence            22111   1467899999999                 999999999988764

>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=98.89  E-value=8.4e-09  Score=84.76  Aligned_cols=113  Identities=15%  Similarity=0.081  Sum_probs=70.8

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      ...+..+|++++|+|++.+....+..+...+.. .++|+++|+||+|+.+..  .....+........+....+.|++++
T Consensus       258 ~~~i~~ad~vllv~d~~~~~~~~~~~i~~~l~~-~~~~~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (439)
T 1mky_A          258 VDSIEKADVVVIVLDATQGITRQDQRMAGLMER-RGRASVVVFNKWDLVVHR--EKRYDEFTKLFREKLYFIDYSPLIFT  334 (439)
T ss_dssp             HHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHH-TTCEEEEEEECGGGSTTG--GGCHHHHHHHHHHHCGGGTTSCEEEC
T ss_pred             HHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHH-cCCCEEEEEECccCCCch--hhHHHHHHHHHHHHhccCCCCcEEEE
Confidence            467889999999999998877666666666655 689999999999997641  11111111122222221235688999


Q ss_pred             eecCCCCcchhh---hhhhhccccccCHHHHHHHHHhHh
Q psy8220          99 SSRSQKDAQTER---DLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        99 Sa~~~~~~~~~~---~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ||+++.+....+   ...+.+...+..+..|.+.|.+..
T Consensus       335 SA~~g~gv~~l~~~i~~~~~~~~~~i~t~~ln~~l~~~~  373 (439)
T 1mky_A          335 SADKGWNIDRMIDAMNLAYASYTTKVPSSAINSALQKVL  373 (439)
T ss_dssp             BTTTTBSHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHH
Confidence            999984433332   233444455556666666665544

>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=98.88  E-value=3.7e-09  Score=76.02  Aligned_cols=102  Identities=19%  Similarity=0.155  Sum_probs=65.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh-hc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY-NS   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~-~~   88 (161)
                      ++.++...+..+|++++|+|++++.+-..  ..+...+...  .+.|+++|+||+|+.+..    .. +.+...... ..
T Consensus        75 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~-~~~~~~~~~~~~  149 (186)
T 1ksh_A           75 LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL----SC-NAIQEALELDSI  149 (186)
T ss_dssp             HHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC----CH-HHHHHHTTGGGC
T ss_pred             HHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCC----CH-HHHHHHhChhhc
Confidence            44555677899999999999987643211  2223333211  368999999999997641    11 112222211 01


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      ...+.+++.+||+++                 .|+++|.+.|.+.+.++
T Consensus       150 ~~~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          150 RSHHWRIQGCSAVTG-----------------EDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             CSSCEEEEECCTTTC-----------------TTHHHHHHHHHHHHHTC
T ss_pred             cCCceEEEEeeCCCC-----------------CCHHHHHHHHHHHHHhc
Confidence            113457889999998                 99999999998877653

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=98.88  E-value=1.9e-08  Score=82.88  Aligned_cols=94  Identities=18%  Similarity=0.183  Sum_probs=54.6

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCC-------CCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHH
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMG-------TRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMA   77 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~-------~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~   77 (161)
                      |.|.  .|.+.+ ...+..||++|+|+|++++..       .+..+....+.. .+.| +|+|+||+|+.+.+.......
T Consensus       103 PGh~--~f~~~~-~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~-~~v~~iIvviNK~Dl~~~~~~~~~~~  178 (439)
T 3j2k_7          103 PGHK--SFVPNM-IGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT-AGVKHLIVLINKMDDPTVNWSNERYE  178 (439)
T ss_pred             CChH--HHHHHH-HhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH-cCCCeEEEEeecCCCcccchHHHHHH
Confidence            5553  344555 678899999999999998753       233343333433 4666 899999999964211000111


Q ss_pred             HHHHHHhhhhccC-----CCCceeEEeecCC
Q psy8220          78 QIFQTWIPYNSIQ-----SIYSSPRFSSRSQ  103 (161)
Q Consensus        78 ~~~~~~~~~~~~~-----~~~~~i~iSa~~~  103 (161)
                      +.......++...     ...+++++||+++
T Consensus       179 ~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G  209 (439)
T 3j2k_7          179 ECKEKLVPFLKKVGFNPKKDIHFMPCSGLTG  209 (439)
T ss_pred             HHHHHHHHHHHHhcccccCCeeEEEeeccCC
Confidence            1111111222110     1357899999999

>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=98.87  E-value=5.6e-09  Score=76.07  Aligned_cols=99  Identities=11%  Similarity=0.085  Sum_probs=62.6

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh-hhcc
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP-YNSI   89 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~-~~~~   89 (161)
                      +.++...+..+|++++|+|++++..-  ....+...+...  .+.|+++|+||+|+.+..    .. +.+..... ....
T Consensus        87 ~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~i~~~~~~~~~~  161 (192)
T 2b6h_A           87 RPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAM----PV-SELTDKLGLQHLR  161 (192)
T ss_dssp             CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC----CH-HHHHHHTTGGGCS
T ss_pred             HHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCC----CH-HHHHHHhCccccc
Confidence            34456678899999999999876321  112233333221  368999999999997641    11 11222111 1111


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ..+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       162 ~~~~~~~~~SA~~g-----------------~gi~~l~~~l~~~i~  190 (192)
T 2b6h_A          162 SRTWYVQATCATQG-----------------TGLYDGLDWLSHELS  190 (192)
T ss_dssp             SCCEEEEECBTTTT-----------------BTHHHHHHHHHHHTT
T ss_pred             CCceEEEECcCCCc-----------------CCHHHHHHHHHHHHh
Confidence            12456889999998                 999999999887654

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=98.86  E-value=2.8e-09  Score=77.29  Aligned_cols=100  Identities=10%  Similarity=0.034  Sum_probs=63.2

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC---------CCCcEEEEeecCCCCCcccccccHHHHHHHH
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT---------PGKKLVIVINKAGKPSTKIQSGSMAQIFQTW   83 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~---------~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~   83 (161)
                      ..++...+..+|++|+|+|++++.+-  ....+...+...         .+.|+++|+||+|+.+..    .. +.+...
T Consensus        77 ~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~~~~~  151 (199)
T 4bas_A           77 RGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAK----TA-AELVEI  151 (199)
T ss_dssp             GGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCC----CH-HHHHHH
T ss_pred             HHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCC----CH-HHHHHH
Confidence            34445678899999999999876431  112223322210         168999999999997651    11 111111


Q ss_pred             hh--hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          84 IP--YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        84 ~~--~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ..  .+....+.+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       152 ~~~~~~~~~~~~~~~~~Sa~~g-----------------~gv~~l~~~l~~~~~~  189 (199)
T 4bas_A          152 LDLTTLMGDHPFVIFASNGLKG-----------------TGVHEGFSWLQETASR  189 (199)
T ss_dssp             HTHHHHHTTSCEEEEECBTTTT-----------------BTHHHHHHHHHHHHHH
T ss_pred             hcchhhccCCeeEEEEeeCCCc-----------------cCHHHHHHHHHHHHHH
Confidence            11  110113557889999998                 9999999999887654

>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=98.86  E-value=3.4e-09  Score=76.45  Aligned_cols=95  Identities=11%  Similarity=0.054  Sum_probs=62.8

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc----HHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC----KVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~----~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~   86 (161)
                      +.++...+..+|++|+|+|++++....+    ..+..++...    .+.|+++|.||+|+.+..    .. +....+...
T Consensus        88 ~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~~~~~~~~  162 (198)
T 3t1o_A           88 NASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLPDAL----PV-EMVRAVVDP  162 (198)
T ss_dssp             SHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSCEEEEEECTTSTTCC----CH-HHHHHHHCT
T ss_pred             HHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCCEEEEEEchhccccc----CH-HHHHHHHHh
Confidence            3455667899999999999985432222    1222333221    478999999999997641    11 222332222


Q ss_pred             hccCCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          87 NSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        87 ~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                          .+. +++.+||+++                 .|++++.+.|.+.+.
T Consensus       163 ----~~~~~~~~~Sa~~~-----------------~gv~~l~~~l~~~i~  191 (198)
T 3t1o_A          163 ----EGKFPVLEAVATEG-----------------KGVFETLKEVSRLVL  191 (198)
T ss_dssp             ----TCCSCEEECBGGGT-----------------BTHHHHHHHHHHHHH
T ss_pred             ----cCCceEEEEecCCC-----------------cCHHHHHHHHHHHHH
Confidence                345 7899999999                 999999999887654

>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=98.86  E-value=3.1e-09  Score=76.70  Aligned_cols=99  Identities=9%  Similarity=0.050  Sum_probs=64.3

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh--hc
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY--NS   88 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~--~~   88 (161)
                      +.++...+..+|++++|+|++++.+-  ....+...+...  .+.|+++|+||+|+.+..    .. +.+..+...  +.
T Consensus        74 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~i~~~~~~~~~~  148 (187)
T 1zj6_A           74 RSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECM----TV-AEISQFLKLTSIK  148 (187)
T ss_dssp             CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC----CH-HHHHHHHTGGGCC
T ss_pred             HHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCCC----CH-HHHHHHhChhhhc
Confidence            33445677899999999999887431  112233333210  478999999999997641    01 222222221  11


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                       ..+.+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       149 -~~~~~~~~~Sa~~g-----------------~gi~~l~~~l~~~~~~  178 (187)
T 1zj6_A          149 -DHQWHIQACCALTG-----------------EGLCQGLEWMMSRLKI  178 (187)
T ss_dssp             -SSCEEEEECBTTTT-----------------BTHHHHHHHHHHHHCC
T ss_pred             -CCCcEEEEccCCCC-----------------cCHHHHHHHHHHHHHH
Confidence             12457889999999                 9999999999887754

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=98.86  E-value=6.1e-09  Score=75.69  Aligned_cols=99  Identities=13%  Similarity=0.017  Sum_probs=63.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+..+|++|+|+|++++....+ ..+...+...  .+.|+++|+||+|+.+..  .... +....+...+   
T Consensus        88 ~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~--~v~~-~~~~~~~~~~---  161 (192)
T 2il1_A           88 FNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDR--EITR-QQGEKFAQQI---  161 (192)
T ss_dssp             GHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--CSCH-HHHHHHHHTS---
T ss_pred             HHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc--ccCH-HHHHHHHHhc---
Confidence            34455677889999999999987643222 1222222211  368999999999986531  1111 1222332222   


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       162 ~~~~~~~~SA~~g-----------------~gi~~l~~~l~~~i~  189 (192)
T 2il1_A          162 TGMRFCEASAKDN-----------------FNVDEIFLKLVDDIL  189 (192)
T ss_dssp             TTCEEEECBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            2567899999998                 999999999887654

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=98.85  E-value=7.9e-09  Score=73.46  Aligned_cols=94  Identities=15%  Similarity=0.124  Sum_probs=63.2

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc---cCCC--C
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS---IQSI--Y   93 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~---~~~~--~   93 (161)
                      ...+..+|++++|+|++++...........+.. .+.|+++|+||+|+.+..     . +.+..+.....   ...+  .
T Consensus        73 ~~~~~~~d~~i~v~d~~~~~~~~~~~~l~~~~~-~~~p~ilv~nK~Dl~~~~-----~-~~~~~~~~~~~~~~~~~~~~~  145 (178)
T 2lkc_A           73 ARGAQVTDIVILVVAADDGVMPQTVEAINHAKA-ANVPIIVAINKMDKPEAN-----P-DRVMQELMEYNLVPEEWGGDT  145 (178)
T ss_dssp             CSSCCCCCEEEEEEETTCCCCHHHHHHHHHHGG-GSCCEEEEEETTTSSCSC-----H-HHHHHHHTTTTCCBTTTTSSE
T ss_pred             HHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHh-CCCCEEEEEECccCCcCC-----H-HHHHHHHHhcCcChhHcCCcc
Confidence            345678999999999988755444444444444 579999999999997641     0 11222222211   0011  3


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +++.+||+++                 .|+++|.+.|.+.+..
T Consensus       146 ~~~~~Sa~~~-----------------~gv~~l~~~l~~~~~~  171 (178)
T 2lkc_A          146 IFCKLSAKTK-----------------EGLDHLLEMILLVSEM  171 (178)
T ss_dssp             EEEECCSSSS-----------------HHHHHHHHHHHHHHHH
T ss_pred             cEEEEecCCC-----------------CCHHHHHHHHHHhhhh
Confidence            6889999998                 9999999999877654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=98.84  E-value=3.1e-09  Score=76.90  Aligned_cols=97  Identities=14%  Similarity=0.040  Sum_probs=63.0

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .++...+..+|++++|+|++++..... ..+...+...  .+.|+++|+||+|+.+..  .... +....+...    .+
T Consensus        80 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~~  152 (196)
T 3tkl_A           80 TITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK--VVDY-TTAKEFADS----LG  152 (196)
T ss_dssp             TTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC--CSCH-HHHHHHHHH----TT
T ss_pred             hhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccccc--ccCH-HHHHHHHHH----cC
Confidence            334567789999999999987532111 2222222211  368999999999997641  1111 112222222    35


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+++.+||+++                 .|++++.+.|.+.+..
T Consensus       153 ~~~~~~Sa~~g-----------------~gv~~l~~~l~~~i~~  179 (196)
T 3tkl_A          153 IPFLETSAKNA-----------------TNVEQSFMTMAAEIKK  179 (196)
T ss_dssp             CCEEEECTTTC-----------------TTHHHHHHHHHHHHHH
T ss_pred             CcEEEEeCCCC-----------------CCHHHHHHHHHHHHHH
Confidence            68899999999                 9999999999887654

>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=98.84  E-value=4e-09  Score=75.59  Aligned_cols=93  Identities=11%  Similarity=-0.009  Sum_probs=60.7

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCCc-HH----HHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTRC-KV----AEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~~-~~----i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      +...+..+|++++|+|++++.+-.. ..    +.+.... .+.|+++|.||+|+.+..  .... +....+...+    +
T Consensus        83 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~--~v~~-~~~~~~~~~~----~  154 (183)
T 3kkq_A           83 REQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDR-ESFPMILVANKVDLMHLR--KVTR-DQGKEMATKY----N  154 (183)
T ss_dssp             HHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTS-SCCCEEEEEECTTCSTTC--CSCH-HHHHHHHHHH----T
T ss_pred             HHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCcEEEEEECCCchhcc--CcCH-HHHHHHHHHh----C
Confidence            3556788999999999987632111 11    2222222 478999999999997531  1111 2223333332    4


Q ss_pred             CceeEEeec-CCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          93 YSSPRFSSR-SQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        93 ~~~i~iSa~-~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+++.+||+ ++                 .|++++.+.|.+.+.
T Consensus       155 ~~~~~~Sa~~~~-----------------~~v~~l~~~l~~~i~  181 (183)
T 3kkq_A          155 IPYIETSAKDPP-----------------LNVDKTFHDLVRVIR  181 (183)
T ss_dssp             CCEEEEBCSSSC-----------------BSHHHHHHHHHHHHH
T ss_pred             CeEEEeccCCCC-----------------CCHHHHHHHHHHHHh
Confidence            678999999 88                 899999999987654

>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=98.84  E-value=2.8e-08  Score=80.88  Aligned_cols=103  Identities=10%  Similarity=0.077  Sum_probs=67.0

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCC-CCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc-
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPM-GTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI-   89 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~-~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~-   89 (161)
                      .|...+ ...+..+|++|+|+|++++. ..+..+....+.....+|+++|+||+|+.+..    ...+..+...+++.. 
T Consensus        95 ~f~~~~-~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~~~~~iivviNK~Dl~~~~----~~~~~~~~i~~~l~~~  169 (410)
T 1kk1_A           95 ALMTTM-LAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKE----KALENYRQIKEFIEGT  169 (410)
T ss_dssp             HHHHHH-HHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHH----HHHHHHHHHHHHHTTS
T ss_pred             HHHHHH-HhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEECccCCCHH----HHHHHHHHHHHHHHhc
Confidence            355565 67888999999999999875 22332222223221246899999999998751    000112222333321 


Q ss_pred             -CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          90 -QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        90 -~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                       ....|++++||+++                 .|+++|++.|.+.++.
T Consensus       170 ~~~~~~~i~vSA~~g-----------------~gi~~L~~~l~~~~~~  200 (410)
T 1kk1_A          170 VAENAPIIPISALHG-----------------ANIDVLVKAIEDFIPT  200 (410)
T ss_dssp             TTTTCCEEECBTTTT-----------------BSHHHHHHHHHHHSCC
T ss_pred             CcCCCeEEEeeCCCC-----------------CCHHHHHHHHHHhCCC
Confidence             12568999999999                 9999999999987653

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=98.84  E-value=1.2e-08  Score=73.56  Aligned_cols=97  Identities=20%  Similarity=0.136  Sum_probs=62.7

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh-hhccCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP-YNSIQSIY   93 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~~   93 (161)
                      ...++.+|++++|+|++++..-.  ...+...+...  .+.|+++|+||+|+.+..    .. +.+..... ......+.
T Consensus        84 ~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~-~~~~~~~~~~~~~~~~~  158 (189)
T 2x77_A           84 RCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAA----SE-AEIAEQLGVSSIMNRTW  158 (189)
T ss_dssp             SSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCC----CH-HHHHHHTTGGGCCSSCE
T ss_pred             HHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCC----CH-HHHHHHhChhhccCCce
Confidence            44678999999999998774321  22333433321  368999999999997641    01 11222211 11111244


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      +++.+||+++                 .|+++|.+.|.+.+...
T Consensus       159 ~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~~~  185 (189)
T 2x77_A          159 TIVKSSSKTG-----------------DGLVEGMDWLVERLREQ  185 (189)
T ss_dssp             EEEECCTTTC-----------------TTHHHHHHHHHHHHHHT
T ss_pred             EEEEccCCCc-----------------cCHHHHHHHHHHHHHhc
Confidence            6889999998                 89999999998877654

>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=98.83  E-value=1.7e-08  Score=73.02  Aligned_cols=100  Identities=12%  Similarity=0.112  Sum_probs=63.1

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh-hhc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP-YNS   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~-~~~   88 (161)
                      +..++...+..+|++++|+|++++.+-..  ..+...+...  .+.|+++|+||+|+.+..    .. +.+..... ...
T Consensus        80 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~~~~~~~~~~~  154 (188)
T 1zd9_A           80 FRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL----DE-KELIEKMNLSAI  154 (188)
T ss_dssp             HHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC----CH-HHHHHHTTGGGC
T ss_pred             HHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCC----CH-HHHHHHhChhhh
Confidence            44455677899999999999987632111  2223333211  468999999999997641    00 11122111 111


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ...+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       155 ~~~~~~~~~~SA~~g-----------------~gv~~l~~~l~~~~~  184 (188)
T 1zd9_A          155 QDREICCYSISCKEK-----------------DNIDITLQWLIQHSK  184 (188)
T ss_dssp             CSSCEEEEECCTTTC-----------------TTHHHHHHHHHHTCC
T ss_pred             ccCCeeEEEEECCCC-----------------CCHHHHHHHHHHHHH
Confidence            112446789999998                 999999999987654

>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=98.83  E-value=1.1e-08  Score=75.43  Aligned_cols=98  Identities=11%  Similarity=0.002  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC------CCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT------PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~------~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      +.+..++...+..+|++|+|+|++++...  ..+..++...      .+.|+++|+||+|+.+..  .... +....+..
T Consensus        95 ~~~~~~~~~~~~~~d~iilV~D~~~~~s~--~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~--~v~~-~~~~~~~~  169 (217)
T 2f7s_A           95 ERFRSLTTAFFRDAMGFLLMFDLTSQQSF--LNVRNWMSQLQANAYCENPDIVLIGNKADLPDQR--EVNE-RQARELAD  169 (217)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEETTCHHHH--HHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGC--CSCH-HHHHHHHH
T ss_pred             HhHHhHHHHHhcCCCEEEEEEECcCHHHH--HHHHHHHHHHHHhcCcCCCCEEEEEECCcccccc--ccCH-HHHHHHHH
Confidence            34566667888999999999999875321  2233333221      358999999999996531  1011 22233332


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .    .+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       170 ~----~~~~~~~~Sa~~g-----------------~gi~~l~~~l~~~i~  198 (217)
T 2f7s_A          170 K----YGIPYFETSAATG-----------------QNVEKAVETLLDLIM  198 (217)
T ss_dssp             H----TTCCEEEEBTTTT-----------------BTHHHHHHHHHHHHH
T ss_pred             H----CCCcEEEEECCCC-----------------CCHHHHHHHHHHHHH
Confidence            2    2567899999998                 899999999877653

>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=98.81  E-value=2.5e-08  Score=81.20  Aligned_cols=104  Identities=14%  Similarity=0.119  Sum_probs=60.1

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCC-CCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPM-GTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~-~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      |...+ ...+..+|++|+|+|++++. ..+..+....+.....+|+++|+||+|+.+.. +.....+.+..+..... ..
T Consensus        94 f~~~~-~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~~~~iivv~NK~Dl~~~~-~~~~~~~~i~~~l~~~~-~~  170 (408)
T 1s0u_A           94 LMATM-LSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLVDEK-QAEENYEQIKEFVKGTI-AE  170 (408)
T ss_dssp             HHHHH-HTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECTTSSCTT-TTTTHHHHHHHHHTTST-TT
T ss_pred             HHHHH-HHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHcCCCeEEEEEEccCCCCHH-HHHHHHHHHHHHHhhcC-CC
Confidence            45555 67788899999999999875 22222222233321246899999999998651 11111112222222111 12


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ..+++++||+++                 .|+++|++.|.+.++.
T Consensus       171 ~~~~i~vSA~~g-----------------~gi~~L~~~l~~~i~~  198 (408)
T 1s0u_A          171 NAPIIPISAHHE-----------------ANIDVLLKAIQDFIPT  198 (408)
T ss_dssp             TCCEEEC-----------------------CHHHHHHHHHHHSCC
T ss_pred             CCeEEEeeCCCC-----------------CCHHHHHHHHHHhCCC
Confidence            567899999999                 9999999999987653

>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=98.81  E-value=5.5e-09  Score=75.55  Aligned_cols=97  Identities=9%  Similarity=0.026  Sum_probs=62.2

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCC--CCcHHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhh--hh
Q psy8220          16 EIERSVVEAADVILEVVDARDPMG--TRCKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP--YN   87 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~--~~~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~--~~   87 (161)
                      .++...+..+|++++|+|++++.+  .....+...+...    .+.|+++|+||+|+....    .. +.+..+..  .+
T Consensus        82 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~-~~~~~~~~~~~~  156 (190)
T 2h57_A           82 NLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAV----TS-VKVSQLLCLENI  156 (190)
T ss_dssp             GGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTCC----CH-HHHHHHHTGGGC
T ss_pred             HHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccCC----CH-HHHHHHhChhhc
Confidence            344567889999999999987532  1112333333321    268999999999997641    11 22222221  11


Q ss_pred             ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          88 SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      . ..+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       157 ~-~~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~  186 (190)
T 2h57_A          157 K-DKPWHICASDAIKG-----------------EGLQEGVDWLQDQIQ  186 (190)
T ss_dssp             C-SSCEEEEECBTTTT-----------------BTHHHHHHHHHHHC-
T ss_pred             c-CCceEEEEccCCCC-----------------cCHHHHHHHHHHHHH
Confidence            1 12457889999998                 999999999987654

>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=98.81  E-value=3.9e-09  Score=75.68  Aligned_cols=87  Identities=18%  Similarity=0.098  Sum_probs=60.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      +..+..+|++++|+|++++.+..+..+...+...  .+.|+++|+||+|+.+..          ..+   .. ..+.+++
T Consensus        78 ~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~----------~~~---~~-~~~~~~~  143 (172)
T 2gj8_A           78 WQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITGET----------LGM---SE-VNGHALI  143 (172)
T ss_dssp             HHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHCCC----------CEE---EE-ETTEEEE
T ss_pred             HHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHhcccCCCEEEEEECccCCcch----------hhh---hh-ccCCceE
Confidence            3568999999999999887765444444333321  368999999999986431          011   11 1245688


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+||+++                 .|+++|.+.|.+.+..
T Consensus       144 ~~SA~~g-----------------~gv~~l~~~l~~~~~~  166 (172)
T 2gj8_A          144 RLSARTG-----------------EGVDVLRNHLKQSMGF  166 (172)
T ss_dssp             ECCTTTC-----------------TTHHHHHHHHHHHC--
T ss_pred             EEeCCCC-----------------CCHHHHHHHHHHHhhh
Confidence            9999999                 9999999999877643

>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=98.80  E-value=2.4e-09  Score=76.36  Aligned_cols=99  Identities=8%  Similarity=0.017  Sum_probs=61.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+..+|++++|+|++++....+ ..+...+...  .+.|+++|+||+|+.+..  .... +....+...    
T Consensus        73 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----  145 (180)
T 2g6b_A           73 FRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHER--VVKR-EDGEKLAKE----  145 (180)
T ss_dssp             ------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCC--CSCH-HHHHHHHHH----
T ss_pred             HHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCccc--ccCH-HHHHHHHHH----
Confidence            45555778899999999999987643211 1222222211  468999999999997641  1011 122233222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       146 ~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~~  174 (180)
T 2g6b_A          146 YGLPFMETSAKTG-----------------LNVDLAFTAIAKELKR  174 (180)
T ss_dssp             HTCCEEECCTTTC-----------------TTHHHHHHHHHHHHHC
T ss_pred             cCCeEEEEeCCCC-----------------CCHHHHHHHHHHHHHH
Confidence            2467899999998                 9999999999887654

>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=98.79  E-value=7.5e-09  Score=76.41  Aligned_cols=94  Identities=12%  Similarity=0.016  Sum_probs=59.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      ...+..+|++|+|+|++++.+..+ ..+...+...  .+.|+++|+||+|+.+..       +........+....+.++
T Consensus        79 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-------~~~~~~~~~~~~~~~~~~  151 (218)
T 4djt_A           79 DVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQ-------KISKKLVMEVLKGKNYEY  151 (218)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC-----------CCHHHHHHHTTTCCCEE
T ss_pred             HHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc-------ccCHHHHHHHHHHcCCcE
Confidence            445678999999999987643222 1222222211  368999999999997641       000111112221236679


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +.+||+++                 .|+++|.+.|.+.+..
T Consensus       152 ~~~Sa~~g-----------------~gv~~l~~~l~~~~~~  175 (218)
T 4djt_A          152 FEISAKTA-----------------HNFGLPFLHLARIFTG  175 (218)
T ss_dssp             EEEBTTTT-----------------BTTTHHHHHHHHHHHC
T ss_pred             EEEecCCC-----------------CCHHHHHHHHHHHHhc
Confidence            99999999                 8999999999887754

>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=98.79  E-value=7.3e-09  Score=86.19  Aligned_cols=87  Identities=17%  Similarity=0.146  Sum_probs=61.7

Q ss_pred             HHHhhhccEEEEEEeCCCCCCC----CcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGT----RCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~----~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+..||++|+|+|++++...    .+..+.+.+   .++|+++|+||+|+.+..       . ...  +.+......+
T Consensus       307 ~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l---~~~piIvV~NK~Dl~~~~-------~-~~~--~~l~~~~~~~  373 (476)
T 3gee_A          307 RMKMAEADLILYLLDLGTERLDDELTEIRELKAAH---PAAKFLTVANKLDRAANA-------D-ALI--RAIADGTGTE  373 (476)
T ss_dssp             -CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHC---TTSEEEEEEECTTSCTTT-------H-HHH--HHHHHHHTSC
T ss_pred             HhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhc---CCCCEEEEEECcCCCCcc-------c-hhH--HHHHhcCCCc
Confidence            5678999999999999988654    223333333   369999999999998762       1 111  1111101256


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ++++||+++                 .|+++|.+.|.+.+.
T Consensus       374 ~i~vSAktg-----------------~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          374 VIGISALNG-----------------DGIDTLKQHMGDLVK  397 (476)
T ss_dssp             EEECBTTTT-----------------BSHHHHHHHHTHHHH
T ss_pred             eEEEEECCC-----------------CCHHHHHHHHHHHHh
Confidence            899999999                 999999999988876

>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=98.79  E-value=2.1e-08  Score=72.18  Aligned_cols=100  Identities=14%  Similarity=0.126  Sum_probs=62.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh-hc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY-NS   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~-~~   88 (161)
                      ++.+|...+..+|++++|+|++++..-.  ...+.+.+...  .+.|+++|.||+|+.+..    .. +.+...... ..
T Consensus        73 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~~~~~~~~~~~  147 (181)
T 1fzq_A           73 IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA----PA-SEIAEGLNLHTI  147 (181)
T ss_dssp             GHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC----CH-HHHHHHTTGGGC
T ss_pred             HHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCC----CH-HHHHHHhCchhc
Confidence            3455567788999999999998763211  12223332211  368999999999997641    11 112222111 11


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ...+.+++.+||+++                 .|++++.+.|.+.+.
T Consensus       148 ~~~~~~~~~~Sa~~g-----------------~gi~~l~~~l~~~~~  177 (181)
T 1fzq_A          148 RDRVWQIQSCSALTG-----------------EGVQDGMNWVCKNVN  177 (181)
T ss_dssp             CSSCEEEEECCTTTC-----------------TTHHHHHHHHHHTC-
T ss_pred             cCCceEEEEccCCCC-----------------CCHHHHHHHHHHHHH
Confidence            112446788999999                 999999999977654

>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=98.78  E-value=1.1e-08  Score=73.23  Aligned_cols=98  Identities=15%  Similarity=0.072  Sum_probs=62.6

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc-cCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS-IQS   91 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~   91 (161)
                      ++...+..+|++++|+|++++..-.  ...+...+..  ..+.|+++|+||+|+.+..    .. +.+..+..... ...
T Consensus        78 ~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~-~~i~~~~~~~~~~~~  152 (183)
T 1moz_A           78 YWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGAL----SA-SEVSKELNLVELKDR  152 (183)
T ss_dssp             TGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCC----CH-HHHHHHTTTTTCCSS
T ss_pred             HHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCCC----CH-HHHHHHhCcccccCC
Confidence            3456788999999999998764321  1223333321  1468999999999997641    01 22222222111 112


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +.+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       153 ~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~~  180 (183)
T 1moz_A          153 SWSIVASSAIKG-----------------EGITEGLDWLIDVIKE  180 (183)
T ss_dssp             CEEEEEEBGGGT-----------------BTHHHHHHHHHHHHHH
T ss_pred             ceEEEEccCCCC-----------------cCHHHHHHHHHHHHHh
Confidence            346889999999                 9999999999877643

>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=98.78  E-value=7.1e-09  Score=85.98  Aligned_cols=87  Identities=20%  Similarity=0.235  Sum_probs=65.0

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      .+.+..+|++|+|+|++++....+..+.+.+.   .+|+++|+||+|+.+.        .... ....+.  ...+++.+
T Consensus       298 ~~~~~~aD~vl~VvD~s~~~~~~~~~i~~~l~---~~piivV~NK~Dl~~~--------~~~~-~~~~~~--~~~~~i~i  363 (462)
T 3geh_A          298 RQAANTADLVLLTIDAATGWTTGDQEIYEQVK---HRPLILVMNKIDLVEK--------QLIT-SLEYPE--NITQIVHT  363 (462)
T ss_dssp             -CCCCSCSEEEEEEETTTCSCHHHHHHHHHHT---TSCEEEEEECTTSSCG--------GGST-TCCCCT--TCCCEEEE
T ss_pred             hhhhhcCCEEEEEeccCCCCCHHHHHHHHhcc---CCcEEEEEECCCCCcc--------hhhH-HHHHhc--cCCcEEEE
Confidence            46788999999999999887766666666663   4899999999999875        1111 111111  24578999


Q ss_pred             eecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          99 SSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        99 Sa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ||+++                 .|+++|.+.|.+.+..
T Consensus       364 SAktg-----------------~Gi~eL~~~i~~~~~~  384 (462)
T 3geh_A          364 AAAQK-----------------QGIDSLETAILEIVQT  384 (462)
T ss_dssp             BTTTT-----------------BSHHHHHHHHHHHHTT
T ss_pred             ECCCC-----------------CCHHHHHHHHHHHHhc
Confidence            99999                 9999999999887754

>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=98.78  E-value=3.1e-08  Score=69.46  Aligned_cols=95  Identities=9%  Similarity=-0.016  Sum_probs=60.8

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      ++...+..+|++++|+|++++.+-.. ..+...+..   ..+.|+++|+||+|+.+..  .... +....+...+   .+
T Consensus        67 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~~---~~  140 (167)
T 1c1y_A           67 MRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDER--VVGK-EQGQNLARQW---CN  140 (167)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGC--CSCH-HHHHHHHHHT---TS
T ss_pred             HHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccc--cCCH-HHHHHHHHHc---cC
Confidence            33456778999999999987532111 112222211   1479999999999996531  1111 2223333332   25


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+++.+||+++                 .|+++|.+.|.+.+
T Consensus       141 ~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i  165 (167)
T 1c1y_A          141 CAFLESSAKSK-----------------INVNEIFYDLVRQI  165 (167)
T ss_dssp             CEEEECBTTTT-----------------BSHHHHHHHHHHHH
T ss_pred             CcEEEecCCCC-----------------CCHHHHHHHHHHHH
Confidence            67899999999                 99999999987765

>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=98.78  E-value=5.1e-08  Score=72.73  Aligned_cols=95  Identities=20%  Similarity=0.100  Sum_probs=59.7

Q ss_pred             HHhhhccEEEEEEeCCCCCCCC---cHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC--C
Q psy8220          20 SVVEAADVILEVVDARDPMGTR---CKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI--Y   93 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~---~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~--~   93 (161)
                      .....+|++|+|+|++++.+-.   ...+...+... .+.|+++|+||+|+.+..  ...  .........+....+  .
T Consensus       104 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~~~~--~~~--~~~~~~~~~~~~~~~~~~  179 (228)
T 2qu8_A          104 ALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKCNMD--SLS--IDNKLLIKQILDNVKNPI  179 (228)
T ss_dssp             HHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGCC----CCC--HHHHHHHHHHHHHCCSCE
T ss_pred             HhhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccCCch--hhH--HHHHHHHHHHHHhcCCCc
Confidence            4467889999999998875432   12344444441 278999999999997641  100  111111111111123  5


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +++.+||+++                 .|+++|.+.|.+.+.
T Consensus       180 ~~~~~SA~~g-----------------~gi~~l~~~l~~~i~  204 (228)
T 2qu8_A          180 KFSSFSTLTG-----------------VGVEQAKITACELLK  204 (228)
T ss_dssp             EEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             eEEEEecccC-----------------CCHHHHHHHHHHHHH
Confidence            6889999999                 899999999877654

>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=98.77  E-value=4.2e-09  Score=74.78  Aligned_cols=96  Identities=14%  Similarity=0.027  Sum_probs=62.1

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      ..++...+..+|++++|+|++++....+ ..+...+...  .+.|+++|+||+|+.+..  .... +....+...    .
T Consensus        78 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~  150 (179)
T 1z0f_A           78 RAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQR--DVTY-EEAKQFAEE----N  150 (179)
T ss_dssp             CHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--CSCH-HHHHHHHHH----T
T ss_pred             hhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc--ccCH-HHHHHHHHH----c
Confidence            3445677889999999999987643211 1222222211  478999999999996431  1111 122332222    3


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +.+++.+||+++                 .|++++.+.|.+.+
T Consensus       151 ~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i  176 (179)
T 1z0f_A          151 GLLFLEASAKTG-----------------ENVEDAFLEAAKKI  176 (179)
T ss_dssp             TCEEEECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCC-----------------CCHHHHHHHHHHHH
Confidence            567899999999                 99999999987654

>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=98.77  E-value=3.8e-09  Score=75.36  Aligned_cols=97  Identities=10%  Similarity=0.041  Sum_probs=62.3

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .++...+..+|++++|+|++++.... ...+...+...  .+.|+++|+||+|+.+..  .... +....+...    .+
T Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~--~~~~-~~~~~~~~~----~~  148 (181)
T 2efe_B           76 SLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDAR--KVTA-EDAQTYAQE----NG  148 (181)
T ss_dssp             GGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC--CSCH-HHHHHHHHH----TT
T ss_pred             hhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccc--cCCH-HHHHHHHHH----cC
Confidence            34456788999999999998764311 12222223221  368999999999997541  1011 222222222    35


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       149 ~~~~~~Sa~~g-----------------~gi~~l~~~l~~~~~~  175 (181)
T 2efe_B          149 LFFMETSAKTA-----------------TNVKEIFYEIARRLPR  175 (181)
T ss_dssp             CEEEECCSSSC-----------------TTHHHHHHHHHHTCC-
T ss_pred             CEEEEEECCCC-----------------CCHHHHHHHHHHHHHh
Confidence            67899999998                 9999999999876643

>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=98.76  E-value=2e-08  Score=78.46  Aligned_cols=59  Identities=14%  Similarity=0.113  Sum_probs=45.7

Q ss_pred             hHHHHHHHHHHHhhhccEEEEEEeC-CCCCCCCc-HHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          10 RGVVVQEIERSVVEAADVILEVVDA-RDPMGTRC-KVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        10 ~~~~~~~~~~~~i~~aDviL~VvD~-~~~~~~~~-~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      ..+.+...+...+..+|++++|+|+ ..+....+ ..+.+.+.. .++|+++|+||+|+.+.
T Consensus       153 ~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~-~~~~~i~v~NK~Dl~~~  213 (315)
T 1jwy_B          153 IEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDP-EGKRTIGVITKLDLMDK  213 (315)
T ss_dssp             SHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCS-SCSSEEEEEECTTSSCS
T ss_pred             HHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCC-CCCcEEEEEcCcccCCc
Confidence            3456777778999999999999997 44554444 367777765 68999999999999865

>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=98.76  E-value=3.5e-09  Score=75.96  Aligned_cols=96  Identities=14%  Similarity=0.094  Sum_probs=61.7

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ..++...+..+|.+++|+|+.++..... ..+...+..   ..+.|+++|+||+|+.+...   . .+....+...+   
T Consensus        66 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~---~-~~~~~~~~~~~---  138 (189)
T 4dsu_A           66 SAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTV---D-TKQAQDLARSY---  138 (189)
T ss_dssp             CTTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSCSS---C-HHHHHHHHHHH---
T ss_pred             HHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCccccc---C-HHHHHHHHHHc---
Confidence            3444566788999999999987532111 112221211   14789999999999975410   0 12223333322   


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                       +.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       139 -~~~~~~~Sa~~g-----------------~gi~~l~~~l~~~~~  165 (189)
T 4dsu_A          139 -GIPFIETSAKTR-----------------QGVDDAFYTLVREIR  165 (189)
T ss_dssp             -TCCEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             -CCeEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence             467899999999                 899999999877653

>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=98.76  E-value=5.3e-09  Score=75.81  Aligned_cols=99  Identities=9%  Similarity=-0.035  Sum_probs=64.5

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      .+..++...+..+|++++|+|++++..-. ...+...+...  .+.|+++|.||+|+.+..  .... +....+...+  
T Consensus        84 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~~--  158 (191)
T 3dz8_A           84 RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEER--VVPT-EKGQLLAEQL--  158 (191)
T ss_dssp             HCHHHHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--CSCH-HHHHHHHHHH--
T ss_pred             HHHHHHHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc--ccCH-HHHHHHHHHc--
Confidence            34555677889999999999998653211 12233333221  368999999999986431  1011 2222232322  


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                        +.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       159 --~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~  185 (191)
T 3dz8_A          159 --GFDFFEASAKEN-----------------ISVRQAFERLVDAIC  185 (191)
T ss_dssp             --TCEEEECBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             --CCeEEEEECCCC-----------------CCHHHHHHHHHHHHH
Confidence              567899999999                 999999999887664

>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=98.76  E-value=1e-08  Score=73.61  Aligned_cols=95  Identities=9%  Similarity=0.051  Sum_probs=60.5

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh-ccC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN-SIQ   90 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~   90 (161)
                      .++...+..+|++++|+|++++.+-.  ...+...+..  ..+.|+++|+||+|+....    .. +.+..+.... ...
T Consensus        80 ~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~i~~~~~~~~~~~  154 (181)
T 2h17_A           80 SSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECM----TV-AEISQFLKLTSIKD  154 (181)
T ss_dssp             CGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC----CH-HHHHHHTTGGGCCS
T ss_pred             HHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccCC----CH-HHHHHHhCcccccC
Confidence            34456788999999999998874321  1223333321  1478999999999997641    00 2222222211 111


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+
T Consensus       155 ~~~~~~~~Sa~~g-----------------~gi~~l~~~l~~  179 (181)
T 2h17_A          155 HQWHIQACCALTG-----------------EGLCQGLEWMMS  179 (181)
T ss_dssp             SCEEEEECBTTTT-----------------BTHHHHHHHHHT
T ss_pred             CceEEEEccCCCC-----------------cCHHHHHHHHHh
Confidence            2446889999998                 999999998865

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=98.76  E-value=4.6e-08  Score=82.32  Aligned_cols=51  Identities=20%  Similarity=0.197  Sum_probs=42.6

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +...+..+|.+|+|+|++.+...+...+...+.. .+.|+++|+||+|+...
T Consensus        99 ~~~~l~~aD~allVvDa~~g~~~~t~~~~~~~~~-~~iPiivviNK~Dl~~~  149 (528)
T 3tr5_A           99 TYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCRL-RHTPIMTFINKMDRDTR  149 (528)
T ss_dssp             HHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHHT-TTCCEEEEEECTTSCCS
T ss_pred             HHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH-cCCCEEEEEeCCCCccc
Confidence            3678899999999999999877666666666665 68999999999999654

>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=98.76  E-value=1.7e-08  Score=70.59  Aligned_cols=97  Identities=10%  Similarity=0.054  Sum_probs=61.9

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ..++...+..+|.+++|+|++++..... ..+...+...   .+.|+++|+||+|+.+..  .... +....+...    
T Consensus        66 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----  138 (168)
T 1u8z_A           66 AAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKR--QVSV-EEAKNRADQ----  138 (168)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGC--CSCH-HHHHHHHHH----
T ss_pred             HHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccC--ccCH-HHHHHHHHH----
Confidence            3455667889999999999987532111 1111122110   378999999999986531  1111 222333222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       139 ~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~  166 (168)
T 1u8z_A          139 WNVNYVETSAKTR-----------------ANVDKVFFDLMREIR  166 (168)
T ss_dssp             HTCEEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             cCCeEEEeCCCCC-----------------CCHHHHHHHHHHHHH
Confidence            2467899999998                 899999999877654

>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=98.76  E-value=3.9e-09  Score=74.33  Aligned_cols=94  Identities=14%  Similarity=-0.004  Sum_probs=61.7

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      +...+..+|++++|+|++++..... ..+...+...  .+.|+++|+||+|+.+..   ... +....+...+    +.+
T Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~---~~~-~~~~~~~~~~----~~~  140 (170)
T 1g16_A           69 TTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRV---VTA-DQGEALAKEL----GIP  140 (170)
T ss_dssp             CHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCC---SCH-HHHHHHHHHH----TCC
T ss_pred             HHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCCcCc---cCH-HHHHHHHHHc----CCe
Confidence            3566789999999999987643111 2222222211  368999999999995431   011 2223332222    467


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ++.+||+++                 .|+++|.+.|.+.+..
T Consensus       141 ~~~~Sa~~~-----------------~gv~~l~~~l~~~~~~  165 (170)
T 1g16_A          141 FIESSAKND-----------------DNVNEIFFTLAKLIQE  165 (170)
T ss_dssp             EEECBTTTT-----------------BSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCC-----------------CCHHHHHHHHHHHHHH
Confidence            899999998                 9999999999887754

>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=98.75  E-value=6.8e-09  Score=74.54  Aligned_cols=98  Identities=8%  Similarity=-0.051  Sum_probs=64.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++...+..+|++++|+|++++....+ ..+...+...   .+.|+++|+||+|+.+..  .... +....+...+  
T Consensus        83 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~~--  157 (195)
T 3bc1_A           83 FRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQR--AVKE-EEARELAEKY--  157 (195)
T ss_dssp             GHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGC--CSCH-HHHHHHHHHH--
T ss_pred             HHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc--ccCH-HHHHHHHHHc--
Confidence            44555778899999999999987643222 2222222210   368999999999996531  0011 2223333222  


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                        +.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       158 --~~~~~~~Sa~~~-----------------~~v~~l~~~l~~~~~  184 (195)
T 3bc1_A          158 --GIPYFETSAANG-----------------TNISHAIEMLLDLIM  184 (195)
T ss_dssp             --TCCEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             --CCCEEEEECCCC-----------------CCHHHHHHHHHHHHH
Confidence              467899999998                 899999999887654

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=98.74  E-value=1.1e-08  Score=73.82  Aligned_cols=95  Identities=13%  Similarity=0.054  Sum_probs=60.9

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      .++...+..+|++|+|+|++++.+..+ ..+...+....+.|+++|+||+|+....   ... +....+...    .+.+
T Consensus       108 ~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~piilv~NK~D~~~~~---~~~-~~~~~~~~~----~~~~  179 (208)
T 3clv_A          108 SIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSNYIIILVANKIDKNKFQ---VDI-LEVQKYAQD----NNLL  179 (208)
T ss_dssp             TTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCCEEEEEEECTTCC-CC---SCH-HHHHHHHHH----TTCE
T ss_pred             HHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCccccc---CCH-HHHHHHHHH----cCCc
Confidence            344667889999999999987643221 1222223221358999999999942221   111 222333222    3568


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ++.+||+++                 .|+++|.+.|.+.+.
T Consensus       180 ~~~~Sa~~~-----------------~~i~~l~~~l~~~~~  203 (208)
T 3clv_A          180 FIQTSAKTG-----------------TNIKNIFYMLAEEIY  203 (208)
T ss_dssp             EEEECTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             EEEEecCCC-----------------CCHHHHHHHHHHHHH
Confidence            899999999                 999999999887654

>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=98.74  E-value=2.6e-09  Score=74.86  Aligned_cols=95  Identities=9%  Similarity=-0.063  Sum_probs=60.8

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc--HH---HHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC--KV---AEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~--~~---i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .++...+..+|.+++|+|+.++.....  ..   +.+.... .+.|+++|+||+|+.+..  .... +....+...    
T Consensus        66 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----  137 (167)
T 1kao_A           66 SMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRY-EKVPVILVGNKVDLESER--EVSS-SEGRALAEE----  137 (167)
T ss_dssp             HHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTT-SCCCEEEEEECGGGGGGC--CSCH-HHHHHHHHH----
T ss_pred             HHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECCcccccc--cCCH-HHHHHHHHH----
Confidence            344567789999999999987532111  11   2222211 478999999999986531  1011 112222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       138 ~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~  165 (167)
T 1kao_A          138 WGCPFMETSAKSK-----------------TMVDELFAEIVRQMN  165 (167)
T ss_dssp             HTSCEEEECTTCH-----------------HHHHHHHHHHHHHHH
T ss_pred             hCCCEEEecCCCC-----------------cCHHHHHHHHHHHHh
Confidence            2567899999998                 899999999887654

>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=98.74  E-value=1.5e-08  Score=70.66  Aligned_cols=94  Identities=13%  Similarity=0.069  Sum_probs=60.9

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      ++...+..+|.+++|+|++++..... ..+...+...   .+.|+++|+||+|+.+...   . .+....+...    .+
T Consensus        67 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~~~---~-~~~~~~~~~~----~~  138 (166)
T 2ce2_X           67 MRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAARTV---E-SRQAQDLARS----YG  138 (166)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCCS---C-HHHHHHHHHH----HT
T ss_pred             HHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhhccc---C-HHHHHHHHHH----cC
Confidence            33456788999999999986532111 1222222211   3789999999999976310   1 1222333322    24


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       139 ~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~  164 (166)
T 2ce2_X          139 IPYIETSAKTR-----------------QGVEDAFYTLVREIR  164 (166)
T ss_dssp             CCEEEECTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             CeEEEecCCCC-----------------CCHHHHHHHHHHHHH
Confidence            67899999998                 899999999987654

>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=98.74  E-value=4.9e-08  Score=83.28  Aligned_cols=105  Identities=16%  Similarity=0.126  Sum_probs=71.0

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      +|.|.-  |..+. ...+..+|.+|+|+|++++...+.......... .+.|+++|+||+|+....     .......+.
T Consensus        80 TPGh~d--F~~ev-~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~-~~ipiIvviNKiDl~~a~-----~~~v~~el~  150 (600)
T 2ywe_A           80 TPGHVD--FSYEV-SRALAACEGALLLIDASQGIEAQTVANFWKAVE-QDLVIIPVINKIDLPSAD-----VDRVKKQIE  150 (600)
T ss_dssp             CCCSGG--GHHHH-HHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH-TTCEEEEEEECTTSTTCC-----HHHHHHHHH
T ss_pred             CCCcHh--HHHHH-HHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH-CCCCEEEEEeccCccccC-----HHHHHHHHH
Confidence            355543  34444 678899999999999998876544443333333 579999999999997641     112222232


Q ss_pred             hhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          85 PYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        85 ~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +.+. ....+++++||+++                 .|+++|++.|.+.++.
T Consensus       151 ~~lg-~~~~~vi~vSAktg-----------------~GI~~Lle~I~~~lp~  184 (600)
T 2ywe_A          151 EVLG-LDPEEAILASAKEG-----------------IGIEEILEAIVNRIPP  184 (600)
T ss_dssp             HTSC-CCGGGCEECBTTTT-----------------BSHHHHHHHHHHHSCC
T ss_pred             HhhC-CCcccEEEEEeecC-----------------CCchHHHHHHHHhccc
Confidence            3322 01124799999999                 9999999999988864

>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=98.74  E-value=8.4e-09  Score=72.52  Aligned_cols=98  Identities=10%  Similarity=-0.061  Sum_probs=55.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++...+..+|++++|+|.+++.+-.. ..+...+...   .+.|+++|.||+|+.+..  .... +....+...   
T Consensus        62 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~--~~~~-~~~~~~~~~---  135 (166)
T 3q72_A           62 GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSR--EVSV-DEGRACAVV---  135 (166)
T ss_dssp             -----------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSC--CSCH-HHHHHHHHH---
T ss_pred             chhhhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEecccccccc--ccCH-HHHHHHHHH---
Confidence            34444567789999999999987632111 1122222221   368999999999997641  1111 111222222   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                       .+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       136 -~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~  163 (166)
T 3q72_A          136 -FDCKFIETSAALH-----------------HNVQALFEGVVRQIR  163 (166)
T ss_dssp             -TTCEEEECBGGGT-----------------BSHHHHHHHHHHHHH
T ss_pred             -hCCcEEEeccCCC-----------------CCHHHHHHHHHHHHH
Confidence             3568899999999                 999999999987654

>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=98.74  E-value=5.6e-10  Score=86.45  Aligned_cols=89  Identities=18%  Similarity=0.150  Sum_probs=60.7

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEe
Q psy8220          20 SVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFS   99 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iS   99 (161)
                      .....+|++++|+|++..  .....+...+.+ .+.|+++|+||+|+.+..  ...  .....+.+.    .+.|++++|
T Consensus        81 ~~~~~~d~ii~VvD~~~~--~~~~~~~~~l~~-~~~p~ivv~NK~Dl~~~~--~~~--~~~~~l~~~----lg~~~i~~S  149 (274)
T 3i8s_A           81 ILSGDADLLINVVDASNL--ERNLYLTLQLLE-LGIPCIVALNMLDIAEKQ--NIR--IEIDALSAR----LGCPVIPLV  149 (274)
T ss_dssp             HHHTCCSEEEEEEEGGGH--HHHHHHHHHHHH-HTCCEEEEEECHHHHHHT--TEE--ECHHHHHHH----HTSCEEECC
T ss_pred             HhhcCCCEEEEEecCCCh--HHHHHHHHHHHh-cCCCEEEEEECccchhhh--hHH--HHHHHHHHh----cCCCEEEEE
Confidence            345799999999999863  223334444544 579999999999986431  000  011222222    257899999


Q ss_pred             ecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220         100 SRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus       100 a~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      |+++                 .|+++|.+.|.+.++.
T Consensus       150 A~~g-----------------~gi~el~~~i~~~~~~  169 (274)
T 3i8s_A          150 STRG-----------------RGIEALKLAIDRYKAN  169 (274)
T ss_dssp             CGGG-----------------HHHHHHHHHHHTCCCC
T ss_pred             cCCC-----------------CCHHHHHHHHHHHHhc
Confidence            9998                 8999999999877654

>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=98.73  E-value=1.2e-08  Score=83.04  Aligned_cols=126  Identities=12%  Similarity=-0.011  Sum_probs=69.1

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      |.|..  |.... ...+..+|++|+|+|++++...+..+....+.. .+.| +++|+||+|+.+.........+.+..+.
T Consensus        83 pG~~~--f~~~~-~~~~~~aD~~ilVvda~~g~~~qt~~~l~~~~~-~~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l  158 (405)
T 2c78_A           83 PGHAD--YIKNM-ITGAAQMDGAILVVSAADGPMPQTREHILLARQ-VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLL  158 (405)
T ss_dssp             CCSGG--GHHHH-HHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHH-TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHH
T ss_pred             CChHH--HHHHH-HHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHH-cCCCEEEEEEECccccCcHHHHHHHHHHHHHHH
Confidence            55442  44455 677889999999999998876555555555544 5778 8899999999853100000001122222


Q ss_pred             hhhcc-CCCCceeEEeecCCCCcchhhhhhh-hccccccCHHHHHHHHHhHhh
Q psy8220          85 PYNSI-QSIYSSPRFSSRSQKDAQTERDLKA-INVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        85 ~~~~~-~~~~~~i~iSa~~~~~~~~~~~~~~-~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ..+.. ....|++++||+++.+.....+... ....-..|+.+|++.|.++++
T Consensus       159 ~~~~~~~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~lp  211 (405)
T 2c78_A          159 NQYEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIP  211 (405)
T ss_dssp             HHTTSCTTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHSC
T ss_pred             HHhcccccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHHhhcC
Confidence            22210 0135789999998711000000000 000000128899999988775

>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=98.73  E-value=3.3e-09  Score=74.70  Aligned_cols=96  Identities=9%  Similarity=-0.009  Sum_probs=62.1

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .++...+..+|++++|+|++++..... ..+...+...  ...|+++|.||+|+.+..  ... .+....+...    .+
T Consensus        70 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~--~v~-~~~~~~~~~~----~~  142 (170)
T 1z0j_A           70 ALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVR--EVM-ERDAKDYADS----IH  142 (170)
T ss_dssp             GGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGC--CSC-HHHHHHHHHH----TT
T ss_pred             cccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCcccccc--ccC-HHHHHHHHHH----cC
Confidence            344567789999999999987643211 2232333221  468899999999997531  000 1222222222    35


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       143 ~~~~~~Sa~~~-----------------~~i~~l~~~i~~~i~  168 (170)
T 1z0j_A          143 AIFVETSAKNA-----------------ININELFIEISRRIP  168 (170)
T ss_dssp             CEEEECBTTTT-----------------BSHHHHHHHHHHHCC
T ss_pred             CEEEEEeCCCC-----------------cCHHHHHHHHHHHHh
Confidence            67899999998                 999999999877653

>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=98.73  E-value=1.2e-09  Score=83.85  Aligned_cols=83  Identities=18%  Similarity=0.109  Sum_probs=58.9

Q ss_pred             hhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecC
Q psy8220          23 EAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRS  102 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~  102 (161)
                      ..+|++++|+|++.+  .....+...+.+ .+.|+++|+||+|+.+..  ...  .....+...    .+.|++++||++
T Consensus        82 ~~~d~vi~VvDas~~--~~~~~l~~~l~~-~~~pvilv~NK~Dl~~~~--~~~--~~~~~l~~~----lg~~vi~~SA~~  150 (256)
T 3iby_A           82 LEYDCIINVIDACHL--ERHLYLTSQLFE-LGKPVVVALNMMDIAEHR--GIS--IDTEKLESL----LGCSVIPIQAHK  150 (256)
T ss_dssp             SCCSEEEEEEEGGGH--HHHHHHHHHHTT-SCSCEEEEEECHHHHHHT--TCE--ECHHHHHHH----HCSCEEECBGGG
T ss_pred             CCCCEEEEEeeCCCc--hhHHHHHHHHHH-cCCCEEEEEEChhcCCcC--CcH--HHHHHHHHH----cCCCEEEEECCC
Confidence            889999999999873  233445555655 689999999999986531  000  001222222    257899999999


Q ss_pred             CCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220         103 QKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +                 .|+++|.+.|.+.
T Consensus       151 g-----------------~gi~el~~~i~~~  164 (256)
T 3iby_A          151 N-----------------IGIPALQQSLLHC  164 (256)
T ss_dssp             T-----------------BSHHHHHHHHHTC
T ss_pred             C-----------------CCHHHHHHHHHhh
Confidence            9                 8999999998776

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=98.71  E-value=1.1e-08  Score=86.20  Aligned_cols=121  Identities=11%  Similarity=0.033  Sum_probs=81.0

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC-CCCceeE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ-SIYSSPR   97 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~   97 (161)
                      ...+..+|++|+|+|++++...+..+...++.. .+.|+++|+||+|+.+.....  ....+..+....... ...++++
T Consensus        70 ~~~~~~aD~vILVVDa~dg~~~qt~e~l~~~~~-~~vPiIVViNKiDl~~~~~~~--v~~~l~~~~~~~e~~~~~~~iv~  146 (537)
T 3izy_P           70 ARGTQVTDIVILVVAADDGVMKQTVESIQHAKD-AHVPIVLAINKCDKAEADPEK--VKKELLAYDVVCEDYGGDVQAVH  146 (537)
T ss_dssp             BSSSBSBSSCEEECBSSSCCCHHHHHHHHHHHT-TTCCEEECCBSGGGTTTSCCS--SSSHHHHTTSCCCCSSSSEEECC
T ss_pred             HHHHccCCEEEEEEECCCCccHHHHHHHHHHHH-cCCcEEEEEecccccccchHH--HHHHHHhhhhhHHhcCCCceEEE
Confidence            356778999999999998876666666666665 689999999999987531100  001112111111100 1246889


Q ss_pred             EeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC------------------C--CCceEEEEEeecCCCccc
Q psy8220          98 FSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD------------------I--KTSITVGVVGECNIAGSI  157 (161)
Q Consensus        98 iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~------------------~--~~~~~v~vvG~pNVGKSs  157 (161)
                      +||+++                 .|+++|++.|...++...                  +  ..++..+.|+.+++++++
T Consensus       147 vSAktG-----------------~GI~eLle~I~~l~~~~~~~~~~~~~~~~~V~e~~~~~g~G~V~~g~V~~G~l~~Gd  209 (537)
T 3izy_P          147 VSALTG-----------------ENMMALAEATIALAEMLELKADPTGAVEGTVIESFTDKGRGPVTTAIIQRGTLRKGS  209 (537)
T ss_dssp             CCSSSS-----------------CSSHHHHHHHHHHHTTCCCCCCSSSSEEEEEEEECCCTTCCCCEEEEEEEECCSSEE
T ss_pred             EECCCC-----------------CCchhHHHHHHHhhhcccccCCCCCCcceeEEEEEEeCCCceEEEEEEecCEEEcCC
Confidence            999999                 999999999987753210                  0  124677889999999987


Q ss_pred             cc
Q psy8220         158 RD  159 (161)
Q Consensus       158 l~  159 (161)
                      .+
T Consensus       210 ~v  211 (537)
T 3izy_P          210 IL  211 (537)
T ss_dssp             EE
T ss_pred             EE
Confidence            65

>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=98.71  E-value=8.5e-09  Score=75.50  Aligned_cols=97  Identities=14%  Similarity=0.109  Sum_probs=60.8

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc--
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS--   88 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~--   88 (161)
                      +.+|...+..+|++++|+|++++.+-.  ...+.+.+...  .+.|+++|.||+|+....    .. +.+..+.....  
T Consensus        83 ~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~~~~~~~~~~~~  157 (198)
T 1f6b_A           83 RRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAI----SE-ERLREMFGLYGQT  157 (198)
T ss_dssp             CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCC----CH-HHHHHHHTCTTTC
T ss_pred             HHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccccC----CH-HHHHHHhCccccc
Confidence            344456788999999999998763211  12233333210  478999999999997531    01 22333332110  


Q ss_pred             ---------c--CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          89 ---------I--QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        89 ---------~--~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                               .  ....+++.+||+++                 .|++++.+.|.+.
T Consensus       158 ~~~~~~~~~~~~~~~~~~~~~SA~~g-----------------~gv~~l~~~l~~~  196 (198)
T 1f6b_A          158 TGKGSVSLKELNARPLEVFMCSVLKR-----------------QGYGEGFRWMAQY  196 (198)
T ss_dssp             CCSSCCCTTTCCSCCEEEEECBTTTT-----------------BSHHHHHHHHHTT
T ss_pred             ccccccccccccCceEEEEEEECCCC-----------------CCHHHHHHHHHHh
Confidence                     0  02345788999999                 9999999988654

>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=98.71  E-value=7e-09  Score=72.88  Aligned_cols=97  Identities=11%  Similarity=0.069  Sum_probs=61.4

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      ..++...+..+|++++|+|++++.+-.. ..+...+.. . .+.|+++|.||+|+.+..  .... +....+...    .
T Consensus        69 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~  141 (170)
T 1r2q_A           69 HSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKR--AVDF-QEAQSYADD----N  141 (170)
T ss_dssp             GGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--CSCH-HHHHHHHHH----T
T ss_pred             hhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCcccc--ccCH-HHHHHHHHH----c
Confidence            3344667889999999999987632111 112222221 1 368899999999986531  1111 112222222    3


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+++.+||+++                 .|+++|.+.|.+.++
T Consensus       142 ~~~~~~~Sa~~g-----------------~gi~~l~~~i~~~~~  168 (170)
T 1r2q_A          142 SLLFMETSAKTS-----------------MNVNEIFMAIAKKLP  168 (170)
T ss_dssp             TCEEEECCTTTC-----------------TTHHHHHHHHHHTSC
T ss_pred             CCeEEEEeCCCC-----------------CCHHHHHHHHHHHHh
Confidence            567889999999                 999999999877654

>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=98.70  E-value=2.3e-08  Score=76.37  Aligned_cols=86  Identities=15%  Similarity=0.082  Sum_probs=54.5

Q ss_pred             hccEEEEEEeCCCC--CCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeE
Q psy8220          24 AADVILEVVDARDP--MGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPR   97 (161)
Q Consensus        24 ~aDviL~VvD~~~~--~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   97 (161)
                      .||++|+|+|++++  .+-.. ..+...+...   .+.|+++|.||+|+.+.        ..+...........+.+++.
T Consensus       162 ~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~--------~~v~~~~~~~~~~~~~~~~e  233 (255)
T 3c5h_A          162 LVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVE--------RYIRDAHTFALSKKNLQVVE  233 (255)
T ss_dssp             ECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCH--------HHHHHHHHHHHTSSSCCEEE
T ss_pred             cCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEccccccc--------HHHHHHHHHHHhcCCCeEEE
Confidence            69999999999876  32111 1122222110   46899999999999754        21222222222112567899


Q ss_pred             EeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          98 FSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        98 iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +||+++                 .|+++|.+.|.+.+
T Consensus       234 ~SAk~g-----------------~gv~elf~~l~~~l  253 (255)
T 3c5h_A          234 TSARSN-----------------VNVDLAFSTLVQLI  253 (255)
T ss_dssp             CBTTTT-----------------BSHHHHHHHHHHHH
T ss_pred             EECCCC-----------------CCHHHHHHHHHHHh
Confidence            999999                 99999999987655

>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=98.70  E-value=1.9e-08  Score=80.46  Aligned_cols=93  Identities=18%  Similarity=0.215  Sum_probs=63.1

Q ss_pred             HHHhhhccEEEEEEeCCCCCCC----CcHHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          19 RSVVEAADVILEVVDARDPMGT----RCKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~----~~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .+.++.+|++|+|+|+++....    ....+...+...    .++|+++|+||+|+.+..       +..+.+.+.+.  
T Consensus       231 l~~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~-------e~~~~l~~~l~--  301 (342)
T 1lnz_A          231 LRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA-------ENLEAFKEKLT--  301 (342)
T ss_dssp             HHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH-------HHHHHHHHHCC--
T ss_pred             HHHHHhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH-------HHHHHHHHHhh--
Confidence            4567789999999999763211    112233333321    369999999999997651       22344444443  


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      ...+++++||+++                 .|+++|++.|.+.+...
T Consensus       302 ~~~~v~~iSA~tg-----------------~gi~eL~~~l~~~l~~~  331 (342)
T 1lnz_A          302 DDYPVFPISAVTR-----------------EGLRELLFEVANQLENT  331 (342)
T ss_dssp             SCCCBCCCSSCCS-----------------STTHHHHHHHHHHHTSC
T ss_pred             cCCCEEEEECCCC-----------------cCHHHHHHHHHHHHhhC
Confidence            2257889999998                 99999999999887643

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=98.70  E-value=2.6e-08  Score=78.97  Aligned_cols=99  Identities=15%  Similarity=0.082  Sum_probs=63.5

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh-hhccC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP-YNSIQ   90 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~   90 (161)
                      .++...+..+|++|+|+|++++.+-  ....+...+...  .+.|+++|+||+|+.+..    .. +.+..... .....
T Consensus       224 ~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~----~~-~~i~~~~~~~~~~~  298 (329)
T 3o47_A          224 PLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM----NA-AEITDKLGLHSLRH  298 (329)
T ss_dssp             CSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC----CH-HHHHHHHTCTTCCS
T ss_pred             HHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCccc----CH-HHHHHHhchhhhhc
Confidence            3445678899999999999876432  122333433321  378999999999997651    11 11121111 11111


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+++.+||+++                 .|+++|++.|.+.+..
T Consensus       299 ~~~~~~~vSAk~g-----------------~gi~el~~~l~~~l~~  327 (329)
T 3o47_A          299 RNWYIQATCATSG-----------------DGLYEGLDWLSNQLRN  327 (329)
T ss_dssp             SCEEEEECBTTTT-----------------BTHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCC-----------------cCHHHHHHHHHHHHHh
Confidence            2446889999999                 9999999999887653

>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=98.70  E-value=1.9e-08  Score=70.62  Aligned_cols=99  Identities=11%  Similarity=-0.039  Sum_probs=61.5

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .++...+..+|++++|+|++++.+..+ ..+...+...  .+.|+++|+||+|+.+......-..+....+...    .+
T Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~----~~  142 (170)
T 1ek0_A           67 SLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEE----KG  142 (170)
T ss_dssp             GGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHH----HT
T ss_pred             hhhhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHH----cC
Confidence            344667889999999999987633211 1122222211  3689999999999865310000001112222222    25


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       143 ~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~  168 (170)
T 1ek0_A          143 LLFFETSAKTG-----------------ENVNDVFLGIGEKIP  168 (170)
T ss_dssp             CEEEECCTTTC-----------------TTHHHHHHHHHTTSC
T ss_pred             CEEEEEeCCCC-----------------CCHHHHHHHHHHHHh
Confidence            67899999998                 899999999877553

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=98.69  E-value=5.7e-09  Score=73.49  Aligned_cols=97  Identities=10%  Similarity=0.049  Sum_probs=61.6

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCC-CcHHHHHHHhC---C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGT-RCKVAEDLVVG---T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~-~~~~i~~~l~~---~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .++...+..+|++++|+|++++... ....+...+..   . .+.|+++|+||+|+.+..  .... .....+...    
T Consensus        66 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~--~v~~-~~~~~~~~~----  138 (172)
T 2erx_A           66 AMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSR--EVQS-SEAEALART----  138 (172)
T ss_dssp             HHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGC--CSCH-HHHHHHHHH----
T ss_pred             HHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEcccccccc--ccCH-HHHHHHHHH----
Confidence            3445677889999999999875321 11222222221   0 368999999999986531  1010 111222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       139 ~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~~  167 (172)
T 2erx_A          139 WKCAFMETSAKLN-----------------HNVKELFQELLNLEKR  167 (172)
T ss_dssp             HTCEEEECBTTTT-----------------BSHHHHHHHHHHTCCS
T ss_pred             hCCeEEEecCCCC-----------------cCHHHHHHHHHHHHhh
Confidence            2467899999999                 9999999999887654

>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=98.69  E-value=9.8e-09  Score=73.34  Aligned_cols=95  Identities=11%  Similarity=0.031  Sum_probs=61.3

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-H----HHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-K----VAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~----~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .++...+..+|.+++|+|++++..... .    .+...... .+.|+++|+||+|+.+..  .... +....+...    
T Consensus        81 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----  152 (187)
T 2a9k_A           81 AIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED-ENVPFLLVGNKSDLEDKR--QVSV-EEAKNRAEQ----  152 (187)
T ss_dssp             HHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCC-TTCCEEEEEECGGGGGGC--CSCH-HHHHHHHHH----
T ss_pred             HHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECccccccC--ccCH-HHHHHHHHH----
Confidence            444567889999999999987532111 1    11222211 378999999999986531  1111 122222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       153 ~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~  180 (187)
T 2a9k_A          153 WNVNYVETSAKTR-----------------ANVDKVFFDLMREIR  180 (187)
T ss_dssp             TTCEEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             cCCeEEEeCCCCC-----------------CCHHHHHHHHHHHHH
Confidence            3567899999998                 899999999887654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=98.69  E-value=7.8e-09  Score=73.50  Aligned_cols=93  Identities=12%  Similarity=-0.009  Sum_probs=60.2

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      ...+..+|++++|+|++++..... ..+...+... .+.|+++|+||+|+.+..  .... +....+...    .+.+++
T Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~~~~~~  148 (181)
T 3tw8_B           76 STYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDDPERK--VVET-EDAYKFAGQ----MGIQLF  148 (181)
T ss_dssp             GGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHCTTSEEEEEEECTTCGGGC--CSCH-HHHHHHHHH----HTCCEE
T ss_pred             HHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCCCchhc--ccCH-HHHHHHHHH----cCCeEE
Confidence            456789999999999987532211 1122222221 368999999999986541  1011 112222222    256789


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+||+++                 .|+++|.+.|.+.+.
T Consensus       149 ~~Sa~~~-----------------~gi~~l~~~l~~~~~  170 (181)
T 3tw8_B          149 ETSAKEN-----------------VNVEEMFNCITELVL  170 (181)
T ss_dssp             ECBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             EEECCCC-----------------CCHHHHHHHHHHHHH
Confidence            9999999                 999999999987664

>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=98.68  E-value=2.7e-08  Score=72.07  Aligned_cols=101  Identities=12%  Similarity=-0.061  Sum_probs=64.9

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      ..++...+..+|++++|+|++++.+-.+  ..+...+... .+.|+++|.||+|+.+...+.... +....+...+    
T Consensus        85 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~-~~~~~~~~~~----  159 (194)
T 3reg_A           85 DRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDLRKDGSDDVTK-QEGDDLCQKL----  159 (194)
T ss_dssp             TTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSEEEEEEECGGGCCTTTTCCCH-HHHHHHHHHH----
T ss_pred             HHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccCCCCcccH-HHHHHHHHhc----
Confidence            3444567889999999999987643222  2233333321 368999999999997531111111 2233333333    


Q ss_pred             CCc-eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          92 IYS-SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        92 ~~~-~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      +.+ ++.+||+++                 .|+++|.+.|.+.+...
T Consensus       160 ~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~~~  189 (194)
T 3reg_A          160 GCVAYIEASSVAK-----------------IGLNEVFEKSVDCIFSN  189 (194)
T ss_dssp             TCSCEEECBTTTT-----------------BSHHHHHHHHHHHHHCS
T ss_pred             CCCEEEEeecCCC-----------------CCHHHHHHHHHHHHHhc
Confidence            344 889999999                 99999999998876543

>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=98.68  E-value=9e-09  Score=75.07  Aligned_cols=97  Identities=9%  Similarity=-0.016  Sum_probs=62.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+..+|++|+|+|++++..... ..+...+...  .+.|+++|+||+|+.+..  .... +....+...+   
T Consensus        70 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~~---  143 (203)
T 1zbd_A           70 YRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDER--VVSS-ERGRQLADHL---  143 (203)
T ss_dssp             GHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSC--CSCH-HHHHHHHHHH---
T ss_pred             hcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCccc--ccCH-HHHHHHHHHC---
Confidence            34455778899999999999987532111 1222222211  368999999999997641  1111 2223333332   


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       +.+++.+||+++                 .|+++|.+.|.+.+
T Consensus       144 -~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i  169 (203)
T 1zbd_A          144 -GFEFFEASAKDN-----------------INVKQTFERLVDVI  169 (203)
T ss_dssp             -TCEEEECBTTTT-----------------BSSHHHHHHHHHHH
T ss_pred             -CCeEEEEECCCC-----------------CCHHHHHHHHHHHH
Confidence             467899999998                 89999888887655

>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=98.68  E-value=6.5e-09  Score=75.12  Aligned_cols=94  Identities=9%  Similarity=-0.039  Sum_probs=61.8

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      +...+..+|++++|+|++++..... ..+...+...  .+.|+++|+||+|+.+..  .... +....+...+    +.+
T Consensus        88 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~~----~~~  160 (189)
T 2gf9_A           88 TTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDER--VVPA-EDGRRLADDL----GFE  160 (189)
T ss_dssp             GGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--CSCH-HHHHHHHHHH----TCE
T ss_pred             HHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccccc--CCCH-HHHHHHHHHc----CCe
Confidence            3567789999999999987532211 2222333221  368999999999997531  1111 2223333332    467


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ++.+||+++                 .|+++|.+.|.+.+.
T Consensus       161 ~~~~Sa~~g-----------------~gi~~l~~~l~~~i~  184 (189)
T 2gf9_A          161 FFEASAKEN-----------------INVKQVFERLVDVIC  184 (189)
T ss_dssp             EEECBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             EEEEECCCC-----------------CCHHHHHHHHHHHHH
Confidence            899999998                 999999999987664

>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=98.68  E-value=1.3e-08  Score=72.24  Aligned_cols=94  Identities=15%  Similarity=0.031  Sum_probs=60.3

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCC--cHHHHHH---HhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTR--CKVAEDL---VVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~---l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      +...+..+|++++|+|++++.+-.  ...+...   ... .+.|+++|+||+|+.+..  .... +....+...    .+
T Consensus        74 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~--~v~~-~~~~~~~~~----~~  145 (181)
T 2fn4_A           74 REQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDR-DDFPVVLVGNKADLESQR--QVPR-SEASAFGAS----HH  145 (181)
T ss_dssp             HHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTS-SCCCEEEEEECGGGGGGC--CSCH-HHHHHHHHH----TT
T ss_pred             HHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECccccccc--ccCH-HHHHHHHHH----cC
Confidence            345678899999999998753211  1111122   122 478999999999997531  1011 112222222    35


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       146 ~~~~~~Sa~~~-----------------~gv~~l~~~l~~~~~~  172 (181)
T 2fn4_A          146 VAYFEASAKLR-----------------LNVDEAFEQLVRAVRK  172 (181)
T ss_dssp             CEEEECBTTTT-----------------BSHHHHHHHHHHHHHH
T ss_pred             CeEEEecCCCC-----------------CCHHHHHHHHHHHHHH
Confidence            67899999998                 9999999999877643

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=98.68  E-value=1e-08  Score=84.09  Aligned_cols=89  Identities=16%  Similarity=0.038  Sum_probs=65.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      ...+..+|++|+|+|+  ........+...+.+ .+.|+++|+||+|+.+..  .    .   ...+.+.+..+.+++.+
T Consensus       108 ~~~l~~aD~vllVvD~--~~~~~~~~~l~~l~~-~~~piIvV~NK~Dl~~~~--~----~---~~~~~l~~~~g~~v~~v  175 (423)
T 3qq5_A          108 RRVFYRADCGILVTDS--APTPYEDDVVNLFKE-MEIPFVVVVNKIDVLGEK--A----E---ELKGLYESRYEAKVLLV  175 (423)
T ss_dssp             HHHHTSCSEEEEECSS--SCCHHHHHHHHHHHH-TTCCEEEECCCCTTTTCC--C----T---HHHHHSSCCTTCCCCCC
T ss_pred             HHHHhcCCEEEEEEeC--CChHHHHHHHHHHHh-cCCCEEEEEeCcCCCCcc--H----H---HHHHHHHHHcCCCEEEE
Confidence            5678899999999998  334455566666665 589999999999998652  0    0   11122332235688999


Q ss_pred             eecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          99 SSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        99 Sa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ||+++                 .|+++|.+.|.+.++.
T Consensus       176 SAktg-----------------~gI~eL~~~L~~~l~~  196 (423)
T 3qq5_A          176 SALQK-----------------KGFDDIGKTISEILPG  196 (423)
T ss_dssp             SSCCT-----------------TSTTTHHHHHHHHSCC
T ss_pred             ECCCC-----------------CCHHHHHHHHHHhhhh
Confidence            99998                 8999999999988843

>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=98.67  E-value=2.4e-08  Score=72.59  Aligned_cols=96  Identities=19%  Similarity=0.078  Sum_probs=59.8

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh----
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN----   87 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~----   87 (161)
                      .++...+..+|++++|+|++++.+-.  ...+...+...  .+.|+++|.||+|+.+..    .. +.+..+....    
T Consensus        82 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~----~~-~~~~~~~~~~~~~~  156 (190)
T 1m2o_B           82 RLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV----SE-AELRSALGLLNTTG  156 (190)
T ss_dssp             TSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC----CH-HHHHHHTTCSSCCC
T ss_pred             HHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcCCC----CH-HHHHHHhCCccccc
Confidence            34456678999999999998764211  12222332210  468999999999997531    11 2223322211    


Q ss_pred             ----ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          88 ----SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        88 ----~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                          ......+++.+||+++                 .|++++.+.|.+.
T Consensus       157 ~~~~~~~~~~~~~~~Sa~~g-----------------~gi~~l~~~l~~~  189 (190)
T 1m2o_B          157 SQRIEGQRPVEVFMCSVVMR-----------------NGYLEAFQWLSQY  189 (190)
T ss_dssp             ---CCSSCCEEEEECBTTTT-----------------BSHHHHHHHHHTT
T ss_pred             cccccccceEEEEEeECCcC-----------------CCHHHHHHHHHhh
Confidence                0012346788999998                 9999999988653

>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=98.66  E-value=5e-09  Score=75.04  Aligned_cols=98  Identities=12%  Similarity=-0.005  Sum_probs=56.5

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+..+|++++|+|++++.+-.. ..+...+...  .+.|+++|.||+|+.+..  .... +....+...    
T Consensus        70 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~--~v~~-~~~~~~~~~----  142 (183)
T 2fu5_C           70 FRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKR--QVSK-ERGEKLALD----  142 (183)
T ss_dssp             ----CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCC--CSCH-HHHHHHHHH----
T ss_pred             hhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccC--cCCH-HHHHHHHHH----
Confidence            34455667889999999999987532111 1122222211  368999999999997531  1011 222333332    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       143 ~~~~~~~~Sa~~~-----------------~~i~~l~~~l~~~i~  170 (183)
T 2fu5_C          143 YGIKFMETSAKAN-----------------INVENAFFTLARDIK  170 (183)
T ss_dssp             HTCEEEECCC--------------------CCHHHHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            2467899999998                 899999999877654

>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=98.66  E-value=2.4e-08  Score=72.21  Aligned_cols=95  Identities=12%  Similarity=-0.054  Sum_probs=61.7

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ++...+..+|++|+|+|++++..... ..+...+...  .+.|+++|+||+|+.+..  .... +....+...    .+.
T Consensus        90 ~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~~~  162 (193)
T 2oil_A           90 ITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAR--EVPT-EEARMFAEN----NGL  162 (193)
T ss_dssp             THHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGC--CSCH-HHHHHHHHH----TTC
T ss_pred             hhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCccccc--ccCH-HHHHHHHHH----cCC
Confidence            34567789999999999987643111 2233333321  368999999999997531  1011 112222222    356


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +++.+||+++                 .|+++|.+.|.+.+.
T Consensus       163 ~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~  187 (193)
T 2oil_A          163 LFLETSALDS-----------------TNVELAFETVLKEIF  187 (193)
T ss_dssp             EEEEECTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            7899999998                 899999999876653

>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=98.66  E-value=1.3e-08  Score=73.64  Aligned_cols=96  Identities=11%  Similarity=0.073  Sum_probs=62.2

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHH---hCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTR-CKVAEDLV---VGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l---~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .++...+..+|++++|+|++++.+.. ...+...+   ... .+.|+++|+||+|+.+...   .. +....+...    
T Consensus        71 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~~~---~~-~~~~~~~~~----  142 (199)
T 2gf0_A           71 AMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQREV---DT-REAQAVAQE----  142 (199)
T ss_dssp             HHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSSCSS---CH-HHHHHHHHH----
T ss_pred             HHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCcccc---CH-HHHHHHHHH----
Confidence            44456778999999999998753211 11222222   110 2689999999999976411   11 112222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       143 ~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~~  171 (199)
T 2gf0_A          143 WKCAFMETSAKMN-----------------YNVKELFQELLTLETR  171 (199)
T ss_dssp             HTCEEEECBTTTT-----------------BSHHHHHHHHHHHCSS
T ss_pred             hCCeEEEEecCCC-----------------CCHHHHHHHHHHHHhh
Confidence            2467899999999                 9999999999887654

>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=98.65  E-value=5.3e-08  Score=69.16  Aligned_cols=100  Identities=15%  Similarity=0.026  Sum_probs=60.0

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC------CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG------TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~------~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~   86 (161)
                      +..++...+..+|++++|+|++++..... ..+...+..      ..+.|+++|+||+|+.+.. +.... +....+...
T Consensus        71 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~-~~v~~-~~~~~~~~~  148 (182)
T 1ky3_A           71 FQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESK-KIVSE-KSAQELAKS  148 (182)
T ss_dssp             ------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGG-CCSCH-HHHHHHHHH
T ss_pred             hhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCcccccc-ccCCH-HHHHHHHHh
Confidence            44555677899999999999987643111 112211211      0368999999999996431 00011 222333332


Q ss_pred             hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          87 NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .   ...+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       149 ~---~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~  177 (182)
T 1ky3_A          149 L---GDIPLFLTSAKNA-----------------INVDTAFEEIARSAL  177 (182)
T ss_dssp             T---TSCCEEEEBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             c---CCCeEEEEecCCC-----------------CCHHHHHHHHHHHHH
Confidence            2   3567899999999                 999999999887653

>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=98.65  E-value=1.2e-08  Score=74.13  Aligned_cols=97  Identities=9%  Similarity=-0.033  Sum_probs=62.2

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .++...+..+|++++|+|++++..... ..+...+...  .+.|+++|+||+|+.+..  .... +....+...    .+
T Consensus        87 ~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~--~v~~-~~~~~~~~~----~~  159 (192)
T 2fg5_A           87 SLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIR--EVPL-KDAKEYAES----IG  159 (192)
T ss_dssp             GGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--CSCH-HHHHHHHHT----TT
T ss_pred             hhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccccc--ccCH-HHHHHHHHH----cC
Confidence            334567789999999999987642111 1222222221  368999999999996431  1111 222222222    35


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       160 ~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~~  186 (192)
T 2fg5_A          160 AIVVETSAKNA-----------------INIEELFQGISRQIPP  186 (192)
T ss_dssp             CEEEECBTTTT-----------------BSHHHHHHHHHHTCC-
T ss_pred             CEEEEEeCCCC-----------------cCHHHHHHHHHHHHHh
Confidence            67899999998                 9999999999877643

>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=98.65  E-value=1.8e-08  Score=73.87  Aligned_cols=99  Identities=12%  Similarity=-0.027  Sum_probs=64.1

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+..+|++++|+|++++..-.. ..+...+...  .+.|+++|.||+|+.+..  .... +....+...    
T Consensus        91 ~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~--~v~~-~~~~~~~~~----  163 (201)
T 2hup_A           91 FRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELR--EVSL-AEAQSLAEH----  163 (201)
T ss_dssp             GHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--CSCH-HHHHHHHHH----
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCcccccc--ccCH-HHHHHHHHH----
Confidence            34455678899999999999987532111 1222223211  468999999999997531  1111 222333332    


Q ss_pred             CCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+. +++.+||+++                 .|+++|.+.|.+.+..
T Consensus       164 ~~~~~~~~~SA~~g-----------------~gi~~l~~~l~~~i~~  193 (201)
T 2hup_A          164 YDILCAIETSAKDS-----------------SNVEEAFLRVATELIM  193 (201)
T ss_dssp             TTCSEEEECBTTTT-----------------BSHHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEeCCCC-----------------CCHHHHHHHHHHHHHH
Confidence            245 7899999998                 9999999999877643

>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=98.65  E-value=1.8e-08  Score=72.58  Aligned_cols=98  Identities=12%  Similarity=0.098  Sum_probs=59.4

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++...+..+|++++|+|+.++....+ ..+...+..   ..+.|+++|+||+|+.+...   . .+....+...+  
T Consensus        82 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~~---~-~~~~~~~~~~~--  155 (190)
T 3con_A           82 YSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPTRTV---D-TKQAHELAKSY--  155 (190)
T ss_dssp             --------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCCS---C-HHHHHHHHHHH--
T ss_pred             HHHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCcccC---C-HHHHHHHHHHc--
Confidence            34455677899999999999987643111 112222211   03689999999999976310   1 12223333332  


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                        +.+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       156 --~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~~  183 (190)
T 3con_A          156 --GIPFIETSAKTR-----------------QGVEDAFYTLVREIRQ  183 (190)
T ss_dssp             --TCCEEECCTTTC-----------------TTHHHHHHHHHHHHHH
T ss_pred             --CCeEEEEeCCCC-----------------CCHHHHHHHHHHHHHH
Confidence              467899999998                 8999999999877643

>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=98.65  E-value=9.4e-08  Score=67.99  Aligned_cols=93  Identities=10%  Similarity=-0.005  Sum_probs=57.6

Q ss_pred             HhhhccEEEEEEeCCCCCCCCc-HHHHHHH---hCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          21 VVEAADVILEVVDARDPMGTRC-KVAEDLV---VGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~-~~i~~~l---~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      .+..+|++++|+|++++.+-.+ ..+.+.+   ...  .+.|+++|.||+|+.+...+.... +....+...+.   +.+
T Consensus        69 ~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~-~~~~~~~~~~~---~~~  144 (178)
T 2iwr_A           69 FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGD-ARARALXADMK---RCS  144 (178)
T ss_dssp             HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCH-HHHHHHHHHHS---SEE
T ss_pred             HHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCH-HHHHHHHHhhc---CCe
Confidence            4567999999999987643211 1111122   211  368999999999994211011111 22233333322   467


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.+||+++                 .|++++.+.|.+.+
T Consensus       145 ~~~~Sa~~~-----------------~~i~~lf~~l~~~~  167 (178)
T 2iwr_A          145 YYETXATYG-----------------LNVDRVFQEVAQKV  167 (178)
T ss_dssp             EEEEBTTTT-----------------BTHHHHHHHHHHHH
T ss_pred             EEEEecccc-----------------CCHHHHHHHHHHHH
Confidence            899999998                 99999999887655

>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=98.65  E-value=8e-08  Score=69.46  Aligned_cols=94  Identities=6%  Similarity=-0.092  Sum_probs=59.9

Q ss_pred             HhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          21 VVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      .+..+|++++|+|++++.+-.+ ..+...+...   .+.|+++|.||+|+.....+.... +....+...+.   ..+.+
T Consensus        82 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~-~~~~~~~~~~~---~~~~~  157 (184)
T 3ihw_A           82 FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDD-SRARKLSTDLK---RCTYY  157 (184)
T ss_dssp             HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCH-HHHHHHHHHTT---TCEEE
T ss_pred             eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCH-HHHHHHHHHcC---CCeEE
Confidence            4567999999999987643222 2333334331   257999999999995321111111 22233333322   36789


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+||+++                 .|+++|.+.|.+.+.
T Consensus       158 e~Sa~~~-----------------~gv~~lf~~l~~~i~  179 (184)
T 3ihw_A          158 ETCATYG-----------------LNVERVFQDVAQKVV  179 (184)
T ss_dssp             EEBTTTT-----------------BTHHHHHHHHHHHHH
T ss_pred             EecCCCC-----------------CCHHHHHHHHHHHHH
Confidence            9999999                 999999999877653

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=98.65  E-value=5.9e-09  Score=76.22  Aligned_cols=95  Identities=9%  Similarity=-0.113  Sum_probs=61.3

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+..+|++++|+|++++..... ..+...+...   .+.|+++|+||+|+.+..  .... .....+...    .+.+
T Consensus        90 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--~v~~-~~~~~~~~~----~~~~  162 (201)
T 3oes_A           90 YSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPER--EVQA-VEGKKLAES----WGAT  162 (201)
T ss_dssp             GGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGC--CSCH-HHHHHHHHH----HTCE
T ss_pred             HHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCcccc--ccCH-HHHHHHHHH----hCCe
Confidence            467789999999999986532111 1222333321   368999999999997541  1111 112223222    2467


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      ++.+||+++                 .|++++.+.|.+.+...
T Consensus       163 ~~~~Sa~~~-----------------~~v~~l~~~l~~~i~~~  188 (201)
T 3oes_A          163 FMESSAREN-----------------QLTQGIFTKVIQEIARV  188 (201)
T ss_dssp             EEECCTTCH-----------------HHHHHHHHHHHHHHHHC
T ss_pred             EEEEeCCCC-----------------CCHHHHHHHHHHHHHhh
Confidence            899999998                 89999999998877543

>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=98.65  E-value=4.9e-08  Score=69.25  Aligned_cols=99  Identities=13%  Similarity=0.068  Sum_probs=63.7

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHh---CC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVV---GT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~---~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~   86 (161)
                      +..++...+..+|++++|+|++++.+... ..+...+.   ..   .+.|+++|+||+|+.+..   ... +....+...
T Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~---~~~-~~~~~~~~~  144 (177)
T 1wms_A           69 FRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQ---VST-EEAQAWCRD  144 (177)
T ss_dssp             GHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCS---SCH-HHHHHHHHH
T ss_pred             hhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCcccccc---cCH-HHHHHHHHh
Confidence            34455677889999999999987643211 11222221   10   357999999999997431   011 222333332


Q ss_pred             hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          87 NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .   ...+++.+||+++                 .|++++.+.|.+.+..
T Consensus       145 ~---~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~~  174 (177)
T 1wms_A          145 N---GDYPYFETSAKDA-----------------TNVAAAFEEAVRRVLA  174 (177)
T ss_dssp             T---TCCCEEECCTTTC-----------------TTHHHHHHHHHHHHHT
T ss_pred             c---CCceEEEEeCCCC-----------------CCHHHHHHHHHHHHHh
Confidence            1   3567899999999                 9999999998876643

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.65  E-value=1.1e-10  Score=93.47  Aligned_cols=111  Identities=13%  Similarity=-0.001  Sum_probs=63.9

Q ss_pred             ccEEEEEEeCCCCCCCCcHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc-CCCCceeEEeecC
Q psy8220          25 ADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI-QSIYSSPRFSSRS  102 (161)
Q Consensus        25 aDviL~VvD~~~~~~~~~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~iSa~~  102 (161)
                      +|.+-.++|+..++++.++.+.+++... ..++.++++||+|++++        .....|..++.. ..+......++..
T Consensus        58 ~~~l~~i~~~~~~l~~~~p~~~~l~~~~~~~k~~~~~Lnk~dl~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (357)
T 2e87_A           58 RDNLRKVLERTPGLSTLPKFYQELVDVLVDRDTFHKAMAGIDWAIR--------IIRELEERYVERIRYSNDPNEIAELR  129 (357)
T ss_dssp             HHHHHHHHHHSCCGGGSCHHHHHHHHHHHCHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHTCCCHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcccCCHHHHHHHHHHhCCCHHHHHHHHHHHHHH--------HHHHHHHHHHHHhhcCCCHHHHHHHH
Confidence            4444556677766666666665544211 35888899999999876        555678777652 1122222222222


Q ss_pred             CCCcchhhhhhhhccccccCHHHHHHHHHhH-------------hhc-CCC-CCceEEEEEeecCCCcccccC
Q psy8220         103 QKDAQTERDLKAINVSSCVGAELLMLLLGNY-------------TRN-KDI-KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~-------------~~~-~~~-~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +                 .+.+.+.+.+.+.             ... ... ....+|+++|.||||||||+.
T Consensus       130 ~-----------------~~~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~v~lvG~~gvGKSTLin  185 (357)
T 2e87_A          130 R-----------------QFYGRVASVLRDIDDRLRYLNKAREVLKDLPVVDLEIPTVVIAGHPNVGKSTLLK  185 (357)
T ss_dssp             H-----------------HHHHHHHHHHHHTHHHHHHHHHHHHHGGGSCCCCSSSCEEEEECSTTSSHHHHHH
T ss_pred             H-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCCCCCEEEEECCCCCCHHHHHH
Confidence            2                 3333333332221             111 111 356899999999999999974

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=98.64  E-value=8.1e-08  Score=77.47  Aligned_cols=104  Identities=7%  Similarity=0.038  Sum_probs=67.6

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcE-EEEee-cCCCCCcccccccHHHHHHH
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKL-VIVIN-KAGKPSTKIQSGSMAQIFQT   82 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~-ilVlN-K~Dl~~~~~~~~~~~~~~~~   82 (161)
                      .|.|..  |...+ ...+..+|++|+|+| +.+...+..+....+.. .+.|. |+|+| |+|+ +..    ...+..+.
T Consensus        67 tPGh~~--f~~~~-~~~~~~aD~ailVvd-~~g~~~qt~e~~~~~~~-~~i~~~ivvvNNK~Dl-~~~----~~~~~~~~  136 (370)
T 2elf_A           67 AHSYPK--TLKSL-ITALNISDIAVLCIP-PQGLDAHTGECIIALDL-LGFKHGIIALTRSDST-HMH----AIDELKAK  136 (370)
T ss_dssp             CTTTTT--CHHHH-HHHHHTCSEEEEEEC-TTCCCHHHHHHHHHHHH-TTCCEEEEEECCGGGS-CHH----HHHHHHHH
T ss_pred             CCChHH--HHHHH-HHHHHHCCEEEEEEc-CCCCcHHHHHHHHHHHH-cCCCeEEEEEEeccCC-CHH----HHHHHHHH
Confidence            355543  45566 577899999999999 76655444554444444 46777 99999 9999 541    00111122


Q ss_pred             HhhhhccC--CCCceeE--EeecC---CCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          83 WIPYNSIQ--SIYSSPR--FSSRS---QKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        83 ~~~~~~~~--~~~~~i~--iSa~~---~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ..+.+...  ...|+++  +||++   +                 .|+++|++.|.++++
T Consensus       137 i~~~l~~~~~~~~~ii~~~~SA~~~~~g-----------------~gi~~L~~~l~~~~~  179 (370)
T 2elf_A          137 LKVITSGTVLQDWECISLNTNKSAKNPF-----------------EGVDELKARINEVAE  179 (370)
T ss_dssp             HHHHTTTSTTTTCEEEECCCCTTSSSTT-----------------TTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCceEEEecccccccCcCC-----------------CCHHHHHHHHHhhcc
Confidence            22233211  1357899  99999   7                 899999999987764

>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=98.64  E-value=1.5e-08  Score=74.23  Aligned_cols=94  Identities=15%  Similarity=0.010  Sum_probs=60.6

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ++...+..+|++++|+|++++..... ..+...+...  .+.|+++|+||+|+.+..   ... +....+...+    +.
T Consensus        85 ~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~---~~~-~~~~~~~~~~----~~  156 (213)
T 3cph_A           85 ITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRV---VTA-DQGEALAKEL----GI  156 (213)
T ss_dssp             CCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCSSCC---SCH-HHHHHHHHHH----TC
T ss_pred             HHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc---cCH-HHHHHHHHHc----CC
Confidence            34567789999999999987532111 1222222211  368999999999995331   011 2223332222    46


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +++.+||+++                 .|+++|.+.|.+.+.
T Consensus       157 ~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~  181 (213)
T 3cph_A          157 PFIESSAKND-----------------DNVNEIFFTLAKLIQ  181 (213)
T ss_dssp             CEEECBTTTT-----------------BSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            7899999998                 899999999877654

>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=98.64  E-value=2.1e-08  Score=73.32  Aligned_cols=95  Identities=14%  Similarity=0.043  Sum_probs=61.3

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ++...+..+|++|+|+|++++.+... ..+...+...  .+.|+++|+||+|+.+..  .... +....+...    .+.
T Consensus        73 ~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~~~  145 (206)
T 2bcg_Y           73 ITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKR--VVEY-DVAKEFADA----NKM  145 (206)
T ss_dssp             CCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC--CSCH-HHHHHHHHH----TTC
T ss_pred             HHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc--ccCH-HHHHHHHHH----cCC
Confidence            34567889999999999987643211 1122222210  368999999999997641  1111 112222222    356


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +++.+||+++                 .|+++|.+.|.+.+.
T Consensus       146 ~~~~~Sa~~g-----------------~gi~~l~~~l~~~i~  170 (206)
T 2bcg_Y          146 PFLETSALDS-----------------TNVEDAFLTMARQIK  170 (206)
T ss_dssp             CEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             eEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            8899999998                 899999999887654

>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=98.64  E-value=3e-08  Score=69.81  Aligned_cols=93  Identities=14%  Similarity=0.028  Sum_probs=59.8

Q ss_pred             HHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+..+|++++|+|++++.+-  ....+.......  .+.|+++|.||+|+.+..  .... +....+...    .+.+
T Consensus        70 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~~~~  142 (169)
T 3q85_A           70 DHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSR--EVSL-EEGRHLAGT----LSCK  142 (169)
T ss_dssp             CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGC--CSCH-HHHHHHHHH----TTCE
T ss_pred             hhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcc--cCCH-HHHHHHHHH----cCCc
Confidence            3456789999999999875321  112222222211  268999999999986431  1111 222222222    3567


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ++.+||+++                 .|++++.+.|.+.+.
T Consensus       143 ~~~~Sa~~~-----------------~~v~~l~~~l~~~i~  166 (169)
T 3q85_A          143 HIETSAALH-----------------HNTRELFEGAVRQIR  166 (169)
T ss_dssp             EEECBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             EEEecCccC-----------------CCHHHHHHHHHHHHH
Confidence            899999999                 999999999887654

>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=98.63  E-value=6.9e-09  Score=73.16  Aligned_cols=98  Identities=17%  Similarity=0.022  Sum_probs=60.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+..+|++++|+|++++..... ..+...+...  .+.|+++|+||+|+.+..  .... +....+...    
T Consensus        68 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----  140 (170)
T 1z08_A           68 FHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKER--HVSI-QEAESYAES----  140 (170)
T ss_dssp             -----CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGC--CSCH-HHHHHHHHH----
T ss_pred             hhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECccccccc--ccCH-HHHHHHHHH----
Confidence            34444567789999999999987532111 1122222210  368999999999996531  1111 222333222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+.+.+||+++                 .|+++|.+.|.+.+.
T Consensus       141 ~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~  168 (170)
T 1z08_A          141 VGAKHYHTSAKQN-----------------KGIEELFLDLCKRMI  168 (170)
T ss_dssp             TTCEEEEEBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             cCCeEEEecCCCC-----------------CCHHHHHHHHHHHHh
Confidence            2567899999999                 999999999987654

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.63  E-value=2.1e-07  Score=74.36  Aligned_cols=90  Identities=14%  Similarity=0.142  Sum_probs=59.4

Q ss_pred             HHhhhccEEEEEEeCCCCCCCC-c--HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          20 SVVEAADVILEVVDARDPMGTR-C--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~-~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      .....+|.+|+|+|++.+.+-. .  ..+...+... .++|+++|+||+|+.+.        ..+......+. ..+.++
T Consensus       242 ~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~piilV~NK~Dl~~~--------~~~~~~~~~~~-~~~~~~  312 (357)
T 2e87_A          242 ALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLPFLVVINKIDVADE--------ENIKRLEKFVK-EKGLNP  312 (357)
T ss_dssp             GGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSCEEEEECCTTTCCH--------HHHHHHHHHHH-HTTCCC
T ss_pred             HHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcCCCCEEEEEECcccCCh--------HHHHHHHHHHH-hcCCCe
Confidence            3345699999999987654211 1  2233333221 27999999999999875        22222222222 135678


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+||+++                 .|+++|.+.|.+.+.
T Consensus       313 ~~iSA~~g-----------------~gi~~l~~~i~~~l~  335 (357)
T 2e87_A          313 IKISALKG-----------------TGIDLVKEEIIKTLR  335 (357)
T ss_dssp             EECBTTTT-----------------BTHHHHHHHHHHHHH
T ss_pred             EEEeCCCC-----------------cCHHHHHHHHHHHHH
Confidence            99999999                 999999999987664

>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=98.62  E-value=1e-08  Score=72.78  Aligned_cols=95  Identities=13%  Similarity=-0.032  Sum_probs=60.4

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ++...+..+|++++|+|++++..... ..+...+...  .+.|+++|+||+|+.+..  .... +....+...    .+.
T Consensus        79 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~~~  151 (179)
T 2y8e_A           79 LIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKR--QVST-EEGERKAKE----LNV  151 (179)
T ss_dssp             GSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGC--CSCH-HHHHHHHHH----HTC
T ss_pred             HHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccC--cCCH-HHHHHHHHH----cCC
Confidence            33566789999999999987532111 1222222211  368999999999986531  1011 112222222    246


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +++.+||+++                 .|+++|.+.|.+.++
T Consensus       152 ~~~~~Sa~~~-----------------~~i~~l~~~l~~~~~  176 (179)
T 2y8e_A          152 MFIETSAKAG-----------------YNVKQLFRRVAAALP  176 (179)
T ss_dssp             EEEEEBTTTT-----------------BSHHHHHHHHHHTCC
T ss_pred             eEEEEeCCCC-----------------CCHHHHHHHHHHHHh
Confidence            7899999998                 999999999887654

>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=98.62  E-value=1.3e-08  Score=72.93  Aligned_cols=98  Identities=10%  Similarity=-0.058  Sum_probs=63.0

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...+..+|++++|+|++++..... ..+...+..  ..+.|+++|+||+|+.+..  .... .....+...    
T Consensus        72 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----  144 (186)
T 2bme_A           72 FRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADR--EVTF-LEASRFAQE----  144 (186)
T ss_dssp             GHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--CSCH-HHHHHHHHH----
T ss_pred             HHHHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc--ccCH-HHHHHHHHH----
Confidence            34555778899999999999987543211 122222221  1478999999999996431  1111 112222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+++.+||+++                 .|++++.+.|.+.+.
T Consensus       145 ~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~  172 (186)
T 2bme_A          145 NELMFLETSALTG-----------------ENVEEAFVQCARKIL  172 (186)
T ss_dssp             TTCEEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             cCCEEEEecCCCC-----------------CCHHHHHHHHHHHHH
Confidence            3567899999998                 899999999877654

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=98.62  E-value=1.7e-08  Score=71.69  Aligned_cols=97  Identities=12%  Similarity=-0.009  Sum_probs=61.2

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC----CCCc-EEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT----PGKK-LVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~----~~k~-~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ++...+..+|++++|+|++++.+-.+ ..+...+...    .+.| +++|.||+|+.+..  .... +....+...    
T Consensus        72 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~--~~~~-~~~~~~~~~----  144 (178)
T 2hxs_A           72 MLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMR--TIKP-EKHLRFCQE----  144 (178)
T ss_dssp             THHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGC--SSCH-HHHHHHHHH----
T ss_pred             hhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEcccccccc--ccCH-HHHHHHHHH----
Confidence            33566789999999999987643211 1222222210    1456 78999999996531  0011 222333222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+...
T Consensus       145 ~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~~~  174 (178)
T 2hxs_A          145 NGFSSHFVSAKTG-----------------DSVFLCFQKVAAEILGI  174 (178)
T ss_dssp             HTCEEEEECTTTC-----------------TTHHHHHHHHHHHHTTC
T ss_pred             cCCcEEEEeCCCC-----------------CCHHHHHHHHHHHHHhh
Confidence            2467899999999                 99999999998876543

>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=98.62  E-value=5.7e-08  Score=70.77  Aligned_cols=99  Identities=15%  Similarity=0.025  Sum_probs=61.1

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcc----cccccHHHHHHHHhhhh
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTK----IQSGSMAQIFQTWIPYN   87 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~----~~~~~~~~~~~~~~~~~   87 (161)
                      ..++...+..+|++|+|+|++++....+ ..+...+...  .+.|+++|+||+|+.+..    .+... .+....+... 
T Consensus        91 ~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~-~~~~~~~~~~-  168 (199)
T 2p5s_A           91 RSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVP-GHFGEKLAMT-  168 (199)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCC-HHHHHHHHHH-
T ss_pred             hhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccC-HHHHHHHHHH-
Confidence            3444667889999999999987643221 2222223211  368999999999986310    00000 0112222222 


Q ss_pred             ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          88 SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                         .+.+++.+||+++                 .|++++.+.|.+.+.
T Consensus       169 ---~~~~~~~~SA~~g-----------------~gv~el~~~l~~~i~  196 (199)
T 2p5s_A          169 ---YGALFCETSAKDG-----------------SNIVEAVLHLAREVK  196 (199)
T ss_dssp             ---HTCEEEECCTTTC-----------------TTHHHHHHHHHHHHT
T ss_pred             ---cCCeEEEeeCCCC-----------------CCHHHHHHHHHHHHH
Confidence               2567899999999                 999999999887664

>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=98.61  E-value=1.7e-08  Score=73.08  Aligned_cols=94  Identities=12%  Similarity=-0.046  Sum_probs=60.5

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      +...+..+|++++|+|++++....+ ..+...+...  .+.|+++|+||+|+.+..  .... +....+...    .+.+
T Consensus        87 ~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~--~v~~-~~~~~~~~~----~~~~  159 (191)
T 2a5j_A           87 TRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR--DVKR-EEGEAFARE----HGLI  159 (191)
T ss_dssp             CHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--CSCH-HHHHHHHHH----HTCE
T ss_pred             HHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCcc--ccCH-HHHHHHHHH----cCCE
Confidence            3567789999999999987542211 1222223211  378999999999996531  1011 222333222    2467


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ++.+||+++                 .|++++.+.|.+.+.
T Consensus       160 ~~~~Sa~~~-----------------~gi~~l~~~l~~~i~  183 (191)
T 2a5j_A          160 FMETSAKTA-----------------CNVEEAFINTAKEIY  183 (191)
T ss_dssp             EEEECTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             EEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            899999998                 899999999876553

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=98.61  E-value=3.4e-08  Score=71.82  Aligned_cols=97  Identities=15%  Similarity=0.118  Sum_probs=53.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-----CCCcEEEEeecCCCCC-cccccccHHHHHHHHhhh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-----PGKKLVIVINKAGKPS-TKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-----~~k~~ilVlNK~Dl~~-~~~~~~~~~~~~~~~~~~   86 (161)
                      +..++...+..+|++|+|+|++++.+-.. ..+...+...     .+.|+++|+||+|+.+ ..  .... +....+...
T Consensus        86 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~--~v~~-~~~~~~~~~  162 (208)
T 2yc2_C           86 YKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRH--QVRL-DMAQDWATT  162 (208)
T ss_dssp             HHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC---------CCCH-HHHHHHHHH
T ss_pred             HHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhc--cCCH-HHHHHHHHH
Confidence            45566777899999999999987643111 1222223210     2689999999999976 31  0011 222333322


Q ss_pred             hccCCCCceeEEeecC-CCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          87 NSIQSIYSSPRFSSRS-QKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~-~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                          .+.+++.+||++ +                 .|+++|.+.|.+.+
T Consensus       163 ----~~~~~~~~Sa~~~~-----------------~gi~~l~~~i~~~~  190 (208)
T 2yc2_C          163 ----NTLDFFDVSANPPG-----------------KDADAPFLSIATTF  190 (208)
T ss_dssp             ----TTCEEEECCC------------------------CHHHHHHHHHH
T ss_pred             ----cCCEEEEeccCCCC-----------------cCHHHHHHHHHHHH
Confidence                246789999999 8                 88999988887655

>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=98.61  E-value=2.4e-08  Score=71.19  Aligned_cols=98  Identities=14%  Similarity=-0.042  Sum_probs=61.0

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccc--------cccHHHHHHHHh
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQ--------SGSMAQIFQTWI   84 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~--------~~~~~~~~~~~~   84 (161)
                      .++...+..+|++++|+|++++.+-..  ..+...+... .+.|+++|+||+|+.+....        .... +....+.
T Consensus        71 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~-~~~~~~~  149 (182)
T 3bwd_D           71 RLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITT-VQGEELK  149 (182)
T ss_dssp             TTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCHHHHHHC--CCCCCH-HHHHHHH
T ss_pred             hhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhhcCcccccccccCCCCCH-HHHHHHH
Confidence            344567789999999999987543211  1233333321 36899999999998764100        0000 1112222


Q ss_pred             hhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          85 PYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        85 ~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ..+.   ..+.+.+||+++                 .|+++|.+.|.+.+
T Consensus       150 ~~~~---~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~i  179 (182)
T 3bwd_D          150 KLIG---APAYIECSSKSQ-----------------ENVKGVFDAAIRVV  179 (182)
T ss_dssp             HHHT---CSEEEECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             HHcC---CCEEEEEECCCC-----------------CCHHHHHHHHHHHH
Confidence            2221   237889999999                 99999999987754

>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=98.61  E-value=6.7e-08  Score=78.46  Aligned_cols=119  Identities=13%  Similarity=0.019  Sum_probs=68.6

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      |.|.  .|...+ ...+..+|++|+|+|++++...+..+....+.. .+.| +++|+||+|+.+.........+.+..+.
T Consensus        74 pG~~--~f~~~~-~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~-~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l  149 (397)
T 1d2e_A           74 PGHA--DYVKNM-ITGTAPLDGCILVVAANDGPMPQTREHLLLARQ-IGVEHVVVYVNKADAVQDSEMVELVELEIRELL  149 (397)
T ss_dssp             SSHH--HHHHHH-HHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHH-TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHH
T ss_pred             CChH--HHHHHH-HhhHhhCCEEEEEEECCCCCCHHHHHHHHHHHH-cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHH
Confidence            4543  345555 678899999999999998765554444444444 5788 6899999999853100000001122222


Q ss_pred             hhhcc-CCCCceeEEeecCCCCcchhhhhhhhccccccC-HHHHHHHHHhHhhc
Q psy8220          85 PYNSI-QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVG-AELLMLLLGNYTRN  136 (161)
Q Consensus        85 ~~~~~-~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g-~~~L~~~l~~~~~~  136 (161)
                      ..+.- ....|++++||+++.+..        +..-..| +.+|++.|.++++.
T Consensus       150 ~~~~~~~~~~~~i~~SA~~g~n~~--------~~~~~~g~i~~Ll~~l~~~~p~  195 (397)
T 1d2e_A          150 TEFGYKGEETPIIVGSALCALEQR--------DPELGLKSVQKLLDAVDTYIPV  195 (397)
T ss_dssp             HHTTSCTTTSCEEECCHHHHHTTC--------CTTTTHHHHHHHHHHHHHHSCC
T ss_pred             HHcCCCcccCcEEEeehhhccccc--------CCCccCCcHHHHHHHHHHhCCC
Confidence            22210 013578999999861100        0000024 88999999887753

>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=98.61  E-value=1.4e-08  Score=74.75  Aligned_cols=98  Identities=17%  Similarity=0.045  Sum_probs=63.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ++.++...+..+|++++|+|++++.+-.. ..+...+...  .+.|+++|.||+|+.+..  .... +....+...    
T Consensus        88 ~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~--~v~~-~~~~~~~~~----  160 (201)
T 2ew1_A           88 FRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERR--EVSQ-QRAEEFSEA----  160 (201)
T ss_dssp             GHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--SSCH-HHHHHHHHH----
T ss_pred             HHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc--ccCH-HHHHHHHHH----
Confidence            45555778899999999999987542111 1222222211  368999999999996431  1011 222222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       161 ~~~~~~~~Sa~~g-----------------~gv~~l~~~l~~~i~  188 (201)
T 2ew1_A          161 QDMYYLETSAKES-----------------DNVEKLFLDLACRLI  188 (201)
T ss_dssp             HTCCEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             cCCEEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            2467899999999                 899999999877654

>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=98.61  E-value=3.1e-08  Score=70.02  Aligned_cols=93  Identities=14%  Similarity=-0.038  Sum_probs=59.2

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+..+|.+++|+|++++.+-.. ..+...+...   .+.|+++|.||+|+.+..  .... +....+...    .+.+
T Consensus        72 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~--~v~~-~~~~~~~~~----~~~~  144 (175)
T 2nzj_A           72 ESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCR--EVSV-EEGRACAVV----FDCK  144 (175)
T ss_dssp             HHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTC--CSCH-HHHHHHHHH----HTSE
T ss_pred             HhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhcccc--ccCH-HHHHHHHHH----cCCe
Confidence            456678999999999987532111 1222223221   378999999999997541  1111 112222222    2467


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ++.+||+++                 .|+++|.+.|.+.+.
T Consensus       145 ~~~~Sa~~g-----------------~gi~~l~~~l~~~~~  168 (175)
T 2nzj_A          145 FIETSATLQ-----------------HNVAELFEGVVRQLR  168 (175)
T ss_dssp             EEECBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             EEEEecCCC-----------------CCHHHHHHHHHHHHH
Confidence            899999999                 999999999987664

>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=98.61  E-value=3.8e-08  Score=71.74  Aligned_cols=93  Identities=14%  Similarity=0.094  Sum_probs=59.7

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC------CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT------PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~------~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      ...+..+|++|+|+|++++..... ..+...+...      .+.|+++|+||+|+.+..   ... +....+....   .
T Consensus        75 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~-~~~~~~~~~~---~  147 (207)
T 1vg8_A           75 VAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQ---VAT-KRAQAWCYSK---N  147 (207)
T ss_dssp             CGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCC---SCH-HHHHHHHHHT---T
T ss_pred             HHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcccc---cCH-HHHHHHHHhc---C
Confidence            456789999999999987643111 1111111110      257999999999997431   011 2223332211   3


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       148 ~~~~~~~Sa~~g-----------------~gi~~l~~~l~~~~~  174 (207)
T 1vg8_A          148 NIPYFETSAKEA-----------------INVEQAFQTIARNAL  174 (207)
T ss_dssp             SCCEEECBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             CceEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            567899999999                 999999999877653

>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=98.60  E-value=7.5e-09  Score=79.49  Aligned_cols=85  Identities=15%  Similarity=0.090  Sum_probs=58.8

Q ss_pred             hhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecC
Q psy8220          23 EAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRS  102 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~  102 (161)
                      ..+|++++|+|++...  ....+...+.+ .+.|+++|+||+|+....  .... + ...+...    .+.|++++||++
T Consensus        82 ~~~d~ii~V~D~t~~~--~~~~~~~~l~~-~~~pvilv~NK~Dl~~~~--~i~~-~-~~~l~~~----lg~~vi~~SA~~  150 (258)
T 3a1s_A           82 GDADLVILVADSVNPE--QSLYLLLEILE-MEKKVILAMTAIDEAKKT--GMKI-D-RYELQKH----LGIPVVFTSSVT  150 (258)
T ss_dssp             SCCSEEEEEEETTSCH--HHHHHHHHHHT-TTCCEEEEEECHHHHHHT--TCCB-C-HHHHHHH----HCSCEEECCTTT
T ss_pred             cCCCEEEEEeCCCchh--hHHHHHHHHHh-cCCCEEEEEECcCCCCcc--chHH-H-HHHHHHH----cCCCEEEEEeeC
Confidence            6899999999998742  22334444555 589999999999986431  0000 0 1222222    257899999999


Q ss_pred             CCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220         103 QKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +                 .|+++|.+.|.+.+.
T Consensus       151 g-----------------~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          151 G-----------------EGLEELKEKIVEYAQ  166 (258)
T ss_dssp             C-----------------TTHHHHHHHHHHHHH
T ss_pred             C-----------------cCHHHHHHHHHHHhh
Confidence            9                 899999999888765

>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=98.60  E-value=1.3e-07  Score=68.70  Aligned_cols=95  Identities=9%  Similarity=0.040  Sum_probs=60.6

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      .++...+..+|.+++|+|++++..-.. ..+...+.. .  .+.|+++|+||+|+.+..  .... +....+...    .
T Consensus        77 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~  149 (206)
T 2bov_A           77 AIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKR--QVSV-EEAKNRAEQ----W  149 (206)
T ss_dssp             HHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGC--CSCH-HHHHHHHHH----H
T ss_pred             HHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccc--cccH-HHHHHHHHH----h
Confidence            344567789999999999987532111 111122211 0  378999999999997531  1111 222333332    2


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +.+++.+||+++                 .|+++|.+.|.+.+
T Consensus       150 ~~~~~~~Sa~~g-----------------~gi~~l~~~l~~~i  175 (206)
T 2bov_A          150 NVNYVETSAKTR-----------------ANVDKVFFDLMREI  175 (206)
T ss_dssp             TCEEEEECTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCC-----------------CCHHHHHHHHHHHH
Confidence            467899999999                 89999999987655

>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=98.59  E-value=3.8e-08  Score=72.75  Aligned_cols=101  Identities=12%  Similarity=-0.046  Sum_probs=56.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccc----------cccHHHHH
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQ----------SGSMAQIF   80 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~----------~~~~~~~~   80 (161)
                      +..++...+..+|++++|+|++++.+-..  ..+...+... .+.|+++|.||+|+.+....          .... +..
T Consensus        95 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~-~~~  173 (214)
T 2j1l_A           95 YDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTY-HRG  173 (214)
T ss_dssp             ----------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCH-HHH
T ss_pred             hhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhhccchhhhhhcccccCcccH-HHH
Confidence            34454567889999999999987532111  1222223221 36899999999999765100          0000 011


Q ss_pred             HHHhhhhccCCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          81 QTWIPYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        81 ~~~~~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ..+...    .+. +++.+||+++                 .|+++|.+.|.+.+..
T Consensus       174 ~~~~~~----~~~~~~~~~SA~~g-----------------~gi~el~~~l~~~~~~  209 (214)
T 2j1l_A          174 QEMARS----VGAVAYLECSARLH-----------------DNVHAVFQEAAEVALS  209 (214)
T ss_dssp             HHHHHH----TTCSEEEECBTTTT-----------------BSHHHHHHHHHHHHHH
T ss_pred             HHHHHh----cCCCEEEEecCCCC-----------------CCHHHHHHHHHHHHHH
Confidence            122222    234 7899999998                 9999999999876643

>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=98.59  E-value=2.2e-08  Score=73.52  Aligned_cols=97  Identities=12%  Similarity=-0.059  Sum_probs=60.2

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCcH--HHHHHHhCC-CCCcEEEEeecCCCCCccccc----------ccHHHHHHH
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRCK--VAEDLVVGT-PGKKLVIVINKAGKPSTKIQS----------GSMAQIFQT   82 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~~--~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~----------~~~~~~~~~   82 (161)
                      .++...+..+|++++|+|++++.+..+.  .+...+... .+.|+++|+||+|+.+.....          ... +....
T Consensus        93 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~-~~~~~  171 (204)
T 4gzl_A           93 RLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITY-PQGLA  171 (204)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCH-HHHHH
T ss_pred             HHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhccchhhhhhhhccccccccH-HHHHH
Confidence            3445678899999999999876432221  233333321 379999999999997651000          000 11111


Q ss_pred             HhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          83 WIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        83 ~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +...+   ...+++.+||+++                 .|+++|.+.|.+.
T Consensus       172 ~~~~~---~~~~~~~~SA~~g-----------------~gi~~l~~~l~~~  202 (204)
T 4gzl_A          172 MAKEI---GAVKYLECSALTQ-----------------RGLKTVFDEAIRA  202 (204)
T ss_dssp             HHHHT---TCSEEEECCTTTC-----------------TTHHHHHHHHHHT
T ss_pred             HHHhc---CCcEEEEeeCCCC-----------------CCHHHHHHHHHHH
Confidence            22221   1345889999999                 9999999988654

>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=98.59  E-value=9.7e-09  Score=72.86  Aligned_cols=84  Identities=17%  Similarity=0.109  Sum_probs=55.6

Q ss_pred             hhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecC
Q psy8220          23 EAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRS  102 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~  102 (161)
                      ..+|++++|+|++...  ....+...+.+ .+.|+++|.||+|+....  ...  .....+...+    +.+++.+||++
T Consensus        80 ~~~~~~i~v~D~~~~~--~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~--~~~--~~~~~~~~~~----~~~~~~~SA~~  148 (165)
T 2wji_A           80 EKPDLVVNIVDATALE--RNLYLTLQLME-MGANLLLALNKMDLAKSL--GIE--IDVDKLEKIL----GVKVVPLSAAK  148 (165)
T ss_dssp             HCCSEEEEEEETTCHH--HHHHHHHHHHH-TTCCEEEEEECHHHHHHT--TCC--CCHHHHHHHH----TSCEEECBGGG
T ss_pred             CCCCEEEEEecCCchh--HhHHHHHHHHh-cCCCEEEEEEchHhcccc--Chh--hHHHHHHHHh----CCCEEEEEcCC
Confidence            4799999999987631  12223333444 579999999999985321  000  0012222222    46789999999


Q ss_pred             CCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220         103 QKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +                 .|+++|.+.|.+.+
T Consensus       149 ~-----------------~~v~~l~~~l~~~~  163 (165)
T 2wji_A          149 K-----------------MGIEELKKAISIAV  163 (165)
T ss_dssp             T-----------------BSHHHHHHHHHHHT
T ss_pred             C-----------------CCHHHHHHHHHHHh
Confidence            9                 99999999987655

>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=98.58  E-value=7.2e-08  Score=69.71  Aligned_cols=97  Identities=9%  Similarity=-0.044  Sum_probs=60.4

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCccc----------ccccHHHHHHHH
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKI----------QSGSMAQIFQTW   83 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~----------~~~~~~~~~~~~   83 (161)
                      ++...+..+|++++|+|++++.+-..  ..+...+... .+.|+++|.||+|+.+...          +.... +....+
T Consensus        82 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~-~~~~~~  160 (194)
T 2atx_A           82 LRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICV-EQGQKL  160 (194)
T ss_dssp             TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCH-HHHHHH
T ss_pred             HHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcccccchhhcccccCcccCH-HHHHHH
Confidence            33567789999999999987632111  1233333321 3789999999999976410          00000 112222


Q ss_pred             hhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          84 IPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        84 ~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ...+.   ..+++.+||+++                 .|+++|.+.|.+.+
T Consensus       161 ~~~~~---~~~~~~~Sa~~g-----------------~gi~~l~~~l~~~i  191 (194)
T 2atx_A          161 AKEIG---ACCYVECSALTQ-----------------KGLKTVFDEAIIAI  191 (194)
T ss_dssp             HHHHT---CSCEEECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             HHHcC---CcEEEEeeCCCC-----------------CCHHHHHHHHHHHH
Confidence            22221   237889999998                 99999999987654

>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=98.58  E-value=4.1e-08  Score=71.32  Aligned_cols=95  Identities=13%  Similarity=-0.005  Sum_probs=60.4

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHh---CCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVV---GTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~---~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      ++...+..+|++++|+|++++.+-.+ ..+...+.   ...+.|+++|.||+|+.+..  .... +....+...    .+
T Consensus        91 ~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~--~v~~-~~~~~~~~~----~~  163 (196)
T 2atv_A           91 QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSR--QVST-EEGEKLATE----LA  163 (196)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGC--CSCH-HHHHHHHHH----HT
T ss_pred             chhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECccccccc--ccCH-HHHHHHHHH----hC
Confidence            33567789999999999987542111 11122221   11478999999999996531  1111 112222222    24


Q ss_pred             CceeEEeecCCCCcchhhhhhhhcccccc-CHHHHHHHHHhHhh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCV-GAELLMLLLGNYTR  135 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~-g~~~L~~~l~~~~~  135 (161)
                      .+++.+||+++                 . |++++.+.|.+.+.
T Consensus       164 ~~~~~~Sa~~g-----------------~~gi~~l~~~l~~~i~  190 (196)
T 2atv_A          164 CAFYECSACTG-----------------EGNITEIFYELCREVR  190 (196)
T ss_dssp             SEEEECCTTTC-----------------TTCHHHHHHHHHHHHH
T ss_pred             CeEEEECCCcC-----------------CcCHHHHHHHHHHHHH
Confidence            67899999998                 8 99999999877653

>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=98.58  E-value=6.5e-08  Score=67.82  Aligned_cols=94  Identities=12%  Similarity=0.003  Sum_probs=60.5

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      +...+..+|++++|+|++++.+... ..+...+... .+.|+++|+||+|+.+..  .... +....+...    .+.++
T Consensus        71 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~--~~~~-~~~~~~~~~----~~~~~  143 (168)
T 1z2a_A           71 TKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDS--CIKN-EEAEGLAKR----LKLRF  143 (168)
T ss_dssp             CHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGGGC--SSCH-HHHHHHHHH----HTCEE
T ss_pred             HHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccCccc--ccCH-HHHHHHHHH----cCCeE
Confidence            3566789999999999987542111 1122222211 368999999999987531  0011 222333332    24678


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+||+++                 .|+++|.+.|.+.+.
T Consensus       144 ~~~Sa~~~-----------------~~i~~l~~~l~~~~~  166 (168)
T 1z2a_A          144 YRTSVKED-----------------LNVSEVFKYLAEKHL  166 (168)
T ss_dssp             EECBTTTT-----------------BSSHHHHHHHHHHHH
T ss_pred             EEEecCCC-----------------CCHHHHHHHHHHHHh
Confidence            99999998                 899999999877653

>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=98.56  E-value=1.8e-08  Score=73.76  Aligned_cols=97  Identities=12%  Similarity=-0.022  Sum_probs=61.7

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      ..++...+..+|++|+|+|++++..... ..+...+.. . .+.|+++|+||+|+.+..  .... .....+...    .
T Consensus        88 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~v~~-~~~~~~~~~----~  160 (200)
T 2o52_A           88 RSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPER--EVTF-LEASRFAQE----N  160 (200)
T ss_dssp             SCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGC--CSCH-HHHHHHHHH----T
T ss_pred             HHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccc--ccCH-HHHHHHHHH----c
Confidence            3344567889999999999987643211 122222221 0 478999999999986431  1111 112222222    3


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+++.+||+++                 .|++++.+.|.+.+.
T Consensus       161 ~~~~~~~SA~~g-----------------~gi~~l~~~l~~~i~  187 (200)
T 2o52_A          161 ELMFLETSALTG-----------------ENVEEAFLKCARTIL  187 (200)
T ss_dssp             TCEEEEECTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            567899999999                 899999999876653

>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=98.56  E-value=4.7e-08  Score=70.53  Aligned_cols=98  Identities=10%  Similarity=0.020  Sum_probs=57.5

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      .++...+..+|++|+|+|++++.+... ..+...+..   ..+.|+++|+||+|+.+..  .... +....+...    .
T Consensus        85 ~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--~v~~-~~~~~~~~~----~  157 (189)
T 1z06_A           85 SMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAI--QVPT-DLAQKFADT----H  157 (189)
T ss_dssp             TTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGC--CSCH-HHHHHHHHH----T
T ss_pred             hhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc--eeCH-HHHHHHHHH----c
Confidence            455677889999999999987532111 112222211   1478999999999996531  0010 112222222    3


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +.+++.+||+++.              ...|++++.+.|.+.+
T Consensus       158 ~~~~~~~Sa~~~~--------------~~~~i~~l~~~l~~~i  186 (189)
T 1z06_A          158 SMPLFETSAKNPN--------------DNDHVEAIFMTLAHKL  186 (189)
T ss_dssp             TCCEEECCSSSGG--------------GGSCHHHHHHHHC---
T ss_pred             CCEEEEEeCCcCC--------------cccCHHHHHHHHHHHH
Confidence            5678999998761              1157888888876544

>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=98.55  E-value=7.1e-08  Score=71.42  Aligned_cols=99  Identities=10%  Similarity=-0.032  Sum_probs=63.4

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcc----------cccccHHHHHHH
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTK----------IQSGSMAQIFQT   82 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~----------~~~~~~~~~~~~   82 (161)
                      .++...+..+|++|+|+|++++.+-.+  ..+...+... .+.|+++|.||+|+.+..          .+.... +....
T Consensus        90 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~-~~~~~  168 (214)
T 3q3j_B           90 NVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISY-EQGCA  168 (214)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCH-HHHHH
T ss_pred             HHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccchhhhhhhcccccCccCH-HHHHH
Confidence            344567889999999999987643221  2233333321 378999999999996520          000011 22233


Q ss_pred             HhhhhccCCCC-ceeEEeecCCCCcchhhhhhhhccccccC-HHHHHHHHHhHhhc
Q psy8220          83 WIPYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVG-AELLMLLLGNYTRN  136 (161)
Q Consensus        83 ~~~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g-~~~L~~~l~~~~~~  136 (161)
                      +...+    +. +.+.+||+++                 .| +++|.+.|.+.+..
T Consensus       169 ~~~~~----~~~~~~e~SA~~g-----------------~g~v~~lf~~l~~~~~~  203 (214)
T 3q3j_B          169 IAKQL----GAEIYLEGSAFTS-----------------EKSIHSIFRTASMLCLN  203 (214)
T ss_dssp             HHHHH----TCSEEEECCTTTC-----------------HHHHHHHHHHHHHHHHC
T ss_pred             HHHHc----CCCEEEEeccCCC-----------------cccHHHHHHHHHHHHhc
Confidence            33332    45 7889999998                 88 99999999877654

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=98.54  E-value=1.2e-07  Score=82.80  Aligned_cols=78  Identities=13%  Similarity=0.044  Sum_probs=52.5

Q ss_pred             hhccEEEEEEeCCCCCCCCcH-HHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc-CCCCceeEEee
Q psy8220          23 EAADVILEVVDARDPMGTRCK-VAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI-QSIYSSPRFSS  100 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~~-~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~iSa  100 (161)
                      +++|++|+|+|++.++...+. .+.+.+.. .++|+|+|+||+|++++..   .. ..+.. ...+.. ....+++++||
T Consensus       186 ~~aDlIL~VVDAs~~~~~~d~l~ll~~L~~-~g~pvIlVlNKiDlv~~~~---~~-~~il~-~~~~~l~lg~~~VV~iSA  259 (772)
T 3zvr_A          186 KENCLILAVSPANSDLANSDALKIAKEVDP-QGQRTIGVITKLDLMDEGT---DA-RDVLE-NKLLPLRRGYIGVVNRSQ  259 (772)
T ss_dssp             STTEEEEEEEETTSCSSSCHHHHHHHHHCT-TCSSEEEEEECTTSSCTTC---CS-HHHHT-TCSSCCSSCEEECCCCCC
T ss_pred             cCCcEEEEEEcCCCCcchhHHHHHHHHHHh-cCCCEEEEEeCcccCCcch---hh-HHHHH-HHhhhhhccCCceEEecc
Confidence            689999999999998877776 67777765 6899999999999986520   00 11111 111110 01246889999


Q ss_pred             cCCCCc
Q psy8220         101 RSQKDA  106 (161)
Q Consensus       101 ~~~~~~  106 (161)
                      +++.+.
T Consensus       260 ~~G~Gv  265 (772)
T 3zvr_A          260 KDIDGK  265 (772)
T ss_dssp             EESSSS
T ss_pred             cccccc
Confidence            998443

>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=98.54  E-value=3.7e-08  Score=70.31  Aligned_cols=99  Identities=12%  Similarity=-0.088  Sum_probs=62.1

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCcH--HHHHHHhCC-CCCcEEEEeecCCCCCccc----------ccccHHHHHHH
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRCK--VAEDLVVGT-PGKKLVIVINKAGKPSTKI----------QSGSMAQIFQT   82 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~~--~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~----------~~~~~~~~~~~   82 (161)
                      .++...+..+|++++|+|++++.+-.+.  .+...+... .+.|+++|+||+|+.+...          +.... +....
T Consensus        68 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~-~~~~~  146 (186)
T 1mh1_A           68 RLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITY-PQGLA  146 (186)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCH-HHHHH
T ss_pred             HHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCCCCCEEEEeEcccccccchhhhhhcccccccCCH-HHHHH
Confidence            3435577899999999999875332111  233333321 3789999999999976410          00000 01111


Q ss_pred             HhhhhccCCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          83 WIPYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        83 ~~~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +...    .+. +++.+||+++                 .|+++|.+.|.+.+..
T Consensus       147 ~~~~----~~~~~~~~~Sa~~g-----------------~gi~~l~~~l~~~~~~  180 (186)
T 1mh1_A          147 MAKE----IGAVKYLECSALTQ-----------------RGLKTVFDEAIRAVLC  180 (186)
T ss_dssp             HHHH----TTCSEEEECCTTTC-----------------TTHHHHHHHHHHHHSC
T ss_pred             HHHh----cCCcEEEEecCCCc-----------------cCHHHHHHHHHHHHhc
Confidence            1111    233 7899999999                 9999999999887754

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=98.53  E-value=9.3e-09  Score=75.04  Aligned_cols=94  Identities=14%  Similarity=0.035  Sum_probs=52.8

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      ...+..+|++++|+|++++..-.. ..+...+...  .+.|+++|+||+|+.+......   +....+...    .+.++
T Consensus       100 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~---~~~~~~~~~----~~~~~  172 (199)
T 3l0i_B          100 SSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDY---TTAKEFADS----LGIPF  172 (199)
T ss_dssp             CC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCS---CC-CHHHHT----TTCCB
T ss_pred             HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCH---HHHHHHHHH----cCCeE
Confidence            446788999999999987643111 2233334332  3689999999999975410000   001111111    35678


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +.+||+++                 .|+++|.+.|.+.+..
T Consensus       173 ~~vSA~~g-----------------~gv~~l~~~l~~~l~~  196 (199)
T 3l0i_B          173 LETSAKNA-----------------TNVEQSFMTMAAEIKK  196 (199)
T ss_dssp             CCCCC--------------------HHHHHHHHHHTTTTTT
T ss_pred             EEEECCCC-----------------CCHHHHHHHHHHHHHH
Confidence            89999998                 9999999998776543

>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=98.52  E-value=2.2e-07  Score=76.25  Aligned_cols=92  Identities=16%  Similarity=0.186  Sum_probs=54.3

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCC-CcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      |.|..  |...+ ...+..+|++|+|+|++++...+..+....+.. .+ +|+++|+||+|+.+..  ..........+.
T Consensus       112 pGh~~--f~~~~-~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~~~~-~~~~~iIvviNK~Dl~~~~--~~~~~~i~~~~~  185 (434)
T 1zun_B          112 PGHEQ--YTRNM-ATGASTCDLAIILVDARYGVQTQTRRHSYIASL-LGIKHIVVAINKMDLNGFD--ERVFESIKADYL  185 (434)
T ss_dssp             CCSGG--GHHHH-HHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHH-TTCCEEEEEEECTTTTTSC--HHHHHHHHHHHH
T ss_pred             CChHH--HHHHH-HHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHH-cCCCeEEEEEEcCcCCccc--HHHHHHHHHHHH
Confidence            55543  33344 567899999999999998865444444443433 34 4699999999998631  000111112222


Q ss_pred             hhhccCC----CCceeEEeecCC
Q psy8220          85 PYNSIQS----IYSSPRFSSRSQ  103 (161)
Q Consensus        85 ~~~~~~~----~~~~i~iSa~~~  103 (161)
                      ..+....    ..+++++||+++
T Consensus       186 ~~~~~~g~~~~~~~~i~vSA~~g  208 (434)
T 1zun_B          186 KFAEGIAFKPTTMAFVPMSALKG  208 (434)
T ss_dssp             HHHHTTTCCCSEEEEEECCTTTC
T ss_pred             HHHHHhCCCccCceEEEEeccCC
Confidence            2222111    246889999998

>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=98.52  E-value=2e-07  Score=79.54  Aligned_cols=48  Identities=17%  Similarity=0.165  Sum_probs=38.7

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCC
Q psy8220          20 SVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPS   68 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~   68 (161)
                      ..+..+|++|+|+|++++...+..+...++.. .+.|+++|+||+|+.+
T Consensus        89 r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l~~-~~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           89 RGGALADLAILIVDINEGFKPQTQEALNILRM-YRTPFVVAANKIDRIH  136 (594)
T ss_dssp             SSSBSCSEEEEEEETTTCCCHHHHHHHHHHHH-TTCCEEEEEECGGGST
T ss_pred             HHHhhCCEEEEEEECCCCccHhHHHHHHHHHH-cCCeEEEEeccccccc
Confidence            45678999999999999876555555666655 6899999999999974

>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=97.92  E-value=1.1e-08  Score=74.82  Aligned_cols=102  Identities=12%  Similarity=-0.019  Sum_probs=60.0

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcH--HHHHHHhCC-CCCcEEEEeecCCCCCcccccccHH------HHHHHHh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCK--VAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMA------QIFQTWI   84 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~--~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~------~~~~~~~   84 (161)
                      +..++...+..+|++++|+|++++..-.+.  .+...+... .+.|+++|+||+|+.+.........      .......
T Consensus        91 ~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~  170 (204)
T 3th5_A           91 YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGL  170 (204)
Confidence            334445677899999999999876543221  233333321 2689999999999975410000000      0000111


Q ss_pred             hhhccCCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          85 PYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        85 ~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                       .+....+. +++.+||+++                 .|+++|.+.|.+.
T Consensus       171 -~~~~~~~~~~~~~vSA~~g-----------------~gi~~l~~~l~~~  202 (204)
T 3th5_A          171 -AMAKEIGAVKYLECSALTQ-----------------RGLKTVFDEAIRA  202 (204)
Confidence             11111233 6788999998                 8999998887653

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=98.52  E-value=8.6e-08  Score=69.68  Aligned_cols=97  Identities=8%  Similarity=-0.085  Sum_probs=60.3

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCCcH--HHHHHHhCC-CCCcEEEEeecCCCCCccc----------ccccHHHHHHHHh
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTRCK--VAEDLVVGT-PGKKLVIVINKAGKPSTKI----------QSGSMAQIFQTWI   84 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~~~--~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~----------~~~~~~~~~~~~~   84 (161)
                      +...+..+|++++|+|++++.+-.+.  .+...+... .+.|+++|.||+|+.+...          +.... +....+.
T Consensus        85 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~-~~~~~~~  163 (201)
T 2q3h_A           85 RPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLREDVKVLIELDKCKEKPVPE-EAAKLLA  163 (201)
T ss_dssp             GGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCH-HHHHHHH
T ss_pred             hHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhchhhhhhhcccccccCCH-HHHHHHH
Confidence            34567899999999999876432211  233323221 3789999999999975310          00000 1122222


Q ss_pred             hhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          85 PYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        85 ~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ..+.   ..+++.+||+++                 .|+++|.+.|.+.+.
T Consensus       164 ~~~~---~~~~~~~Sa~~g-----------------~gi~~l~~~l~~~~~  194 (201)
T 2q3h_A          164 EEIK---AASYIECSALTQ-----------------KNLKEVFDAAIVAGI  194 (201)
T ss_dssp             HHHT---CSEEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             HhcC---CcEEEEEecCCC-----------------CCHHHHHHHHHHHHh
Confidence            2221   237889999999                 999999999877653

>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=98.51  E-value=9.3e-08  Score=69.84  Aligned_cols=97  Identities=12%  Similarity=0.027  Sum_probs=60.2

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccc----------cccHHHHHHH
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQ----------SGSMAQIFQT   82 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~----------~~~~~~~~~~   82 (161)
                      .++...+..+|++++|+|++++.+-..  ..+...+... .+.|+++|+||+|+.+....          .... +....
T Consensus        88 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~-~~~~~  166 (201)
T 2gco_A           88 RLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRS-EEGRD  166 (201)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCH-HHHHH
T ss_pred             HHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhhcCccchhhhcccccCcCCH-HHHHH
Confidence            344557889999999999987532111  2233333321 37999999999999765100          0000 01111


Q ss_pred             HhhhhccCCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          83 WIPYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        83 ~~~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +...    .+. +++.+||+++                 .|+++|.+.|.+.+
T Consensus       167 ~~~~----~~~~~~~~~SA~~g-----------------~gi~~l~~~i~~~~  198 (201)
T 2gco_A          167 MANR----ISAFGYLECSAKTK-----------------EGVREVFEMATRAG  198 (201)
T ss_dssp             HHHH----TTCSEEEECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             HHHh----CCCcEEEEeeCCCC-----------------CCHHHHHHHHHHHH
Confidence            1111    133 6789999999                 99999999987754

>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=98.51  E-value=2e-07  Score=68.03  Aligned_cols=94  Identities=14%  Similarity=0.017  Sum_probs=60.4

Q ss_pred             HHHhhhccEEEEEEeCCCCCCC--CcHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGT--RCKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~--~~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+..+|++|+|+|++++.+-  ....+.......  .+.|+++|.||+|+.+..  .... +....+...    .+.+
T Consensus        91 ~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--~v~~-~~~~~~a~~----~~~~  163 (195)
T 3cbq_A           91 DHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSR--EVSL-EEGRHLAGT----LSCK  163 (195)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTC--CSCH-HHHHHHHHH----TTCE
T ss_pred             HHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccC--CcCH-HHHHHHHHH----hCCE
Confidence            3456789999999999875321  112222222111  368999999999997531  1111 122223222    2467


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+||+++                 .|++++.+.|.+.+..
T Consensus       164 ~~e~Sa~~~-----------------~~v~~lf~~l~~~i~~  188 (195)
T 3cbq_A          164 HIETSAALH-----------------HNTRELFEGAVRQIRL  188 (195)
T ss_dssp             EEEEBTTTT-----------------BSHHHHHHHHHHHHHT
T ss_pred             EEEEcCCCC-----------------CCHHHHHHHHHHHHHH
Confidence            899999999                 9999999999877654

>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=98.49  E-value=2.7e-08  Score=76.53  Aligned_cols=88  Identities=19%  Similarity=0.130  Sum_probs=58.8

Q ss_pred             hhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCC-CcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEee
Q psy8220          22 VEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSS  100 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa  100 (161)
                      ...+|++++|+|++.+.  ....+...+.+ .+ .|+++|+||+|+.+..  ...  .....+.+.    .+.|++++||
T Consensus        79 ~~~~d~vi~v~D~~~~~--~~~~~~~~~~~-~~~~p~ilv~NK~Dl~~~~--~~~--~~~~~l~~~----lg~~~~~~Sa  147 (271)
T 3k53_A           79 DGNADVIVDIVDSTCLM--RNLFLTLELFE-MEVKNIILVLNKFDLLKKK--GAK--IDIKKMRKE----LGVPVIPTNA  147 (271)
T ss_dssp             TTCCSEEEEEEEGGGHH--HHHHHHHHHHH-TTCCSEEEEEECHHHHHHH--TCC--CCHHHHHHH----HSSCEEECBG
T ss_pred             ccCCcEEEEEecCCcch--hhHHHHHHHHh-cCCCCEEEEEEChhcCccc--ccH--HHHHHHHHH----cCCcEEEEEe
Confidence            47899999999998752  22333333333 45 9999999999986431  000  001222222    2578999999


Q ss_pred             cCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220         101 RSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      +++                 .|+++|.+.|.+.+...
T Consensus       148 ~~g-----------------~gi~~l~~~i~~~~~~~  167 (271)
T 3k53_A          148 KKG-----------------EGVEELKRMIALMAEGK  167 (271)
T ss_dssp             GGT-----------------BTHHHHHHHHHHHHHTC
T ss_pred             CCC-----------------CCHHHHHHHHHHHHhcc
Confidence            999                 89999999988876543

>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=98.48  E-value=5.7e-07  Score=72.37  Aligned_cols=104  Identities=13%  Similarity=0.091  Sum_probs=63.3

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcH---HHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCK---VAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~---~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~   86 (161)
                      +.++.. .+.+..||++++|+|++++......   .+.+.+...  .+.|+|+|+||+|+.+..  ..........+...
T Consensus       246 e~f~~t-l~~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~--~~~~~~~~~~l~~~  322 (364)
T 2qtf_A          246 DAFFVT-LSEAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGD--LYKKLDLVEKLSKE  322 (364)
T ss_dssp             HHHHHH-HHGGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSC--HHHHHHHHHHHHHH
T ss_pred             HHHHHH-HHHHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCch--HHHHHHHHHHHHHH
Confidence            334445 4678999999999999876411111   122222211  468999999999997651  00000011112222


Q ss_pred             hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          87 NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +. ....+++++||+++                 .|+++|.+.|.+.+..
T Consensus       323 l~-~~~~~~~~~SA~~g-----------------~gi~~L~~~I~~~l~~  354 (364)
T 2qtf_A          323 LY-SPIFDVIPISALKR-----------------TNLELLRDKIYQLATQ  354 (364)
T ss_dssp             HC-SCEEEEEECBTTTT-----------------BSHHHHHHHHHHHHHH
T ss_pred             hc-CCCCcEEEEECCCC-----------------cCHHHHHHHHHHHhcc
Confidence            21 01235789999999                 9999999999887754

>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=98.48  E-value=8.9e-08  Score=76.63  Aligned_cols=90  Identities=14%  Similarity=-0.006  Sum_probs=55.9

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc------CCCC
Q psy8220          20 SVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI------QSIY   93 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~------~~~~   93 (161)
                      ..+..+|++|+|+|+......  ..+...+   .+.|.++|+||+|+.+..    ........+...+..      ....
T Consensus       188 ~~~~~aD~vl~V~d~~~~~~~--~~l~~~~---~~~p~ivVlNK~Dl~~~~----~~~~~~~~l~~~l~~~~~~~~~~~~  258 (355)
T 3p32_A          188 AVANMVDTFVLLTLARTGDQL--QGIKKGV---LELADIVVVNKADGEHHK----EARLAARELSAAIRLIYPREALWRP  258 (355)
T ss_dssp             HHHTTCSEEEEEEESSTTCTT--TTCCTTS---GGGCSEEEEECCCGGGHH----HHHHHHHHHHHHHHHHSTTCCSCCC
T ss_pred             HHHHhCCEEEEEECCCCCccH--HHHHHhH---hhcCCEEEEECCCCcChh----HHHHHHHHHHHHHhhccccccCCCC
Confidence            445899999999997654221  1111111   247999999999987541    000111112222110      0135


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      |++++||+++                 .|+++|.+.|.++++
T Consensus       259 ~vi~iSA~~g-----------------~Gi~~L~~~i~~~~~  283 (355)
T 3p32_A          259 PVLTMSAVEG-----------------RGLAELWDTVERHRQ  283 (355)
T ss_dssp             CEEEEBGGGT-----------------BSHHHHHHHHHHHHH
T ss_pred             ceEEEEcCCC-----------------CCHHHHHHHHHHHHH
Confidence            7999999999                 899999999988764

>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=98.48  E-value=2.2e-07  Score=77.19  Aligned_cols=94  Identities=16%  Similarity=0.088  Sum_probs=51.4

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCC-------CCcHHHHHHHhCCCC-CcEEEEeecCCCCCcc-cccccH
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMG-------TRCKVAEDLVVGTPG-KKLVIVINKAGKPSTK-IQSGSM   76 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~-------~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~~~~-~~~~~~   76 (161)
                      |.|..  |.... ...+..||++|+|+|++++..       .+..+....+.. .+ +|+|+|+||+|+.+.. .+....
T Consensus       119 PG~~~--f~~~~-~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~-~~~~~iIvviNK~Dl~~~~~~~~~~i  194 (483)
T 3p26_A          119 PGHRD--FVPNA-IMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS-LGIHNLIIAMNKMDNVDWSQQRFEEI  194 (483)
T ss_dssp             CCCGG--GHHHH-HHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHH-TTCCCEEEEEECGGGGTTCHHHHHHH
T ss_pred             CCcHH--HHHHH-HHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHH-cCCCcEEEEEECcCcccchHHHHHHH
Confidence            55532  34444 678899999999999988632       223333333333 33 6799999999998631 000001


Q ss_pred             HHHHHHHhhhhcc-CCCCceeEEeecCC
Q psy8220          77 AQIFQTWIPYNSI-QSIYSSPRFSSRSQ  103 (161)
Q Consensus        77 ~~~~~~~~~~~~~-~~~~~~i~iSa~~~  103 (161)
                      .+.+..+...+.. ....+++++||+++
T Consensus       195 ~~~~~~~l~~~g~~~~~~~~i~iSA~~g  222 (483)
T 3p26_A          195 KSKLLPYLVDIGFFEDNINWVPISGFSG  222 (483)
T ss_dssp             HHHHHHHHHHHTCCGGGEEEEECCSSSC
T ss_pred             HHHHHHHHHHcCCCcccceEEEEeeecC
Confidence            1111222221110 01346899999998

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=98.48  E-value=4.4e-08  Score=71.91  Aligned_cols=99  Identities=11%  Similarity=-0.064  Sum_probs=61.1

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccc------cccHHHHHHHHhhhh
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQ------SGSMAQIFQTWIPYN   87 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~------~~~~~~~~~~~~~~~   87 (161)
                      ++...+..+|++++|+|++++.+-..  ..+...+... .+.|+++|.||+|+.+....      ... .+....+...+
T Consensus        73 ~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~v~-~~~~~~~~~~~  151 (212)
T 2j0v_A           73 LRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLDLRDDKGYLADHTNVIT-STQGEELRKQI  151 (212)
T ss_dssp             --CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCHHHHHTCSSCCC-HHHHHHHHHHH
T ss_pred             HHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeCHHhhhCccccccccCCCC-HHHHHHHHHHc
Confidence            33457889999999999987643211  1233333321 37899999999998654100      000 01122222222


Q ss_pred             ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          88 SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .   ..+++.+||+++                 .|+++|.+.|.+.+..
T Consensus       152 ~---~~~~~~~Sa~~g-----------------~gi~~l~~~l~~~~~~  180 (212)
T 2j0v_A          152 G---AAAYIECSSKTQ-----------------QNVKAVFDTAIKVVLQ  180 (212)
T ss_dssp             T---CSEEEECCTTTC-----------------TTHHHHHHHHHHHHHC
T ss_pred             C---CceEEEccCCCC-----------------CCHHHHHHHHHHHHhh
Confidence            1   237899999999                 9999999999877643

>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=98.47  E-value=1.2e-06  Score=62.68  Aligned_cols=90  Identities=13%  Similarity=0.011  Sum_probs=58.2

Q ss_pred             hhhccEEEEEEeCCCCCC-----------CCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          22 VEAADVILEVVDARDPMG-----------TRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~-----------~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ...++++++|+|+.....           ..+..+...+.. .+.|+++|+||+|+.+..      .+....+...+.  
T Consensus        80 ~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~------~~~~~~~~~~~~--  150 (190)
T 2cxx_A           80 AKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE-LDIPTIVAVNKLDKIKNV------QEVINFLAEKFE--  150 (190)
T ss_dssp             GGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH-TTCCEEEEEECGGGCSCH------HHHHHHHHHHHT--
T ss_pred             hccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHh-cCCceEEEeehHhccCcH------HHHHHHHHHHhh--
Confidence            556789999999754211           111223333433 579999999999998751      122344444433  


Q ss_pred             CC-----CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          91 SI-----YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        91 ~~-----~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      ..     .+++.+||+++                 .|+++|.+.|.+.+...
T Consensus       151 ~~~~~~~~~~~~~Sa~~~-----------------~~v~~l~~~l~~~~~~~  185 (190)
T 2cxx_A          151 VPLSEIDKVFIPISAKFG-----------------DNIERLKNRIFEVIRER  185 (190)
T ss_dssp             CCGGGHHHHEEECCTTTC-----------------TTHHHHHHHHHHHHHHC
T ss_pred             hhhhccCCcEEEEecCCC-----------------CCHHHHHHHHHHhcchh
Confidence            11     14689999999                 99999999998877543

>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=98.46  E-value=1.5e-07  Score=69.03  Aligned_cols=98  Identities=13%  Similarity=0.018  Sum_probs=60.4

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccc----------cccHHHHHHHH
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQ----------SGSMAQIFQTW   83 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~----------~~~~~~~~~~~   83 (161)
                      ++...+..+|++++|+|++++.+-..  ..+...+... .+.|+++|+||+|+.+....          .... +....+
T Consensus        89 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~-~~~~~~  167 (207)
T 2fv8_A           89 LRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRT-DDGRAM  167 (207)
T ss_dssp             TGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCH-HHHHHH
T ss_pred             HHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhhccccchhhhhhcccCCCCH-HHHHHH
Confidence            33456789999999999987532111  2233333321 37999999999999764100          0000 001111


Q ss_pred             hhhhccCCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          84 IPYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        84 ~~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ...    .+. +++.+||+++                 .|+++|.+.|.+.+..
T Consensus       168 ~~~----~~~~~~~~~SA~~g-----------------~gi~el~~~l~~~i~~  200 (207)
T 2fv8_A          168 AVR----IQAYDYLECSAKTK-----------------EGVREVFETATRAALQ  200 (207)
T ss_dssp             HHH----TTCSEEEECCTTTC-----------------TTHHHHHHHHHHHHHS
T ss_pred             HHh----cCCCEEEEeeCCCC-----------------CCHHHHHHHHHHHHHH
Confidence            111    123 6789999999                 9999999999877643

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=98.46  E-value=4.8e-08  Score=72.59  Aligned_cols=96  Identities=11%  Similarity=-0.055  Sum_probs=59.0

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ++...+..+|++|+|+|++++....+ ..+...+...  .+.|+++|+||+|+.+..  .... +....+...    .+.
T Consensus        78 ~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~--~v~~-~~~~~~~~~----~~~  150 (223)
T 3cpj_B           78 ITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLR--AVPT-EESKTFAQE----NQL  150 (223)
T ss_dssp             CCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGC--CSCH-HHHHHHHHH----TTC
T ss_pred             hHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc--ccCH-HHHHHHHHH----cCC
Confidence            34567789999999999987643211 1122222211  368999999999996531  1111 122223222    356


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +++.+||+++                 .|+++|.+.|.+.+..
T Consensus       151 ~~~~~Sa~~~-----------------~gi~~l~~~l~~~i~~  176 (223)
T 3cpj_B          151 LFTETSALNS-----------------ENVDKAFEELINTIYQ  176 (223)
T ss_dssp             EEEECCCC-C-----------------CCHHHHHHHHHHHHTT
T ss_pred             EEEEEeCCCC-----------------CCHHHHHHHHHHHHHH
Confidence            7889999998                 9999999999877653

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=98.45  E-value=1.7e-07  Score=72.47  Aligned_cols=115  Identities=10%  Similarity=0.031  Sum_probs=71.1

Q ss_pred             HHHHHHHHHhhhccEEE-EEEeCCCCCCCCcH-HHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          13 VVQEIERSVVEAADVIL-EVVDARDPMGTRCK-VAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL-~VvD~~~~~~~~~~-~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .+..++...+..+|.++ +|+|++.+....+. .+.+.+.. .+.|+++|+||+|+.+..  . ..   .......+...
T Consensus       150 ~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~~-~~~~~i~V~NK~Dl~~~~--~-~~---~~~~~~~~~~~  222 (299)
T 2aka_B          150 QIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP-QGQRTIGVITKLDLMDEG--T-DA---RDVLENKLLPL  222 (299)
T ss_dssp             HHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCT-TCSSEEEEEECGGGSCTT--C-CC---HHHHTTCSSCC
T ss_pred             HHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhCC-CCCeEEEEEEccccCCCC--c-hH---HHHHhCCcCcC
Confidence            45666677888887555 89999887665553 45665654 579999999999998651  0 00   11111111100


Q ss_pred             -CC-CceeEEeecCCCCcchhh------------hhhhhccccccCHHHHHHHHHhHh
Q psy8220          91 -SI-YSSPRFSSRSQKDAQTER------------DLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        91 -~~-~~~i~iSa~~~~~~~~~~------------~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       .+ .+++.+||+++.+....+            ...+.....+.|+..|.+.|.+.+
T Consensus       223 ~~~~~~v~~~SA~~~~gi~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~l~~~l~~~l  280 (299)
T 2aka_B          223 RRGYIGVVNRSQKDIDGKKDITAALAAERKFFLSHPSYRHLADRMGTPYLQKVLNQQL  280 (299)
T ss_dssp             TTCEEECCCCCCBCTTSCBCHHHHHHHHHHHHHHCTTTGGGGGGCSHHHHHHHHHHHH
T ss_pred             CCCcEEEECCChhhccccccHHHHHHHHHHHHhcCCccccchhhhCHHHHHHHHHHHH
Confidence             12 357889999986554332            133444566778888887777654

>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=98.44  E-value=5.6e-08  Score=71.98  Aligned_cols=92  Identities=14%  Similarity=0.058  Sum_probs=59.8

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      ...+..+|++++|+|++++.+... ..+...+... .+.|+++|+||+|+.+...        ......... ..+.+++
T Consensus        82 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~--------~~~~~~~~~-~~~~~~~  152 (221)
T 3gj0_A           82 DGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKV--------KAKSIVFHR-KKNLQYY  152 (221)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSTTCCEEEEEECTTSSSCSS--------CGGGCCHHH-HHTCEEE
T ss_pred             HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCccccccc--------cHHHHHHHH-HcCCEEE
Confidence            456778999999999987543211 1222222211 3789999999999976410        011111111 1256789


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+||+++                 .|+++|.+.|.+.+..
T Consensus       153 ~~Sa~~~-----------------~gi~~l~~~l~~~l~~  175 (221)
T 3gj0_A          153 DISAKSN-----------------YNFEKPFLWLARKLIG  175 (221)
T ss_dssp             ECBGGGT-----------------BTTTHHHHHHHHHHHT
T ss_pred             EEeCCCC-----------------CCHHHHHHHHHHHHHh
Confidence            9999998                 8999999999887654

>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=98.44  E-value=2.3e-07  Score=67.45  Aligned_cols=50  Identities=18%  Similarity=0.211  Sum_probs=34.9

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCcHHHHHHHhC----CCCCcEEEEeecCCCCCc
Q psy8220          20 SVVEAADVILEVVDARDPMGTRCKVAEDLVVG----TPGKKLVIVINKAGKPST   69 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~----~~~k~~ilVlNK~Dl~~~   69 (161)
                      ..+..+|++|+|+|++++.......+..++..    ..+.|+++|.||+|+.+.
T Consensus        91 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~piilv~nK~Dl~~~  144 (196)
T 3llu_A           91 MIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSD  144 (196)
T ss_dssp             HHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCH
T ss_pred             cccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCcEEEEEeccccCch
Confidence            56678999999999988632222333333322    147899999999999864

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=98.43  E-value=3.2e-07  Score=79.55  Aligned_cols=54  Identities=19%  Similarity=0.238  Sum_probs=40.1

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCcHHHH-HHHhCCCCCcEEEEeecCCCCCc
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRCKVAE-DLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~-~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      .+.+...+..||++|+|+|++.+.+..+.... +.+.. .+.|+++|+||+|+...
T Consensus       191 ~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~-~~~~iiiVlNK~Dl~~~  245 (695)
T 2j69_A          191 NELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKG-RGLTVFFLVNAWDQVRE  245 (695)
T ss_dssp             HHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTT-SCCCEEEEEECGGGGGG
T ss_pred             HHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHh-hCCCEEEEEECcccccc
Confidence            44556788999999999999888765444332 34443 47899999999998654

>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=98.43  E-value=4.7e-07  Score=65.12  Aligned_cols=101  Identities=9%  Similarity=-0.055  Sum_probs=60.6

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      ..++...+..+|++++|.|.+++..+.+  ..+...+... .+.|+++|.||+|+.+..    ............+....
T Consensus        70 ~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~  145 (184)
T 2zej_A           70 YSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVILVGTHLDVSDEK----QRKACMSKITKELLNKR  145 (184)
T ss_dssp             HTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHCTTCEEEEEEECGGGCCHH----HHHHHHHHHHHHTTTCT
T ss_pred             HHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhCCCCcEEEEEECCCcccch----hhHHHHHHHHHHHHHhc
Confidence            3343456778999999999987632211  1222222211 368999999999997641    00000111222232222


Q ss_pred             CCc----eeEEeecCCCCcchhhhhhhhcccccc-CHHHHHHHHHhHhhc
Q psy8220          92 IYS----SPRFSSRSQKDAQTERDLKAINVSSCV-GAELLMLLLGNYTRN  136 (161)
Q Consensus        92 ~~~----~i~iSa~~~~~~~~~~~~~~~~~~~~~-g~~~L~~~l~~~~~~  136 (161)
                      +.+    .+.+||+++                 . |+++|.+.|.+.+..
T Consensus       146 ~~~~~~~~~~~Sa~~~-----------------~~~~~~l~~~i~~~~~~  178 (184)
T 2zej_A          146 GFPAIRDYHFVNATEE-----------------SDALAKLRKTIINESLN  178 (184)
T ss_dssp             TSCEEEEEEECCTTSC-----------------CHHHHHHHHHHHHHHHC
T ss_pred             CCcchhheEEEecccC-----------------chhHHHHHHHHHHHHhc
Confidence            444    788999988                 6 899999999877764

>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=98.42  E-value=1.6e-08  Score=78.32  Aligned_cols=85  Identities=19%  Similarity=0.104  Sum_probs=57.0

Q ss_pred             hhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecC
Q psy8220          23 EAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRS  102 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~  102 (161)
                      ..+|++++|+|++...  ....+...+.+ .+.|+++|+||+|+....  ...  .....+...+    +.|++++||++
T Consensus        79 ~~~d~vi~V~D~t~~e--~~~~~~~~l~~-~~~p~ilv~NK~Dl~~~~--~~~--~~~~~l~~~l----g~~vi~~SA~~  147 (272)
T 3b1v_A           79 QRADSILNVVDATNLE--RNLYLTTQLIE-TGIPVTIALNMIDVLDGQ--GKK--INVDKLSYHL----GVPVVATSALK  147 (272)
T ss_dssp             TCCSEEEEEEEGGGHH--HHHHHHHHHHH-TCSCEEEEEECHHHHHHT--TCC--CCHHHHHHHH----TSCEEECBTTT
T ss_pred             CCCCEEEEEecCCchH--hHHHHHHHHHh-cCCCEEEEEEChhhCCcC--CcH--HHHHHHHHHc----CCCEEEEEccC
Confidence            4799999999997631  22333344444 589999999999985431  000  0112222332    57899999999


Q ss_pred             CCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220         103 QKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +                 .|+++|.+.|.+.+.
T Consensus       148 g-----------------~gi~el~~~i~~~~~  163 (272)
T 3b1v_A          148 Q-----------------TGVDQVVKKAAHTTT  163 (272)
T ss_dssp             T-----------------BSHHHHHHHHHHSCT
T ss_pred             C-----------------CCHHHHHHHHHHHHh
Confidence            9                 899999988877654

>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=98.41  E-value=1.5e-07  Score=67.64  Aligned_cols=97  Identities=12%  Similarity=0.006  Sum_probs=59.0

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCccc----------ccccHHHHHHHH
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKI----------QSGSMAQIFQTW   83 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~----------~~~~~~~~~~~~   83 (161)
                      ++...+..+|++++|+|++++.+-..  ..+...+... .+.|+++|.||+|+.+...          +.... +....+
T Consensus        71 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~-~~~~~~  149 (184)
T 1m7b_A           71 VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSY-DQGANM  149 (184)
T ss_dssp             TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCH-HHHHHH
T ss_pred             hHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEcchhhcchhhHhhhhhcccCCCCH-HHHHHH
Confidence            33456789999999999987533211  1222223221 3689999999999974200          00000 112223


Q ss_pred             hhhhccCCCCceeEEeec-CCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          84 IPYNSIQSIYSSPRFSSR-SQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        84 ~~~~~~~~~~~~i~iSa~-~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ...+.   ..+.+.+||+ ++                 .|+++|.+.|.+.+
T Consensus       150 ~~~~~---~~~~~e~Sa~~~~-----------------~gi~~l~~~i~~~~  181 (184)
T 1m7b_A          150 AKQIG---AATYIECSALQSE-----------------NSVRDIFHVATLAC  181 (184)
T ss_dssp             HHHHT---CSEEEECBTTTBH-----------------HHHHHHHHHHHHHH
T ss_pred             HHHcC---CcEEEEeeecCCC-----------------cCHHHHHHHHHHHH
Confidence            22221   3578899998 56                 79999999887765

>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=98.40  E-value=1.3e-06  Score=75.64  Aligned_cols=50  Identities=12%  Similarity=0.058  Sum_probs=40.7

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      ...+..+|.+|+|+|+.++...+...+...+.. .+.|+++|+||+|+...
T Consensus        95 ~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~~~-~~~p~ivviNKiD~~~~  144 (691)
T 1dar_A           95 ERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEK-YKVPRIAFANKMDKTGA  144 (691)
T ss_dssp             HHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHH-TTCCEEEEEECTTSTTC
T ss_pred             HHHHHHCCEEEEEEECCCCcchhhHHHHHHHHH-cCCCEEEEEECCCcccC
Confidence            678889999999999998876655555555554 58999999999999765

>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=98.39  E-value=1.1e-06  Score=79.71  Aligned_cols=117  Identities=14%  Similarity=0.007  Sum_probs=70.1

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      |.|.  .|...+ ...+..+|++|+|+|++++...+..+....+.. .+.| +|+|+||+|+.+.+.......+.+..+.
T Consensus       367 PGHe--dF~~~m-i~gas~AD~aILVVDAtdGv~~QTrEhL~ll~~-lgIP~IIVVINKiDLv~d~e~le~i~eEi~elL  442 (1289)
T 3avx_A          367 PGHA--DYVKNM-ITGAAQMDGAILVVAATDGPMPQTREHILLGRQ-VGVPYIIVFLNKCDMVDDEELLELVEMEVRELL  442 (1289)
T ss_dssp             CCHH--HHHHHH-HHTSCCCSEEEEEEETTTCSCTTHHHHHHHHHH-HTCSCEEEEEECCTTCCCHHHHHHHHHHHHHHH
T ss_pred             CChH--HHHHHH-HHHHhhCCEEEEEEcCCccCcHHHHHHHHHHHH-cCCCeEEEEEeecccccchhhHHHHHHHHHHHH
Confidence            4543  355555 678899999999999998876666555554543 4678 7899999999863100000001122222


Q ss_pred             hhhcc-CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          85 PYNSI-QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        85 ~~~~~-~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ..+.- ....|++++||+++....   ..      -..|+++|++.|.++++
T Consensus       443 k~~G~~~~~vp~IpvSAktG~ng~---~~------w~eGI~eLleaL~~~Ip  485 (1289)
T 3avx_A          443 SQYDFPGDDTPIVRGSALKALEGD---AE------WEAKILELAGFLDSYIP  485 (1289)
T ss_dssp             HHTTSCTTTCCEEECCSTTTTTCC---HH------HHHHHHHHHHHHHHTSC
T ss_pred             HhccccccceeEEEEEeccCCCCC---cc------ccccchhhHhHHhhhcC
Confidence            22210 013578999999871100   00      01468899999988665

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=98.39  E-value=6.9e-08  Score=69.29  Aligned_cols=87  Identities=17%  Similarity=0.144  Sum_probs=57.9

Q ss_pred             hhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecC
Q psy8220          23 EAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRS  102 (161)
Q Consensus        23 ~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~  102 (161)
                      ..+|++++|+|++..  .....+...+.. .+.|+++|.||+|+.... ...   .....+.+.+    +.+++.+||++
T Consensus        84 ~~~~~~i~v~d~~~~--~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~-~~~---~~~~~~~~~~----~~~~~~~Sa~~  152 (188)
T 2wjg_A           84 EKPDLVVNIVDATAL--ERNLYLTLQLME-MGANLLLALNKMDLAKSL-GIE---IDVDKLEKIL----GVKVVPLSAAK  152 (188)
T ss_dssp             HCCSEEEEEEEGGGH--HHHHHHHHHHHT-TTCCEEEEEECHHHHHHT-TCC---CCHHHHHHHH----TSCEEECBGGG
T ss_pred             cCCCEEEEEecchhH--HHHHHHHHHHHh-cCCCEEEEEEhhhccccc-cch---HHHHHHHHHh----CCCeEEEEecC
Confidence            459999999998752  122233344444 578999999999985421 000   0112222222    46789999999


Q ss_pred             CCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220         103 QKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      +                 .|+++|.+.|.+.+...
T Consensus       153 ~-----------------~~v~~l~~~i~~~~~~~  170 (188)
T 2wjg_A          153 K-----------------MGIEELKKAISIAVKDK  170 (188)
T ss_dssp             T-----------------BSHHHHHHHHHHHHTTC
T ss_pred             C-----------------CCHHHHHHHHHHHHHhc
Confidence            8                 89999999998887654

>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=98.37  E-value=3e-07  Score=76.00  Aligned_cols=96  Identities=10%  Similarity=0.076  Sum_probs=53.3

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCC-------CcHHHHHHHhCCCCCc-EEEEeecCCCCCc-cccccc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGT-------RCKVAEDLVVGTPGKK-LVIVINKAGKPST-KIQSGS   75 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~-------~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~-~~~~~~   75 (161)
                      .|.|..  |...+ ...+..+|++|+|+|++++...       +..+....+.. .+.| +|+|+||+|+.+. +.+...
T Consensus        92 tPGh~~--f~~~~-~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~-~~v~~iivviNK~Dl~~~~~~~~~~  167 (458)
T 1f60_A           92 APGHRD--FIKNM-ITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT-LGVRQLIVAVNKMDSVKWDESRFQE  167 (458)
T ss_dssp             CCCCTT--HHHHH-HHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH-TTCCEEEEEEECGGGGTTCHHHHHH
T ss_pred             CCCcHH--HHHHH-HhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH-cCCCeEEEEEEccccccCCHHHHHH
Confidence            355542  44444 6788999999999999875321       22232333333 3555 8999999999742 100001


Q ss_pred             HHHHHHHHhhhhcc-CCCCceeEEeecCCC
Q psy8220          76 MAQIFQTWIPYNSI-QSIYSSPRFSSRSQK  104 (161)
Q Consensus        76 ~~~~~~~~~~~~~~-~~~~~~i~iSa~~~~  104 (161)
                      ..+.+..+...+.. ....+++++||+++.
T Consensus       168 i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~  197 (458)
T 1f60_A          168 IVKETSNFIKKVGYNPKTVPFVPISGWNGD  197 (458)
T ss_dssp             HHHHHHHHHHHHTCCGGGCCEEECCTTTCB
T ss_pred             HHHHHHHHHHHcCCCccCceEEEeecccCc
Confidence            11112222222210 002578999999983

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=98.36  E-value=1.6e-06  Score=75.16  Aligned_cols=50  Identities=16%  Similarity=0.189  Sum_probs=41.1

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      ..++..+|.+|+|+|+..+....+..+...+.. .+.|+++|+||+|+...
T Consensus        93 ~~~l~~aD~~llVvDa~~g~~~~~~~~~~~~~~-~~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           93 ERSLRVLDGAVTVLDAQSGVEPQTETVWRQATT-YGVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             HHHHHHCSEEEEEEETTTBSCHHHHHHHHHHHH-TTCCEEEEEECTTSTTC
T ss_pred             HHHHHHCCEEEEEECCCCCCcHHHHHHHHHHHH-cCCCEEEEEECCCcccc
Confidence            678889999999999998876666666665655 58999999999999765

>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=98.36  E-value=2.2e-07  Score=68.44  Aligned_cols=97  Identities=12%  Similarity=0.006  Sum_probs=58.8

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCccc----------ccccHHHHHHHH
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKI----------QSGSMAQIFQTW   83 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~----------~~~~~~~~~~~~   83 (161)
                      ++...+..+|++|+|+|++++.+-..  ..+...+... .+.|+++|.||+|+.+...          +.... +....+
T Consensus        92 ~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~-~~~~~~  170 (205)
T 1gwn_A           92 VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSY-DQGANM  170 (205)
T ss_dssp             TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCH-HHHHHH
T ss_pred             HHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEechhhccchhhhhhhcccccCCCCH-HHHHHH
Confidence            33456789999999999987532111  1222323221 3689999999999974200          00000 112222


Q ss_pred             hhhhccCCCCceeEEeec-CCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          84 IPYNSIQSIYSSPRFSSR-SQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        84 ~~~~~~~~~~~~i~iSa~-~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ...+.   ..+++.+||+ ++                 .|++++.+.|.+.+
T Consensus       171 ~~~~~---~~~~~e~SAk~~~-----------------~gv~~lf~~l~~~~  202 (205)
T 1gwn_A          171 AKQIG---AATYIECSALQSE-----------------NSVRDIFHVATLAC  202 (205)
T ss_dssp             HHHHT---CSEEEECCTTTCH-----------------HHHHHHHHHHHHHH
T ss_pred             HHHcC---CCEEEEeeeccCC-----------------cCHHHHHHHHHHHH
Confidence            22221   3568899998 46                 79999999887765

>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=98.34  E-value=3.6e-06  Score=73.03  Aligned_cols=61  Identities=11%  Similarity=0.046  Sum_probs=45.0

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +|.|..  |..+. ..++..+|.+|+|+|++++...+...+...+.. .+.|+++|+||+|+...
T Consensus        89 TPG~~d--f~~~~-~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~~~~-~~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           89 TPGHVD--FTIEV-ERSMRVLDGAVMVYCAVGGVQPQSETVWRQANK-YKVPRIAFVNKMDRMGA  149 (704)
T ss_pred             CCCccc--hHHHH-HHHHHHCCEEEEEEeCCCCCcHHHHHHHHHHHH-cCCCEEEEEeCCCcccc
Confidence            355532  44444 678899999999999998866555555555544 57999999999998754

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=98.34  E-value=1.5e-06  Score=73.40  Aligned_cols=61  Identities=18%  Similarity=0.239  Sum_probs=50.7

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +|.|.-  |.-+. .+++.-+|-+|+|+||..+...+.+.+.+.+.+ .+.|+|+++||+|....
T Consensus       107 TPGHvD--F~~Ev-~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~~-~~lp~i~fINK~Dr~~a  167 (548)
T 3vqt_A          107 TPGHQD--FSEDT-YRVLTAVDSALVVIDAAKGVEAQTRKLMDVCRM-RATPVMTFVNKMDREAL  167 (548)
T ss_dssp             CCCGGG--CSHHH-HHHHHSCSEEEEEEETTTBSCHHHHHHHHHHHH-TTCCEEEEEECTTSCCC
T ss_pred             CCCcHH--HHHHH-HHHHHhcCceEEEeecCCCcccccHHHHHHHHH-hCCceEEEEecccchhc
Confidence            456543  56677 789999999999999999988888888887776 78999999999998654

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=98.33  E-value=6.5e-07  Score=68.89  Aligned_cols=87  Identities=8%  Similarity=-0.007  Sum_probs=49.1

Q ss_pred             ccEEEEEEeCCC-CCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCC
Q psy8220          25 ADVILEVVDARD-PMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQ  103 (161)
Q Consensus        25 aDviL~VvD~~~-~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~  103 (161)
                      +|++|+++|... +....+..+.+.+..  ++|+|+|+||+|+.+..    +.........+.+. ..+.+++.+||.++
T Consensus       116 ~~~~l~~i~~~~~~~~~~d~~~l~~l~~--~~pvi~V~nK~D~~~~~----e~~~~~~~i~~~l~-~~~i~v~~~sa~~~  188 (274)
T 3t5d_A          116 VQCCLYFIAPSGHGLKPLDIEFMKRLHE--KVNIIPLIAKADTLTPE----ECQQFKKQIMKEIQ-EHKIKIYEFPETDD  188 (274)
T ss_dssp             CCEEEEEECSCCSSCCHHHHHHHHHHTT--TSCEEEEESSGGGSCHH----HHHHHHHHHHHHHH-HTTCCCCCC-----
T ss_pred             eeEEEEEecCCCCCCCHHHHHHHHHHhc--cCCEEEEEeccCCCCHH----HHHHHHHHHHHHHH-HcCCeEEcCCCCCC
Confidence            788999997654 555666666666653  79999999999998651    11111112222232 13567788999988


Q ss_pred             CCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220         104 KDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                                       .|+++|.+.|.+.+|
T Consensus       189 -----------------~~~~~l~~~l~~~~p  203 (274)
T 3t5d_A          189 -----------------EEENKLVKKIKDRLP  203 (274)
T ss_dssp             -----------------------CHHHHHTCS
T ss_pred             -----------------hhHHHHHHHHhcCCC
Confidence                             899999999988765

>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=98.33  E-value=8.8e-07  Score=72.68  Aligned_cols=94  Identities=14%  Similarity=0.147  Sum_probs=53.5

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCC-------CCCCcHHHHHHHhCCCC-CcEEEEeecCCCCCccccc---c
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDP-------MGTRCKVAEDLVVGTPG-KKLVIVINKAGKPSTKIQS---G   74 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~-------~~~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~~~~~~~---~   74 (161)
                      |.|..  |.... ...+..+|++|+|+|++++       +..+..+....+.. .+ .++++|+||+|+.+..++.   .
T Consensus        92 pG~~~--f~~~~-~~~~~~aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~-~~~~~iivviNK~Dl~~~~~~~~~~~  167 (435)
T 1jny_A           92 PGHRD--FVKNM-ITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKT-MGLDQLIVAVNKMDLTEPPYDEKRYK  167 (435)
T ss_dssp             SSSTT--HHHHH-HHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHH-TTCTTCEEEEECGGGSSSTTCHHHHH
T ss_pred             CCcHH--HHHHH-HhhhhhcCEEEEEEECCCCccccccccchHHHHHHHHHHH-cCCCeEEEEEEcccCCCccccHHHHH
Confidence            55543  34444 6788999999999999985       33333333333333 34 4689999999998631000   0


Q ss_pred             cHHHHHHHHhhhhcc-CCCCceeEEeecCC
Q psy8220          75 SMAQIFQTWIPYNSI-QSIYSSPRFSSRSQ  103 (161)
Q Consensus        75 ~~~~~~~~~~~~~~~-~~~~~~i~iSa~~~  103 (161)
                      ...+.+..+...+.- ....+++++||+++
T Consensus       168 ~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g  197 (435)
T 1jny_A          168 EIVDQVSKFMRSYGFNTNKVRFVPVVAPSG  197 (435)
T ss_dssp             HHHHHHHHHHHHTTCCCTTCEEEECBTTTT
T ss_pred             HHHHHHHHHHHHcCCCcCCceEEEeecccC
Confidence            111112222222110 01256899999988

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.31  E-value=1.4e-07  Score=80.31  Aligned_cols=97  Identities=16%  Similarity=0.099  Sum_probs=53.9

Q ss_pred             HHhhhccEEEEEEeCCCCC-------CCCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccHHHHHHHHhhhh-ccC
Q psy8220          20 SVVEAADVILEVVDARDPM-------GTRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSMAQIFQTWIPYN-SIQ   90 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~-------~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~   90 (161)
                      ..+..||++|+|+|++.+.       ..+..+....+.. .+.| +|+|+||+|+.+..  ...+..........+ ...
T Consensus       274 ~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~-lgip~iIvviNKiDl~~~~--~~~~~~i~~el~~~l~~~~  350 (592)
T 3mca_A          274 AGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA-LGISEIVVSVNKLDLMSWS--EDRFQEIKNIVSDFLIKMV  350 (592)
T ss_dssp             C-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH-SSCCCEEEEEECGGGGTTC--HHHHHHHHHHHHHHHTTTS
T ss_pred             HHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH-cCCCeEEEEEecccccccc--HHHHHHHHHHHHHHHHHhh
Confidence            4567899999999998753       3444444444444 4665 89999999997620  001111112222233 110


Q ss_pred             C----CCceeEEeecCCCCcchhhhhhhhccccccCHH--------------HHHHHHHhHhhc
Q psy8220          91 S----IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAE--------------LLMLLLGNYTRN  136 (161)
Q Consensus        91 ~----~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~--------------~L~~~l~~~~~~  136 (161)
                      .    ..+++++||+++                 .|+.              .|++.|.++.+.
T Consensus       351 g~~~~~~~ii~iSA~~G-----------------~gI~e~~~~~~~~w~~g~~Lle~l~~~~pp  397 (592)
T 3mca_A          351 GFKTSNVHFVPISAISG-----------------TNLIQKDSSDLYKWYKGPTLLSALDQLVPP  397 (592)
T ss_dssp             CCCGGGEEEEEECSSSC-----------------SSSCSCCCCGGGGTCCSCCHHHHHHTSCCC
T ss_pred             CCCccceEEEEEecccC-----------------cccccccccccccccchHHHHHHHHhhccc
Confidence            1    236899999999                 6665              788888877653

>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=98.31  E-value=4.4e-06  Score=70.30  Aligned_cols=50  Identities=18%  Similarity=0.214  Sum_probs=40.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      ...+..+|.+|+|+|+.++...+...+...+.. .+.|+++|+||+|+...
T Consensus       100 ~~~l~~aD~~IlVvDa~~g~~~~t~~~~~~~~~-~~ipiivviNK~Dl~~~  149 (529)
T 2h5e_A          100 YRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRL-RDTPILTFMNKLDRDIR  149 (529)
T ss_dssp             HHGGGGCSEEEEEEETTTCSCHHHHHHHHHHTT-TTCCEEEEEECTTSCCS
T ss_pred             HHHHHHCCEEEEEEeCCccchHHHHHHHHHHHH-cCCCEEEEEcCcCCccc
Confidence            678899999999999998876555666665554 58999999999999765

>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=98.31  E-value=7.9e-07  Score=64.15  Aligned_cols=92  Identities=9%  Similarity=-0.128  Sum_probs=58.3

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          20 SVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ..+..+|++++|+|++++.+-.. ..+...+...     .+.|+++|.||+|+....  .... +....+...+    +.
T Consensus        87 ~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~--~v~~-~~~~~~~~~~----~~  159 (187)
T 3c5c_A           87 RYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYR--QVTK-AEGVALAGRF----GC  159 (187)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGC--SSCH-HHHHHHHHHH----TC
T ss_pred             HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcC--ccCH-HHHHHHHHHc----CC
Confidence            46678999999999986532111 1122222210     368999999999996431  1111 2223333332    46


Q ss_pred             ceeEEee-cCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSS-RSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa-~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+.+|| +++                 .|+++|.+.|.+.+.
T Consensus       160 ~~~e~Sa~~~g-----------------~gv~~lf~~l~~~i~  185 (187)
T 3c5c_A          160 LFFEVSACLDF-----------------EHVQHVFHEAVREAR  185 (187)
T ss_dssp             EEEECCSSSCS-----------------HHHHHHHHHHHHHHH
T ss_pred             cEEEEeecCcc-----------------ccHHHHHHHHHHHHh
Confidence            7899999 788                 899999999877654

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=98.30  E-value=3.1e-07  Score=77.13  Aligned_cols=92  Identities=13%  Similarity=0.105  Sum_probs=56.2

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPR   97 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   97 (161)
                      ...+..+|++|+|+|++.+  .....+...+... .+.|+++|.||+|+.+..  .... +....+...    .+.+++.
T Consensus       116 ~~~l~~~d~ii~V~D~s~~--~~~~~~~~~l~~~~~~~pvilV~NK~Dl~~~~--~v~~-~~~~~~~~~----~~~~~~~  186 (535)
T 3dpu_A          116 QFFMTRSSVYMLLLDSRTD--SNKHYWLRHIEKYGGKSPVIVVMNKIDENPSY--NIEQ-KKINERFPA----IENRFHR  186 (535)
T ss_dssp             HHHHHSSEEEEEEECGGGG--GGHHHHHHHHHHHSSSCCEEEEECCTTTCTTC--CCCH-HHHHHHCGG----GTTCEEE
T ss_pred             HHHccCCcEEEEEEeCCCc--hhHHHHHHHHHHhCCCCCEEEEEECCCccccc--ccCH-HHHHHHHHh----cCCceEE
Confidence            3456789999999999764  2334444444431 358999999999997641  1011 112222222    2567899


Q ss_pred             EeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          98 FSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        98 iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +||+++                 .|+++|.+.|.+.+..
T Consensus       187 vSA~~g-----------------~gi~eL~~~l~~~~~~  208 (535)
T 3dpu_A          187 ISCKNG-----------------DGVESIAKSLKSAVLH  208 (535)
T ss_dssp             CCC----------------------CTTHHHHHHHHHTC
T ss_pred             EecCcc-----------------cCHHHHHHHHHHHHhc
Confidence            999999                 8888888888776654

>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=98.29  E-value=7.1e-07  Score=66.69  Aligned_cols=96  Identities=11%  Similarity=-0.039  Sum_probs=61.5

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .++...+..||.+++|.|.+++.+-.. ..+...+...  .+.|+++|.||+|+....  .... +....+...+    +
T Consensus        77 ~l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r--~V~~-~e~~~~a~~~----~  149 (216)
T 4dkx_A           77 SLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKR--QVSI-EEGERKAKEL----N  149 (216)
T ss_dssp             GGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGC--CSCH-HHHHHHHHHH----T
T ss_pred             hHHHHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcC--cccH-HHHhhHHHHh----C
Confidence            344556789999999999987643211 1222222211  468999999999986531  1111 2223333332    4


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+.+||+++                 .|++++.+.|.+.+.
T Consensus       150 ~~~~e~SAktg-----------------~nV~e~F~~i~~~i~  175 (216)
T 4dkx_A          150 VMFIETSAKAG-----------------YNVKQLFRRVAAALP  175 (216)
T ss_dssp             CEEEEEBTTTT-----------------BSHHHHHHHHHHHC-
T ss_pred             CeeEEEeCCCC-----------------cCHHHHHHHHHHHHH
Confidence            67889999999                 999999998876654

>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=98.28  E-value=4.3e-07  Score=70.81  Aligned_cols=98  Identities=12%  Similarity=-0.071  Sum_probs=60.9

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCcH--HHHHHHhCC-CCCcEEEEeecCCCCCccc----------ccccHHHHHHH
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRCK--VAEDLVVGT-PGKKLVIVINKAGKPSTKI----------QSGSMAQIFQT   82 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~~--~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~----------~~~~~~~~~~~   82 (161)
                      .++...+..+|++++|+|++++.+-.+.  .+...+... .+.|+++|.||+|+.+...          +.... +....
T Consensus       218 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~-~~~~~  296 (332)
T 2wkq_A          218 RLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITY-PQGLA  296 (332)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCH-HHHHH
T ss_pred             HHHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhCCCCcEEEEEEchhcccccchhhhccccccccccH-HHHHH
Confidence            3335678899999999999876432111  222333321 3789999999999865310          00000 11122


Q ss_pred             HhhhhccCCCC-ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          83 WIPYNSIQSIY-SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        83 ~~~~~~~~~~~-~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +...    .+. +++.+||+++                 .|+++|.+.|.+.+.
T Consensus       297 ~~~~----~~~~~~~~~Sa~~~-----------------~gi~~l~~~l~~~~~  329 (332)
T 2wkq_A          297 MAKE----IGAVKYLECSALTQ-----------------RGLKTVFDEAIRAVL  329 (332)
T ss_dssp             HHHH----TTCSEEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             HHHH----cCCcEEEEecCCCC-----------------cCHHHHHHHHHHHHh
Confidence            2222    233 7889999999                 999999999887653

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=98.28  E-value=6.3e-07  Score=76.66  Aligned_cols=95  Identities=16%  Similarity=0.117  Sum_probs=53.6

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCC-------CCCCcHHHHHHHhCCCC-CcEEEEeecCCCCCcc-ccccc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDP-------MGTRCKVAEDLVVGTPG-KKLVIVINKAGKPSTK-IQSGS   75 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~-------~~~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~~~~-~~~~~   75 (161)
                      .|.|..  |.... ...+..||++|+|+|++.+       ...+..+....+.. .+ +|+|+|+||+|+.+.. .+...
T Consensus       252 TPG~e~--f~~~~-~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~-lgi~~iIVVvNKiDl~~~~~~~~~e  327 (611)
T 3izq_1          252 APGHRD--FVPNA-IMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS-LGIHNLIIAMNKMDNVDWSQQRFEE  327 (611)
T ss_dssp             CCSSSC--HHHHH-TTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHT-TTCCEEEEEEECTTTTTTCHHHHHH
T ss_pred             CCCCcc--cHHHH-HHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHH-cCCCeEEEEEecccccchhHHHHHH
Confidence            355543  34444 6788999999999999874       12233333333443 34 5699999999998621 00000


Q ss_pred             HHHHHHHHhhhhcc-CCCCceeEEeecCC
Q psy8220          76 MAQIFQTWIPYNSI-QSIYSSPRFSSRSQ  103 (161)
Q Consensus        76 ~~~~~~~~~~~~~~-~~~~~~i~iSa~~~  103 (161)
                      ....+..+...+.. ....+++++||+++
T Consensus       328 i~~~l~~~l~~~g~~~~~~~~i~vSA~tG  356 (611)
T 3izq_1          328 IKSKLLPYLVDIGFFEDNINWVPISGFSG  356 (611)
T ss_dssp             HHHHHHHHHHHHTCCGGGCEEEECCTTTC
T ss_pred             HHHHHHHHHHhhcccccCccEEeeecccC
Confidence            11112222222210 01357899999998

>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=98.25  E-value=2.2e-06  Score=62.75  Aligned_cols=53  Identities=15%  Similarity=0.132  Sum_probs=34.4

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc---HHHHHHHhC----CCCCcEEEEeecCCCCCc
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC---KVAEDLVVG----TPGKKLVIVINKAGKPST   69 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~---~~i~~~l~~----~~~k~~ilVlNK~Dl~~~   69 (161)
                      ++...+..+|++++|+|+++......   ..+...+..    ..+.|+++|.||+|+.+.
T Consensus        71 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  130 (214)
T 2fh5_B           71 LLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA  130 (214)
T ss_dssp             HHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             HHHHHHhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCc
Confidence            55566899999999999976321111   112222211    136899999999999764

>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=98.25  E-value=7.3e-07  Score=67.73  Aligned_cols=95  Identities=9%  Similarity=0.044  Sum_probs=59.4

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC----CCCcEEEEee-cCCCCCcccccccHHH--------HHHHHhh
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT----PGKKLVIVIN-KAGKPSTKIQSGSMAQ--------IFQTWIP   85 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~----~~k~~ilVlN-K~Dl~~~~~~~~~~~~--------~~~~~~~   85 (161)
                      ...+..+|++|+|+|+.. +...+..+.+.+.+.    ...|.++|+| |+|+.+..     ...        .+..+..
T Consensus       100 ~~~~~~~d~il~V~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~~-----~~~~i~~~~~~~~~~~~~  173 (260)
T 2xtp_A          100 LLSAPGPHVLLLVTQLGR-YTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGGS-----LMDYMHDSDNKALSKLVA  173 (260)
T ss_dssp             HHHTTCCSEEEEEEETTC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTTCC-----HHHHHHHCCCHHHHHHHH
T ss_pred             HhcCCCCcEEEEEEeCCC-CCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCCcc-----HHHHHHhcchHHHHHHHH
Confidence            557788999999999985 444444444444331    1578888888 99997541     111        0111223


Q ss_pred             hhccCC-CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          86 YNSIQS-IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        86 ~~~~~~-~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.... .+..+++||+++                 .|+++|.+.|.+.++.
T Consensus       174 ~~~~~~~~~~~~~~SA~~~-----------------~gv~~l~~~i~~~~~~  208 (260)
T 2xtp_A          174 ACGGRICAFNNRAEGSNQD-----------------DQVKELMDCIEDLLME  208 (260)
T ss_dssp             HTTTCEEECCTTCCHHHHH-----------------HHHHHHHHHHHHHHHH
T ss_pred             HhCCeEEEecCcccccccH-----------------HHHHHHHHHHHHHHHh
Confidence            322100 022277898887                 8999999999887765

>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=98.25  E-value=4e-07  Score=76.13  Aligned_cols=91  Identities=16%  Similarity=0.126  Sum_probs=61.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh---hhccC--CCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP---YNSIQ--SIY   93 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~---~~~~~--~~~   93 (161)
                      ...+..+|++++|+|++++...+..+...++.. .+.|+++|+||+|+.+...+      .+.....   .+.+.  ...
T Consensus        69 ~~~~~~aD~aILVVda~~g~~~qT~e~l~~~~~-~~vPiIVviNKiDl~~~~~~------~v~~~l~~~~~~~~~~~~~~  141 (501)
T 1zo1_I           69 ARGAQATDIVVLVVAADDGVMPQTIEAIQHAKA-AQVPVVVAVNKIDKPEADPD------RVKNELSQYGILPEEWGGES  141 (501)
T ss_dssp             CSSSBSCSSEEEEEETTTBSCTTTHHHHHHHHH-TTCCEEEEEECSSSSTTCCC------CTTCCCCCCCCCTTCCSSSC
T ss_pred             HHHHhhCCEEEEEeecccCccHHHHHHHHHHHh-cCceEEEEEEeccccccCHH------HHHHHHHHhhhhHHHhCCCc
Confidence            356788999999999998766666555555554 57999999999999753100      0010000   01100  125


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      |++++||+++                 .|+++|++.|...
T Consensus       142 ~~v~vSAktG-----------------~gI~eLle~I~~~  164 (501)
T 1zo1_I          142 QFVHVSAKAG-----------------TGIDELLDAILLQ  164 (501)
T ss_dssp             EEEECCTTTC-----------------TTCTTHHHHTTTT
T ss_pred             cEEEEeeeec-----------------cCcchhhhhhhhh
Confidence            7899999999                 8999999998653

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.23  E-value=1.6e-06  Score=74.53  Aligned_cols=61  Identities=16%  Similarity=0.248  Sum_probs=51.3

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +|.|.-  |..+. .+++.-+|.+|+|+||..+...+.+.+.+.+.. .+.|.|+++||+|....
T Consensus        74 TPGH~D--F~~Ev-~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~~-~~lp~i~~INKmDr~~a  134 (638)
T 3j25_A           74 TPGHMD--FLAEV-YRSLSVLDGAILLISAKDGVQAQTRILFHALRK-MGIPTIFFINKIDQNGI  134 (638)
T ss_dssp             CCCSSS--THHHH-HHHHTTCSEEECCEESSCTTCSHHHHHHHHHHH-HTCSCEECCEECCSSSC
T ss_pred             CCCcHH--HHHHH-HHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHHH-cCCCeEEEEeccccccC
Confidence            467654  67787 789999999999999999998888888877766 68999999999997654

>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=98.22  E-value=1.3e-06  Score=72.28  Aligned_cols=94  Identities=19%  Similarity=0.154  Sum_probs=47.6

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCC-------CCcHHHHHHHhCCCCCc-EEEEeecCCCCCcccccccH-
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMG-------TRCKVAEDLVVGTPGKK-LVIVINKAGKPSTKIQSGSM-   76 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~-------~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~~~~~~~~-   76 (161)
                      |.|.  .|...+ ...+..+|++|+|+|++++..       .+..+....+.. .+.| +|+|+||+|+.+.......+ 
T Consensus       129 PGh~--~f~~~~-~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~-~~vp~iivviNK~Dl~~~~~~~~~~~  204 (467)
T 1r5b_A          129 PGHK--GYVTNM-INGASQADIGVLVISARRGEFEAGFERGGQTREHAVLART-QGINHLVVVINKMDEPSVQWSEERYK  204 (467)
T ss_dssp             CC--------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHH-TTCSSEEEEEECTTSTTCSSCHHHHH
T ss_pred             CCcH--HHHHHH-HhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHH-cCCCEEEEEEECccCCCccccHHHHH
Confidence            5553  244555 577899999999999998631       233333333333 4676 89999999996421000011 


Q ss_pred             --HHHHHHHhhhh-ccCC---CCceeEEeecCCC
Q psy8220          77 --AQIFQTWIPYN-SIQS---IYSSPRFSSRSQK  104 (161)
Q Consensus        77 --~~~~~~~~~~~-~~~~---~~~~i~iSa~~~~  104 (161)
                        ...+..+...+ . ..   ..+++++||+++.
T Consensus       205 ~i~~e~~~~l~~~~g-~~~~~~~~~i~vSA~~g~  237 (467)
T 1r5b_A          205 ECVDKLSMFLRRVAG-YNSKTDVKYMPVSAYTGQ  237 (467)
T ss_dssp             HHHHHHHHHHHHHHC-CCHHHHEEEEECBTTTTB
T ss_pred             HHHHHHHHHHHHhcC-CCccCCceEEeccccccc
Confidence              11122222222 1 01   3468999999983

>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=98.22  E-value=3.2e-06  Score=63.95  Aligned_cols=93  Identities=11%  Similarity=-0.008  Sum_probs=56.6

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCcHH-H----HHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhh-------h-
Q psy8220          20 SVVEAADVILEVVDARDPMGTRCKV-A----EDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP-------Y-   86 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~~~-i----~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~-------~-   86 (161)
                      +++.+ +++++|+|+.......+.. .    ...... .+.|.++|+||+|+.+..    .. +.+..+.+       . 
T Consensus       134 ~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~-~~~p~~iv~NK~D~~~~~----~~-~~~~~~l~~~~~~~~~l  206 (262)
T 1yrb_A          134 ENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLR-LGATTIPALNKVDLLSEE----EK-ERHRKYFEDIDYLTARL  206 (262)
T ss_dssp             HTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHH-HTSCEEEEECCGGGCCHH----HH-HHHHHHHHCHHHHHHHH
T ss_pred             HHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcc-cCCCeEEEEecccccccc----cH-HHHHHHHhChHHHHHHH
Confidence            55667 9999999987554332211 1    111111 368999999999987641    00 00111110       0 


Q ss_pred             -----------------hccC-CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          87 -----------------NSIQ-SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        87 -----------------~~~~-~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                                       +... ...+++++||+++                 .|+++|.+.|.+.++.
T Consensus       207 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~-----------------~gi~~l~~~i~~~~~~  257 (262)
T 1yrb_A          207 KLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTR-----------------EGFEDLETLAYEHYCT  257 (262)
T ss_dssp             HHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTC-----------------TTHHHHHHHHHHHHHH
T ss_pred             hccccccchhHhHHHHHHHHhcCcccceEEEecCc-----------------ccHHHHHHHHHHHhcc
Confidence                             0110 1237899999998                 9999999999887653

>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=98.20  E-value=7e-06  Score=70.82  Aligned_cols=52  Identities=31%  Similarity=0.300  Sum_probs=41.5

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKP   67 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~   67 (161)
                      ..+. ...+..+|.+++|+|+.++...+...+...+.. .+.|+++|+||+|+.
T Consensus        88 ~~~~-~~~l~~ad~~ilVvD~~~g~~~qt~~~~~~~~~-~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           88 VGEI-RGALEAADAALVAVSAEAGVQVGTERAWTVAER-LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             HHHH-HHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHH-TTCCEEEEEECGGGC
T ss_pred             HHHH-HHHHhhcCcEEEEEcCCcccchhHHHHHHHHHH-ccCCEEEEecCCchh
Confidence            3344 678899999999999988876655666666655 589999999999987

>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=98.19  E-value=2.4e-06  Score=68.19  Aligned_cols=115  Identities=16%  Similarity=0.149  Sum_probs=67.5

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCC-C-CCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPM-G-TRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~-~-~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +.+..++...+.++|++|+|+|+.... . .....+...+.. .++|+++|+||+|+.++.  ...     .........
T Consensus       160 ~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~~l~~~~~~-~~~~~i~V~nK~Dl~~~~--~~~-----~~~~~~~~~  231 (360)
T 3t34_A          160 KDIENMVRSYIEKPNCIILAISPANQDLATSDAIKISREVDP-SGDRTFGVLTKIDLMDKG--TDA-----VEILEGRSF  231 (360)
T ss_dssp             HHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHHHHHHHHSCT-TCTTEEEEEECGGGCCTT--CCS-----HHHHTTSSS
T ss_pred             HHHHHHHHHHhhcCCeEEEEeecccCCcCCHHHHHHHHHhcc-cCCCEEEEEeCCccCCCc--ccH-----HHHHcCccc
Confidence            456777788999999999999875432 2 222334444433 578999999999998652  000     111111111


Q ss_pred             CCCCceeEEeecCCCCcchhh---------hh------hhhccccccCHHHHHHHHHhHh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTER---------DL------KAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~---------~~------~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ..+.+.+.+|+.++.+.....         ..      .|.....+.|+..|.+.|.+.+
T Consensus       232 ~~~~~~~~v~~~s~~~i~~~~~~~~~~~~e~~ff~~~~~~~~~~~~~g~~~L~~~l~~~l  291 (360)
T 3t34_A          232 KLKYPWVGVVNRSQADINKNVDMIAARKREREYFSNTTEYRHLANKMGSEHLAKMLSKHL  291 (360)
T ss_dssp             CCSSCCEEECCCCHHHHHTTCCHHHHHHHHHHHHTTCTTTGGGGGGCSHHHHHHHHHHHH
T ss_pred             cccCCeEEEEECChHHhccCCCHHHHHHHHHHHhcCCCccccchhhcCHHHHHHHHHHHH
Confidence            134567888887753221110         11      2333345689998888876655

>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=98.18  E-value=4.8e-06  Score=61.87  Aligned_cols=92  Identities=13%  Similarity=-0.031  Sum_probs=57.6

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          20 SVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      .....+|.+++|.|.++..+-.. ..+...+...   .+.|+++|.||+|+.+..  .... +....+...    .+.+.
T Consensus       107 ~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r--~v~~-~e~~~~a~~----~~~~~  179 (211)
T 2g3y_A          107 HCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCR--EVSV-SEGRACAVV----FDCKF  179 (211)
T ss_dssp             CCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGC--CSCH-HHHHHHHHH----HTCEE
T ss_pred             HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCc--eEeH-HHHHHHHHH----cCCEE
Confidence            34567899999999876432111 1222323321   368999999999996431  1111 111222222    24578


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+||+++                 .|+++|.+.|.+.+.
T Consensus       180 ~e~SAk~g-----------------~~v~elf~~l~~~i~  202 (211)
T 2g3y_A          180 IETSAAVQ-----------------HNVKELFEGIVRQVR  202 (211)
T ss_dssp             EECBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             EEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            89999999                 999999999887654

>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=98.15  E-value=1.3e-05  Score=58.33  Aligned_cols=94  Identities=14%  Similarity=0.132  Sum_probs=61.8

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC-CCCceeEEe
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ-SIYSSPRFS   99 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~iS   99 (161)
                      ....+|.+++|+|++.+....+..+..++.. .+.|.++|.||+|+.+...++    .........+... ...+..++|
T Consensus       105 ~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~~-~~~~~~~v~nK~D~~s~~~~~----~~~~~~~~~~~~~~~~~~~~~~S  179 (210)
T 1pui_A          105 KRQSLQGLVVLMDIRHPLKDLDQQMIEWAVD-SNIAVLVLLTKADKLASGARK----AQLNMVREAVLAFNGDVQVETFS  179 (210)
T ss_dssp             HCTTEEEEEEEEETTSCCCHHHHHHHHHHHH-TTCCEEEEEECGGGSCHHHHH----HHHHHHHHHHGGGCSCEEEEECB
T ss_pred             hhhcccEEEEEEECCCCCchhHHHHHHHHHH-cCCCeEEEEecccCCCchhHH----HHHHHHHHHHHhcCCCCceEEEe
Confidence            3467899999999988765444455555544 578999999999988651000    0011122222211 123567899


Q ss_pred             ecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220         100 SRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus       100 a~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      |+++                 .|+++|.+.|.+..+.
T Consensus       180 al~~-----------------~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          180 SLKK-----------------QGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             TTTT-----------------BSHHHHHHHHHHHHC-
T ss_pred             ecCC-----------------CCHHHHHHHHHHHHhh
Confidence            9998                 9999999999887654

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=98.14  E-value=2.8e-06  Score=67.55  Aligned_cols=89  Identities=13%  Similarity=0.044  Sum_probs=51.1

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC------CCc
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS------IYS   94 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~------~~~   94 (161)
                      ....||++|+|+|+..+.....  +....   .+.|.++|+||+|+.+..    ........+...+....      ..+
T Consensus       166 ~~~~aD~vl~Vvd~~~~~~~~~--l~~~~---~~~p~ivv~NK~Dl~~~~----~~~~~~~~l~~~l~~~~~~~~~~~~~  236 (341)
T 2p67_A          166 VARMVDCFISLQIAGGGDDLQG--IKKGL---MEVADLIVINKDDGDNHT----NVAIARHMYESALHILRRKYDEWQPR  236 (341)
T ss_dssp             HHTTCSEEEEEECC------CC--CCHHH---HHHCSEEEECCCCTTCHH----HHHHHHHHHHHHHHHSCCSBTTBCCE
T ss_pred             HHHhCCEEEEEEeCCccHHHHH--HHHhh---hcccCEEEEECCCCCChH----HHHHHHHHHHHHHHhccccccCCCCc
Confidence            4579999999999875422111  11011   137889999999997641    01011112222111001      245


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ++++||+++                 .|+++|.+.|.+.++
T Consensus       237 vi~iSA~~g-----------------~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          237 VLTCSALEK-----------------RGIDEIWHAIIDFKT  260 (341)
T ss_dssp             EEECBGGGT-----------------BSHHHHHHHHHHHHH
T ss_pred             EEEeeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            789999999                 899999998887654

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=98.13  E-value=4.1e-06  Score=66.86  Aligned_cols=90  Identities=10%  Similarity=0.068  Sum_probs=51.6

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc------CCCC
Q psy8220          20 SVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI------QSIY   93 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~------~~~~   93 (161)
                      ...+.+|++++|+|+..+...  ..+...+   ...|.++|+||+|+.+..    ........+...+..      ....
T Consensus       183 ~l~~~~d~vl~V~d~~~~~~~--~~i~~~i---l~~~~ivVlNK~Dl~~~~----~~~~~~~~l~~~l~~~~~~a~~~~~  253 (349)
T 2www_A          183 AVADMVDMFVLLLPPAGGDEL--QGIKRGI---IEMADLVAVTKSDGDLIV----PARRIQAEYVSALKLLRKRSQVWKP  253 (349)
T ss_dssp             HHHTTCSEEEEEECCC-----------------CCSCSEEEECCCSGGGHH----HHHHHHHHHHHHHTTCC-----CCC
T ss_pred             hHHhhCCEEEEEEcCCcchhH--HHhHHHH---HhcCCEEEEeeecCCCch----hHHHHHHHHHHHHHhcCccccCCCc
Confidence            346789999999998765321  1121112   247889999999997531    000011222221110      0124


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +++++||+++                 .|+++|.+.|.++++
T Consensus       254 ~vi~iSA~~g-----------------~Gi~~L~~~I~~~~~  278 (349)
T 2www_A          254 KVIRISARSG-----------------EGISEMWDKMKDFQD  278 (349)
T ss_dssp             EEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             eEEEEecCCC-----------------CCHHHHHHHHHHHHH
Confidence            5788999998                 899999999887653

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=98.08  E-value=4e-06  Score=65.66  Aligned_cols=55  Identities=11%  Similarity=0.216  Sum_probs=37.4

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCcH-HHHHHHhC----CCCCcEEEEeecCCCCCc
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRCK-VAEDLVVG----TPGKKLVIVINKAGKPST   69 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~~-~i~~~l~~----~~~k~~ilVlNK~Dl~~~   69 (161)
                      ..++...+..+|++++|+|++++.+..+. .+.+.+..    ..+.|+++|+||+|+.+.
T Consensus        71 ~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~  130 (307)
T 3r7w_A           71 TKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQL  130 (307)
T ss_dssp             TTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCH
T ss_pred             hhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccch
Confidence            44556777899999999999887532221 11221211    147999999999999873

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=98.06  E-value=1.8e-06  Score=68.87  Aligned_cols=116  Identities=12%  Similarity=0.099  Sum_probs=66.2

Q ss_pred             HHHHHHHHHh-hhccEEEEEEeCCCCCCCCcH-HHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          13 VVQEIERSVV-EAADVILEVVDARDPMGTRCK-VAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        13 ~~~~~~~~~i-~~aDviL~VvD~~~~~~~~~~-~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .++.++...+ ..+|++|+|+|+...+...+. .+.+.+.. .+.|+++|+||+|+.++.  . ...+.+.  ...+...
T Consensus       155 ~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~~~~-~~~~~i~V~NK~Dl~~~~--~-~~~~~~~--~~~~~l~  228 (353)
T 2x2e_A          155 QIRDMLMQFVTKENCLILAVSPANSDLANSDALKVAKEVDP-QGQRTIGVITKLDLMDEG--T-DARDVLE--NKLLPLR  228 (353)
T ss_dssp             HHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHHHCT-TCTTEEEEEECGGGSCTT--C-CCHHHHT--TCSSCCT
T ss_pred             HHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHHhCc-CCCceEEEeccccccCcc--h-hHHHHHh--CCccccc
Confidence            4555544555 456788889998876655554 35565554 579999999999998651  0 0001111  0111100


Q ss_pred             CC-CceeEEeecCCCCcchhhh------------hhhhccccccCHHHHHHHHHhHh
Q psy8220          91 SI-YSSPRFSSRSQKDAQTERD------------LKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        91 ~~-~~~i~iSa~~~~~~~~~~~------------~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+ .+++.+||+++.+....+.            -.|.....+.|+..|.+.|.+.+
T Consensus       229 ~~~~~v~~~SA~~~~~i~~l~~~l~~e~~~f~~~~~~~~~~~r~~~~~l~~~l~e~l  285 (353)
T 2x2e_A          229 RGYIGVVNRSQKDIDGKKDITAALAAERKFFLSHPSYRHLADRMGTPYLQKVLNQQL  285 (353)
T ss_dssp             TCEEECCCCCHHHHHTTCCHHHHHHHHHHHHHHCTTTGGGGGGCSHHHHHHHHHHHH
T ss_pred             CCceEEEeCCcccccccccHHHHHHHHHHHhccCCcccccHHhhCHHHHHHHHHHHH
Confidence            12 3567889988744333211            12344456778787777776543

>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=98.06  E-value=3e-06  Score=61.47  Aligned_cols=90  Identities=13%  Similarity=-0.055  Sum_probs=55.4

Q ss_pred             HhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          21 VVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      ....+|.+++|.|.++..+-.. ..+...+..   ..+.|+++|.||+|+....  .... +....+...    .+.+.+
T Consensus        77 ~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r--~v~~-~~~~~~a~~----~~~~~~  149 (192)
T 2cjw_A           77 CMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXR--EVSV-SEGRAXAVV----FDXKFI  149 (192)
T ss_dssp             HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGC--CSCH-HHHHHHHHH----TTCEEE
T ss_pred             hcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccc--cccH-HHHHHHHHH----hCCceE
Confidence            4456899999999876532111 122222221   1368999999999986431  1111 111222221    245778


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+||+++                 .|+++|.+.|.+.+
T Consensus       150 e~SA~~g-----------------~~v~~lf~~l~~~~  170 (192)
T 2cjw_A          150 ETSAAVQ-----------------HNVKELFEGIVRQV  170 (192)
T ss_dssp             ECBTTTT-----------------BSHHHHHHHHHHHH
T ss_pred             EeccccC-----------------CCHHHHHHHHHHHH
Confidence            8999999                 89999999887655

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.02  E-value=5.8e-06  Score=60.85  Aligned_cols=84  Identities=13%  Similarity=0.021  Sum_probs=51.5

Q ss_pred             ccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCC
Q psy8220          25 ADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQK  104 (161)
Q Consensus        25 aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~  104 (161)
                      ++.+++|+|+..+..    ....+... .+.|.++|+||+|+.+..  .... +....+...+.  ...+++++||+++ 
T Consensus       130 ~~~~i~vvd~~~~~~----~~~~~~~~-~~~~~iiv~NK~Dl~~~~--~~~~-~~~~~~~~~~~--~~~~i~~~Sa~~g-  198 (221)
T 2wsm_A          130 ENYRVVMVSVTEGDD----VVEKHPEI-FRVADLIVINKVALAEAV--GADV-EKMKADAKLIN--PRAKIIEMDLKTG-  198 (221)
T ss_dssp             CSEEEEEEEGGGCTT----HHHHCHHH-HHTCSEEEEECGGGHHHH--TCCH-HHHHHHHHHHC--TTSEEEECBTTTT-
T ss_pred             cCcEEEEEeCCCcch----hhhhhhhh-hhcCCEEEEecccCCcch--hhHH-HHHHHHHHHhC--CCCeEEEeecCCC-
Confidence            455667999876532    11111111 258899999999986420  0011 12223333222  2457899999999 


Q ss_pred             CcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220         105 DAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus       105 ~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                                      .|+++|.+.|.+.+.
T Consensus       199 ----------------~gi~~l~~~l~~~~~  213 (221)
T 2wsm_A          199 ----------------KGFEEWIDFLRGILN  213 (221)
T ss_dssp             ----------------BTHHHHHHHHHHHHC
T ss_pred             ----------------CCHHHHHHHHHHHHH
Confidence                            999999999987664

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=98.01  E-value=2.4e-05  Score=67.93  Aligned_cols=61  Identities=11%  Similarity=0.126  Sum_probs=51.5

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +|.|.-  |.-+. ..++.-+|-+|+|+|+..+...+.+.+.+...+ .+.|.++++||+|....
T Consensus        92 TPGHvD--F~~Ev-~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~-~~lp~i~~iNKiDr~~a  152 (709)
T 4fn5_A           92 TPGHVD--FTIEV-ERSLRVLDGAVVVFCGTSGVEPQSETVWRQANK-YGVPRIVYVNKMDRQGA  152 (709)
T ss_dssp             CCSCTT--CHHHH-HHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHH-HTCCEEEEEECSSSTTC
T ss_pred             CCCCcc--cHHHH-HHHHHHhCeEEEEEECCCCCchhHHHHHHHHHH-cCCCeEEEEccccccCc
Confidence            466654  67788 789999999999999999998888888877765 68999999999998654

>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=98.00  E-value=1.3e-05  Score=65.65  Aligned_cols=92  Identities=16%  Similarity=0.126  Sum_probs=59.8

Q ss_pred             HHhhhccEEEEEEeCC-CCCCCCc---HHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          20 SVVEAADVILEVVDAR-DPMGTRC---KVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~-~~~~~~~---~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      +.++.+|.+|+|+|+. .+.....   .++..+......+|.++|+||+|+...        .....+.+.+. ..+.++
T Consensus       231 ~~~era~~lL~vvDls~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--------~~~~~l~~~l~-~~g~~v  301 (416)
T 1udx_A          231 RHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--------EAVKALADALA-REGLAV  301 (416)
T ss_dssp             HHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--------HHHHHHHHHHH-TTTSCE
T ss_pred             HHHHHHHhhhEEeCCccCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--------HHHHHHHHHHH-hcCCeE
Confidence            4567899999999996 2221111   111111100025899999999998754        22333334433 135678


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      +.+||+++                 .|+++|.+.|.+.+...
T Consensus       302 i~iSA~~g-----------------~gi~eL~~~i~~~l~~~  326 (416)
T 1udx_A          302 LPVSALTG-----------------AGLPALKEALHALVRST  326 (416)
T ss_dssp             EECCTTTC-----------------TTHHHHHHHHHHHHHTS
T ss_pred             EEEECCCc-----------------cCHHHHHHHHHHHHHhc
Confidence            99999998                 99999999999887543

>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=97.95  E-value=8.1e-06  Score=65.43  Aligned_cols=68  Identities=7%  Similarity=-0.039  Sum_probs=38.3

Q ss_pred             ccEEEEEEeC-CCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHH----HHhhhhccCCCCceeEEe
Q psy8220          25 ADVILEVVDA-RDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQ----TWIPYNSIQSIYSSPRFS   99 (161)
Q Consensus        25 aDviL~VvD~-~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~i~iS   99 (161)
                      +|++++++|. ..++...+..+...+.  .+.|+|+|+||+|+...        ..+.    .....+. ..+.+++.+|
T Consensus       146 v~~~vy~I~~~~~~l~~~d~~~~~~l~--~~~piIlV~NK~Dl~~~--------~ev~~~k~~i~~~~~-~~~i~~~~~S  214 (361)
T 2qag_A          146 VHCCFYFISPFGHGLKPLDVAFMKAIH--NKVNIVPVIAKADTLTL--------KERERLKKRILDEIE-EHNIKIYHLP  214 (361)
T ss_dssp             CCEEEEEECSSSSSCCHHHHHHHHHTC--S-SCEEEEEECCSSSCH--------HHHHHHHHHHHHHTT-CC-CCSCCCC
T ss_pred             eEEEEEEEecCCCCcchhHHHHHHHhc--cCCCEEEEEECCCCCCH--------HHHHHHHHHHHHHHH-HCCCCEEeCC
Confidence            3578888876 4455444444445443  47899999999999875        2222    1122222 2356788999


Q ss_pred             ecCC
Q psy8220         100 SRSQ  103 (161)
Q Consensus       100 a~~~  103 (161)
                      |+++
T Consensus       215 a~~~  218 (361)
T 2qag_A          215 DAES  218 (361)
T ss_dssp             ----
T ss_pred             CcCC
Confidence            9987

>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=97.92  E-value=7e-07  Score=72.65  Aligned_cols=41  Identities=22%  Similarity=0.198  Sum_probs=27.7

Q ss_pred             CCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCC
Q psy8220          54 GKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQ  103 (161)
Q Consensus        54 ~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~  103 (161)
                      .+|+++|+||+|+...        +.+..+.+.+.. .+.+++++||+.+
T Consensus       214 ~kP~i~v~NK~D~~~~--------~~l~~l~~~~~~-~~~~vv~iSA~~e  254 (397)
T 1wxq_A          214 NKPMVIAANKADAASD--------EQIKRLVREEEK-RGYIVIPTSAAAE  254 (397)
T ss_dssp             HSCEEEEEECGGGSCH--------HHHHHHHHHHHH-TTCEEEEECHHHH
T ss_pred             CCCEEEEEeCccccch--------HHHHHHHHHHhh-cCCcEEEEeccch
Confidence            4999999999998733        223333333321 2457899999886

>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=97.89  E-value=8.9e-05  Score=55.50  Aligned_cols=103  Identities=11%  Similarity=0.046  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHH---HHHHhCC---CCCcEEEEeecC-CCCCcccccccHHHHHHHH
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRC-KVA---EDLVVGT---PGKKLVIVINKA-GKPSTKIQSGSMAQIFQTW   83 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i---~~~l~~~---~~k~~ilVlNK~-Dl~~~~~~~~~~~~~~~~~   83 (161)
                      +.++.+|+...+.+|.+|||||+.+...... .++   ...+.+.   .+.|+++..||. |+... .   .. ..+...
T Consensus       113 ~klRplWr~Yy~~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~A-m---s~-~EI~e~  187 (227)
T 3l82_B          113 YSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR-M---PC-FYLAHE  187 (227)
T ss_dssp             ----CCHHHHHHHCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCB-C---CH-HHHHHH
T ss_pred             HHHHHHHHHHhcCCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCC-C---CH-HHHHHH
Confidence            4578888889999999999999987632211 223   2223221   367999999995 67432 0   11 122222


Q ss_pred             hhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          84 IPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        84 ~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +..-......-+.+.||.+|                 .|+.+=+++|.+.+..
T Consensus       188 L~L~~l~R~W~Iq~csA~TG-----------------eGL~EGLdWL~~~l~~  223 (227)
T 3l82_B          188 LHLNLLNHPWLVQDTEAETL-----------------TGFLNGIEWILEEVES  223 (227)
T ss_dssp             TTGGGGCSCEEEEEEETTTC-----------------TTHHHHHHHHTTTTTT
T ss_pred             cCCcCCCCCEEEEEeECCCC-----------------cCHHHHHHHHHHHHHh
Confidence            21111012344788999999                 9999999998776543

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=97.88  E-value=2.1e-05  Score=66.40  Aligned_cols=55  Identities=25%  Similarity=0.303  Sum_probs=41.8

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCC-CCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDP-MGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~-~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +..++...+..+|++|+|+|++.+ ....+..+.+.+.. .+.|+++|+||+|+.+.
T Consensus       178 f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~-~~~pvilVlNK~Dl~~~  233 (550)
T 2qpt_A          178 FPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG-HEDKIRVVLNKADMVET  233 (550)
T ss_dssp             HHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT-CGGGEEEEEECGGGSCH
T ss_pred             HHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh-cCCCEEEEEECCCccCH
Confidence            344556788999999999999874 44444556665654 56899999999999875

>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=97.82  E-value=2.2e-05  Score=58.76  Aligned_cols=100  Identities=8%  Similarity=0.032  Sum_probs=53.7

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC----CCCcEEEEeecCCCCCcccccc-cHH---HHHHHHhhhhccC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSG-SMA---QIFQTWIPYNSIQ   90 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~-~~~---~~~~~~~~~~~~~   90 (161)
                      ......+|++|+|+|+... ...+..+...+...    ..+|+++|+||+|+.+.. ... .+.   +.+..+.+.+   
T Consensus       107 ~~~~~~~~~~l~v~d~~~~-~~~~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~-~~~~~i~~~~~~l~~l~~~~---  181 (239)
T 3lxx_A          107 LLTSPGPHALLLVVPLGRY-TEEEHKATEKILKMFGERARSFMILIFTRKDDLGDT-NLHDYLREAPEDIQDLMDIF---  181 (239)
T ss_dssp             HHTTTCCSEEEEEEETTCC-SSHHHHHHHHHHHHHHHHHGGGEEEEEECGGGC-------------CHHHHHHHHHH---
T ss_pred             HhcCCCCcEEEEEeeCCCC-CHHHHHHHHHHHHHhhhhccceEEEEEeCCccCCcc-cHHHHHHhchHHHHHHHHHc---
Confidence            4556678999999998743 33333333333210    246999999999987641 000 000   1122222222   


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                       +...+++++..+.            +....++.+|++.+.+....
T Consensus       182 -~~~~~~~~~~~~~------------~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          182 -GDRYCALNNKATG------------AEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             -SSSEEECCTTCCH------------HHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCEEEEEECCCCc------------cccHHHHHHHHHHHHHHHHH
Confidence             3345666655320            11125788999888877654

>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=97.78  E-value=2.4e-05  Score=57.32  Aligned_cols=49  Identities=20%  Similarity=0.249  Sum_probs=31.5

Q ss_pred             HhhhccEEEEEEeCC-CCCC--CCcHHHHHHHhC-----CCCCcEEEEeecCCCCCc
Q psy8220          21 VVEAADVILEVVDAR-DPMG--TRCKVAEDLVVG-----TPGKKLVIVINKAGKPST   69 (161)
Q Consensus        21 ~i~~aDviL~VvD~~-~~~~--~~~~~i~~~l~~-----~~~k~~ilVlNK~Dl~~~   69 (161)
                      .+..+|.+|+|+|++ ++..  .....+.+.+..     ..+.|+++|+||+|+.+.
T Consensus        79 ~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  135 (218)
T 1nrj_B           79 RAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA  135 (218)
T ss_dssp             HGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             ccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhccc
Confidence            344599999999998 3322  112223332211     037899999999999765

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=97.66  E-value=4.5e-06  Score=67.45  Aligned_cols=18  Identities=28%  Similarity=0.196  Sum_probs=16.5

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      .+|++||+||||||||.+
T Consensus        73 a~V~ivG~PNvGKSTL~n   90 (376)
T 4a9a_A           73 ASVGFVGFPSVGKSTLLS   90 (376)
T ss_dssp             EEEEEECCCCHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHH
Confidence            599999999999999964

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.66  E-value=9.2e-05  Score=58.76  Aligned_cols=90  Identities=12%  Similarity=0.028  Sum_probs=49.6

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC------CCc
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS------IYS   94 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~------~~~   94 (161)
                      ..+.+|++++|+|+..+..  ...+...+.   ..+.++|+||+|+.+...   ........+...+....      ..+
T Consensus       165 v~~~~d~vl~v~d~~~~~~--~~~i~~~i~---~~~~ivvlNK~Dl~~~~~---~s~~~~~~l~~a~~l~~~~~~~~~~~  236 (337)
T 2qm8_A          165 VADLTDFFLVLMLPGAGDE--LQGIKKGIF---ELADMIAVNKADDGDGER---RASAAASEYRAALHILTPPSATWTPP  236 (337)
T ss_dssp             HHTTSSEEEEEECSCC--------CCTTHH---HHCSEEEEECCSTTCCHH---HHHHHHHHHHHHHTTBCCSBTTBCCC
T ss_pred             HHhhCCEEEEEEcCCCccc--HHHHHHHHh---ccccEEEEEchhccCchh---HHHHHHHHHHHHHHhccccccCCCCC
Confidence            4478999999999864321  000100011   256688899999865310   00000111111111001      246


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ++++||+++                 .|+++|++.|.++.+
T Consensus       237 vl~~Sal~g-----------------~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          237 VVTISGLHG-----------------KGLDSLWSRIEDHRS  260 (337)
T ss_dssp             EEEEBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            788999998                 889998888877654

>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=97.50  E-value=6.2e-05  Score=54.48  Aligned_cols=92  Identities=11%  Similarity=-0.061  Sum_probs=56.7

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      ......+|.+++|+|..++....+ ..+...+..  ..+.|+++|+||+|+....  .... +....+...    .+.+.
T Consensus        72 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~--~~~~-~~a~~l~~~----~~~~~  144 (199)
T 2f9l_A           72 SAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLR--AVPT-DEARAFAEK----NNLSF  144 (199)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--CSCH-HHHHHHHHH----TTCEE
T ss_pred             HHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECccccccc--CcCH-HHHHHHHHH----cCCeE
Confidence            445578999999999876543211 122222221  1368999999999996431  1111 111222221    24567


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +.+||+++                 .|++++.+.|.+.+
T Consensus       145 ~d~Sal~~-----------------~~i~~l~~~l~~~~  166 (199)
T 2f9l_A          145 IETSALDS-----------------TNVEEAFKNILTEI  166 (199)
T ss_dssp             EECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             EEEeCCCC-----------------CCHHHHHHHHHHHH
Confidence            77899988                 89999999887765

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=97.49  E-value=3.6e-05  Score=55.13  Aligned_cols=40  Identities=5%  Similarity=-0.164  Sum_probs=28.1

Q ss_pred             cCHHHHHHHHHhHhhcCC---CCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKD---IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~---~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+..+.+.+.++.....   .....+|+++|.+|||||||+.
T Consensus        24 ~~~~~l~~~l~~~~~~~~~~~~~~~~~i~vvG~~g~GKSsll~   66 (193)
T 2ged_A           24 RKISQWREWIDEKLGGGSGGGGSYQPSIIIAGPQNSGKTSLLT   66 (193)
T ss_dssp             TBCHHHHHHHHHHC--------CCCCEEEEECCTTSSHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhcCCCCCCCCEEEEECCCCCCHHHHHH
Confidence            456777777777654321   2345899999999999999974

>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=97.42  E-value=3.3e-05  Score=61.84  Aligned_cols=104  Identities=10%  Similarity=0.015  Sum_probs=60.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC---------CCc--HHHHHHHhCC---CCCcEEEEeecCCCCCcccc-------
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG---------TRC--KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQ-------   72 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~---------~~~--~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~-------   72 (161)
                      ++.+|....+.+|.+|+|+|.++...         ...  ..+.+.+...   .+.|+|+|+||+|+...+..       
T Consensus       206 ~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~DL~~~ki~~~~l~~~  285 (353)
T 1cip_A          206 ERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTIC  285 (353)
T ss_dssp             GGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHHTTSCGGGT
T ss_pred             hhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEECcCchhhhccccchhhc
Confidence            55677778899999999999987421         111  1122222221   36899999999998532100       


Q ss_pred             -----c-ccHHHHHHHHhh-h---hcc---CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          73 -----S-GSMAQIFQTWIP-Y---NSI---QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        73 -----~-~~~~~~~~~~~~-~---~~~---~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                           . ... +....|.. .   +..   ......+..||+++                 .|+.++.+.+.+.+.
T Consensus       286 fp~~~g~~~~-~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~-----------------~nV~~vF~~v~~~i~  343 (353)
T 1cip_A          286 YPEYAGSNTY-EEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDT-----------------KNVQFVFDAVTDVII  343 (353)
T ss_dssp             CTTCCSCSCH-HHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCH-----------------HHHHHHHHHHHHHHH
T ss_pred             ccccCCCCCH-HHHHHHHHHHHHHhhcccCCCceEEEEEECcCc-----------------hhHHHHHHHHHHHHH
Confidence                 0 011 12233332 1   110   12334677888887                 889999888876653

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=97.39  E-value=0.00034  Score=51.39  Aligned_cols=60  Identities=12%  Similarity=0.079  Sum_probs=39.7

Q ss_pred             CCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          54 GKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        54 ~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +.|.++|+||+|+.+..  .... +....+...+.  ...+++.+||+++                 .|+++|.+.|.+.
T Consensus       164 ~~~~iiv~NK~Dl~~~~--~~~~-~~~~~~~~~~~--~~~~~~~~Sa~~g-----------------~gv~~l~~~l~~~  221 (226)
T 2hf9_A          164 KTADLIVINKIDLADAV--GADI-KKMENDAKRIN--PDAEVVLLSLKTM-----------------EGFDKVLEFIEKS  221 (226)
T ss_dssp             TTCSEEEEECGGGHHHH--TCCH-HHHHHHHHHHC--TTSEEEECCTTTC-----------------TTHHHHHHHHHHH
T ss_pred             hcCCEEEEeccccCchh--HHHH-HHHHHHHHHhC--CCCeEEEEEecCC-----------------CCHHHHHHHHHHH
Confidence            36779999999986420  0011 22233333332  2457889999999                 9999999998776


Q ss_pred             hh
Q psy8220         134 TR  135 (161)
Q Consensus       134 ~~  135 (161)
                      +.
T Consensus       222 ~~  223 (226)
T 2hf9_A          222 VK  223 (226)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=97.39  E-value=8e-05  Score=62.42  Aligned_cols=40  Identities=13%  Similarity=0.083  Sum_probs=30.4

Q ss_pred             cCHHHHHHHHHhHhhc----CC--CCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRN----KD--IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~----~~--~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|+..+...+++....    ..  ....++|++||.||||||||+.
T Consensus        14 ~g~~~i~~yl~~l~~~~~~g~~~~~~~~~kV~lvG~~~vGKSSLl~   59 (535)
T 3dpu_A           14 QGKEAVRQYFQSIEEARSKGEALVHLQEIKVHLIGDGMAGKTSLLK   59 (535)
T ss_dssp             SSHHHHHHHHHHHHHHHHTTCCCBCCCEEEEEEESSSCSSHHHHHH
T ss_pred             hCHHHHHHHHHHHHHhhccCcccccccceEEEEECCCCCCHHHHHH
Confidence            5788888888776651    11  2346999999999999999974

>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=97.35  E-value=0.00085  Score=52.47  Aligned_cols=102  Identities=11%  Similarity=0.056  Sum_probs=62.9

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHH---HHHhC---CCCCcEEEEeec-CCCCCcccccccHHHHHHHHh
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KVAE---DLVVG---TPGKKLVIVINK-AGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~---~~l~~---~~~k~~ilVlNK-~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      .++.+|+...+.+|.+|||||+.+...... .++.   ..+.+   ..+.|+++..|| -|+... .   .. ..+....
T Consensus       199 ~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A-m---s~-~EI~e~L  273 (312)
T 3l2o_B          199 SVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR-M---PC-FYLAHEL  273 (312)
T ss_dssp             CCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB-C---CH-HHHHHHT
T ss_pred             HHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC-C---CH-HHHHHHc
Confidence            467788888899999999999987643211 1221   22211   146899999997 587543 0   11 1222222


Q ss_pred             hhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          85 PYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        85 ~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ..-......-+.+.||.+|                 .|+.+=+++|.+.+..
T Consensus       274 ~L~~l~r~W~Iq~csA~tG-----------------eGL~EGldWL~~~l~~  308 (312)
T 3l2o_B          274 HLNLLNHPWLVQDTEAETL-----------------TGFLNGIEWILEEVES  308 (312)
T ss_dssp             TGGGGCSCEEEEEEETTTC-----------------TTHHHHHHHHHHHSCC
T ss_pred             CCccCCCcEEEEecccCCC-----------------cCHHHHHHHHHHHHHh
Confidence            1111012344788999999                 9999999998776543

>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=97.34  E-value=8e-05  Score=59.78  Aligned_cols=55  Identities=11%  Similarity=0.070  Sum_probs=33.7

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCC---------CCCc--HHHHHHHhCC---CCCcEEEEeecCCCC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPM---------GTRC--KVAEDLVVGT---PGKKLVIVINKAGKP   67 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~---------~~~~--~~i~~~l~~~---~~k~~ilVlNK~Dl~   67 (161)
                      ..+..|....+.++.+|+|+|.++..         .+..  ..+.+.+...   .+.|+|+++||+|+.
T Consensus       213 ~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~  281 (362)
T 1zcb_A          213 SERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLL  281 (362)
T ss_dssp             -----CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             hhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhh
Confidence            45667777788999999999998731         1111  1122222221   368999999999985

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.28  E-value=6e-05  Score=60.08  Aligned_cols=20  Identities=20%  Similarity=0.089  Sum_probs=17.8

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ....|+++|+||+|||||+.
T Consensus        73 ~~~~v~lvG~pgaGKSTLln   92 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIE   92 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHH
Confidence            35899999999999999974

>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=97.27  E-value=0.00019  Score=56.06  Aligned_cols=98  Identities=10%  Similarity=0.013  Sum_probs=45.6

Q ss_pred             hccEEEEEEeCCC-CCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecC
Q psy8220          24 AADVILEVVDARD-PMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRS  102 (161)
Q Consensus        24 ~aDviL~VvD~~~-~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~  102 (161)
                      +|+++|++.+++. .+...+..+...+.  .+.++++|+||+|+....    +.....+...+.+. ..+.+++.+||++
T Consensus       126 ra~~ll~ldePt~~~Ld~~~~~~l~~l~--~~~~iilV~~K~Dl~~~~----e~~~~~~~~~~~~~-~~~~~~~e~Sa~~  198 (301)
T 2qnr_A          126 RVHCCFYFISPFGHGLKPLDVAFMKAIH--NKVNIVPVIAKADTLTLK----ERERLKKRILDEIE-EHNIKIYHLPDAE  198 (301)
T ss_dssp             CCCEEEEEECSSSSSCCHHHHHHHHHHT--TTSCEEEEECCGGGSCHH----HHHHHHHHHHHHHH-HTTCCCCCCC---
T ss_pred             hhhheeeeecCcccCCCHHHHHHHHHHH--hcCCEEEEEEeCCCCCHH----HHHHHHHHHHHHHH-HcCCeEEecCCcc
Confidence            3456777776543 24333333333332  357999999999997641    11000011112222 1356778899887


Q ss_pred             CCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeec
Q psy8220         103 QKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGEC  151 (161)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~p  151 (161)
                      +                  |++++...+.+.+...     +..++||..
T Consensus       199 ~------------------~v~e~f~~l~~~i~~~-----~p~avigs~  224 (301)
T 2qnr_A          199 S------------------DEDEDFKEQTRLLKAS-----IPFSVVGSN  224 (301)
T ss_dssp             ------------------------CHHHHHHHHTT-----CSEECCCCC
T ss_pred             c------------------cccHHHHHHHHHhhcC-----CCceEECCC
Confidence            5                  5666666655544432     235566643

>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=97.25  E-value=0.00017  Score=58.93  Aligned_cols=73  Identities=8%  Similarity=-0.017  Sum_probs=39.3

Q ss_pred             hccEEEEEEeCC-CCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecC
Q psy8220          24 AADVILEVVDAR-DPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRS  102 (161)
Q Consensus        24 ~aDviL~VvD~~-~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~  102 (161)
                      ++|++|++++++ .++...+..+.+.+.  .+.|+|+|+||+|+....    +.........+.+.. .+.+++.+|+.+
T Consensus       138 ~~~vlL~ldePt~~~L~~~d~~~lk~L~--~~v~iIlVinK~Dll~~~----ev~~~k~~i~~~~~~-~~i~~~~~sa~~  210 (418)
T 2qag_C          138 RVQCCLYFIAPSGHGLKPLDIEFMKRLH--EKVNIIPLIAKADTLTPE----ECQQFKKQIMKEIQE-HKIKIYEFPETD  210 (418)
T ss_dssp             -CCEEEEECCC-CCSCCHHHHHHHHHHT--TTSEEEEEEESTTSSCHH----HHHHHHHHHHHHHHH-HTCCCCCCC---
T ss_pred             CeeEEEEEecCcccCCCHHHHHHHHHHh--ccCcEEEEEEcccCccHH----HHHHHHHHHHHHHHH-cCCeEEeCCCCC
Confidence            356688887765 455555545555564  378999999999998751    111100111222221 256678889887


Q ss_pred             C
Q psy8220         103 Q  103 (161)
Q Consensus       103 ~  103 (161)
                      +
T Consensus       211 ~  211 (418)
T 2qag_C          211 D  211 (418)
T ss_dssp             -
T ss_pred             C
Confidence            7

>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=97.18  E-value=9.5e-05  Score=62.96  Aligned_cols=20  Identities=20%  Similarity=0.134  Sum_probs=17.7

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..+|+|+|.||||||||++
T Consensus        37 ~~~~VaivG~pnvGKStLiN   56 (592)
T 1f5n_A           37 PMVVVAIVGLYRTGKSYLMN   56 (592)
T ss_dssp             BEEEEEEEEBTTSSHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHH
Confidence            44899999999999999974

>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=97.18  E-value=3e-05  Score=64.50  Aligned_cols=20  Identities=20%  Similarity=0.185  Sum_probs=17.7

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+++|++||.||||||||+.
T Consensus       242 ~~~kV~ivG~pnvGKSSLln  261 (482)
T 1xzp_A          242 RGLRMVIVGKPNVGKSTLLN  261 (482)
T ss_dssp             HCEEEEEECCHHHHTCHHHH
T ss_pred             CCCEEEEECcCCCcHHHHHH
Confidence            34899999999999999974

>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=97.17  E-value=5.6e-05  Score=62.82  Aligned_cols=20  Identities=15%  Similarity=0.074  Sum_probs=17.8

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+++|+++|.||||||||++
T Consensus       232 ~~~kV~ivG~~nvGKSSLln  251 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLN  251 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            45899999999999999974

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=97.16  E-value=0.00039  Score=49.60  Aligned_cols=51  Identities=18%  Similarity=0.258  Sum_probs=32.0

Q ss_pred             HHHhhhccEEEEEEeCC-CCCCC--CcHHHHHHHh-----CCCCCcEEEEeecCCCCCc
Q psy8220          19 RSVVEAADVILEVVDAR-DPMGT--RCKVAEDLVV-----GTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~-~~~~~--~~~~i~~~l~-----~~~~k~~ilVlNK~Dl~~~   69 (161)
                      ...+..+|++++|+|++ ++..-  ....+...+.     ...+.|+++|+||+|+.+.
T Consensus       113 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  171 (193)
T 2ged_A          113 KTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA  171 (193)
T ss_dssp             HHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             HhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCC
Confidence            44556799999999998 32110  0112222221     1036899999999999865

>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=97.14  E-value=9.3e-05  Score=54.81  Aligned_cols=20  Identities=25%  Similarity=0.194  Sum_probs=17.6

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..++|++||.||||||||+.
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~   55 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLAN   55 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHH
Confidence            34899999999999999974

>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=97.12  E-value=0.00013  Score=58.55  Aligned_cols=19  Identities=26%  Similarity=0.282  Sum_probs=16.0

Q ss_pred             ceE-EEEEeecCCCcccccC
Q psy8220         142 SIT-VGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~-v~vvG~pNVGKSsl~~  160 (161)
                      +++ |++||.||||||||+.
T Consensus       178 ~~~~V~lvG~~naGKSTLln  197 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFN  197 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHH
Confidence            355 9999999999999974

>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=97.07  E-value=0.00026  Score=50.98  Aligned_cols=91  Identities=11%  Similarity=-0.052  Sum_probs=54.8

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      ......+|.+++|.|..+...-.+ ..+...+..  ..+.|+++|+||+|+.+..  .... +....+...    .+.+.
T Consensus        96 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~--~~~~-~~a~~l~~~----~~~~~  168 (191)
T 1oix_A           96 SAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLR--AVPT-DEARAFAEK----NGLSF  168 (191)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--CSCH-HHHHHHHHH----TTCEE
T ss_pred             HHHhhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc--ccCH-HHHHHHHHH----cCCEE
Confidence            345577899999999876532111 112222221  1368999999999986431  1111 111222221    24567


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +.+||+++                 .|++++.+.|.+.
T Consensus       169 ld~Sald~-----------------~~v~~l~~~l~~~  189 (191)
T 1oix_A          169 IETSALDS-----------------TNVEAAFQTILTE  189 (191)
T ss_dssp             EECCTTTC-----------------TTHHHHHHHHHHH
T ss_pred             EEEeCCCC-----------------CCHHHHHHHHHHH
Confidence            77899988                 8999999988764

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=97.03  E-value=0.00035  Score=53.12  Aligned_cols=20  Identities=30%  Similarity=0.250  Sum_probs=17.9

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..++|+++|.+|||||||+.
T Consensus        35 ~~~~I~lvG~~g~GKSSLin   54 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVN   54 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHH
Confidence            45899999999999999974

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=97.03  E-value=0.0016  Score=51.56  Aligned_cols=51  Identities=14%  Similarity=0.240  Sum_probs=34.2

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHH---hC-CCCCcEEEEeecCCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLV---VG-TPGKKLVIVINKAGKPST   69 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l---~~-~~~k~~ilVlNK~Dl~~~   69 (161)
                      ......|+.+++|+|+++.....-..+.+++   .. ..+.|+++|.||+|+.++
T Consensus        67 ~~yyr~a~~~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~~  121 (331)
T 3r7w_B           67 ERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSE  121 (331)
T ss_dssp             HHHHTTCSEEEEECCCSSCTTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSCS
T ss_pred             hhhccCCCEEEEEEECCchHHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCch
Confidence            3456899999999999876211112222222   11 147899999999999875

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=97.02  E-value=0.00035  Score=53.30  Aligned_cols=20  Identities=25%  Similarity=0.247  Sum_probs=17.9

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..++|+++|.+|||||||+.
T Consensus        38 ~~~~I~vvG~~g~GKSSLin   57 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVN   57 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            35899999999999999974

>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=97.00  E-value=7.4e-05  Score=61.84  Aligned_cols=20  Identities=30%  Similarity=0.295  Sum_probs=17.8

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+++|+++|.||||||||++
T Consensus       223 ~~~kV~ivG~~nvGKSSLln  242 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLN  242 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHH
Confidence            45899999999999999974

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.90  E-value=0.0005  Score=50.46  Aligned_cols=19  Identities=5%  Similarity=0.066  Sum_probs=17.0

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+|+++|.||||||||+.
T Consensus        38 ~~~i~ivG~~gvGKTtl~~   56 (226)
T 2hf9_A           38 VVAFDFMGAIGSGKTLLIE   56 (226)
T ss_dssp             CEEEEEEESTTSSHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHH
Confidence            4789999999999999974

>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=96.86  E-value=0.00052  Score=60.68  Aligned_cols=48  Identities=25%  Similarity=0.311  Sum_probs=39.0

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKP   67 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~   67 (161)
                      ..++..+|.+|+|+|+.++...+...+...+.. .+.|+++|+||+|+.
T Consensus       116 ~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~-~~~p~ilviNK~D~~  163 (842)
T 1n0u_A          116 TAALRVTDGALVVVDTIEGVCVQTETVLRQALG-ERIKPVVVINKVDRA  163 (842)
T ss_dssp             HHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH-TTCEEEEEEECHHHH
T ss_pred             HHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH-cCCCeEEEEECCCcc
Confidence            678899999999999998876666555444444 579999999999986

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=96.86  E-value=0.00043  Score=59.95  Aligned_cols=33  Identities=15%  Similarity=0.039  Sum_probs=23.2

Q ss_pred             HHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..|...+.....     ..++|+|+|.||+|||||+.
T Consensus        55 l~~L~~~~~~l~~-----~~~~V~VvG~~naGKSSLlN   87 (695)
T 2j69_A           55 IEDITIASKNLQQ-----GVFRLLVLGDMKRGKSTFLN   87 (695)
T ss_dssp             HHHHHHHHHHHHH-----CCEEEEEECCTTSCHHHHHH
T ss_pred             HHHHHHHHHHhcc-----CCCEEEEECCCCCCHHHHHH
Confidence            3444444444433     24899999999999999974

>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=96.84  E-value=0.00017  Score=57.43  Aligned_cols=17  Identities=29%  Similarity=0.227  Sum_probs=15.7

Q ss_pred             EEEEEeecCCCcccccC
Q psy8220         144 TVGVVGECNIAGSIRDL  160 (161)
Q Consensus       144 ~v~vvG~pNVGKSsl~~  160 (161)
                      +|++||.||||||||+.
T Consensus       160 ~V~lvG~~nvGKSTLln  176 (342)
T 1lnz_A          160 DVGLVGFPSVGKSTLLS  176 (342)
T ss_dssp             CEEEESSTTSSHHHHHH
T ss_pred             eeeeeCCCCCCHHHHHH
Confidence            69999999999999974

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=96.81  E-value=0.00076  Score=53.12  Aligned_cols=76  Identities=12%  Similarity=0.076  Sum_probs=44.9

Q ss_pred             CcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          55 KKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        55 k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ....+|++|-|..++        +.++. .+.    .+.|++..+..+.                 .++..|..+|...+
T Consensus        80 ~~P~IIltrg~~~pe--------elie~-A~~----~~IPVL~T~~~ts-----------------~~~~~l~~~l~~~~  129 (314)
T 1ko7_A           80 ETPAIIVTRDLEPPE--------ELIEA-AKE----HETPLITSKIATT-----------------QLMSRLTTFLEHEL  129 (314)
T ss_dssp             TCCCEEECTTCCCCH--------HHHHH-HHH----TTCCEEECCSCHH-----------------HHHHHHHHHHHHHT
T ss_pred             CCCEEEEeCCCCCCH--------HHHHH-HHH----CCCeEEEECCchh-----------------HHHHHHHHHHHHhh
Confidence            344558889998765        32222 111    2566665554443                 55566666655433


Q ss_pred             hcC----C---CCCceEEEEEeecCCCcccccC
Q psy8220         135 RNK----D---IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       135 ~~~----~---~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ...    +   .-.+.-|++.|.+++||||+++
T Consensus       130 ~~~~~~H~~~v~~~g~~vl~~G~sG~GKSt~a~  162 (314)
T 1ko7_A          130 ARTTSLHGVLVDVYGVGVLITGDSGIGKSETAL  162 (314)
T ss_dssp             CEEEEEESEEEEETTEEEEEEESTTSSHHHHHH
T ss_pred             ccceeeeEEEEEECCEEEEEEeCCCCCHHHHHH
Confidence            211    1   0124679999999999999875

>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=96.77  E-value=0.00072  Score=52.28  Aligned_cols=19  Identities=21%  Similarity=0.162  Sum_probs=17.4

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      ..++|+++|.||||||||+
T Consensus       154 ~~~~i~i~G~~~~GKssli  172 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLL  172 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHH
T ss_pred             ceeEEEEECCCCCChHHHH
Confidence            3589999999999999997

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=96.69  E-value=0.00043  Score=54.54  Aligned_cols=19  Identities=11%  Similarity=-0.004  Sum_probs=17.2

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      .++|+|+|.||||||||+.
T Consensus       165 ~~kI~ivG~~~vGKSsLl~  183 (329)
T 3o47_A          165 EMRILMVGLDAAGKTTILY  183 (329)
T ss_dssp             SEEEEEEESTTSSHHHHHH
T ss_pred             cceEEEECCCCccHHHHHH
Confidence            4799999999999999974

>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=96.53  E-value=0.0014  Score=52.02  Aligned_cols=20  Identities=20%  Similarity=0.189  Sum_probs=17.4

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ...+|+++|.||||||||+.
T Consensus        78 ~~~~I~i~G~~G~GKSTl~~   97 (355)
T 3p32_A           78 NAHRVGITGVPGVGKSTAIE   97 (355)
T ss_dssp             CSEEEEEECCTTSSHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHH
Confidence            35789999999999999973

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=96.52  E-value=0.001  Score=50.71  Aligned_cols=47  Identities=17%  Similarity=0.209  Sum_probs=31.1

Q ss_pred             hhccEEEEEEeCCCC-CCCCcHHHHHHHhCCCC----CcEEEEeecCCCCCc
Q psy8220          23 EAADVILEVVDARDP-MGTRCKVAEDLVVGTPG----KKLVIVINKAGKPST   69 (161)
Q Consensus        23 ~~aDviL~VvD~~~~-~~~~~~~i~~~l~~~~~----k~~ilVlNK~Dl~~~   69 (161)
                      ..+|++|+|+|.... +...+..+.+.+....+    .|+++|+||+|+.++
T Consensus       118 ~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~  169 (270)
T 1h65_A          118 KTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPP  169 (270)
T ss_dssp             CEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCG
T ss_pred             CCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCc
Confidence            479999999887542 22233344444432112    699999999999765

>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=96.47  E-value=0.0014  Score=53.72  Aligned_cols=41  Identities=12%  Similarity=0.086  Sum_probs=31.5

Q ss_pred             EEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          27 VILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        27 viL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      ++++|+|+..++...|.++.+.+.  .+.|+|+|+||+|..++
T Consensus       151 ~v~fI~d~~~~l~~~Dieilk~L~--~~~~vI~Vi~KtD~Lt~  191 (427)
T 2qag_B          151 CLYFIAPTGHSLKSLDLVTMKKLD--SKVNIIPIIAKADAISK  191 (427)
T ss_dssp             EEEEECCCC---CHHHHHHHHHTC--SCSEEEEEESCGGGSCH
T ss_pred             EEEEEeCCCCCCCHHHHHHHHHHh--hCCCEEEEEcchhccch
Confidence            578888998888877777777775  47999999999998876

>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=96.44  E-value=0.0014  Score=53.39  Aligned_cols=18  Identities=28%  Similarity=0.163  Sum_probs=16.6

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      ..++++|.+|+|||||++
T Consensus        70 ~~valvG~nGaGKSTLln   87 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFIN   87 (413)
T ss_dssp             EEEEEEECTTSSHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHH
Confidence            689999999999999974

>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=96.40  E-value=0.00048  Score=55.07  Aligned_cols=54  Identities=11%  Similarity=0.047  Sum_probs=34.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCC-------C--CCCCc--HHHHHHHhCC---CCCcEEEEeecCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARD-------P--MGTRC--KVAEDLVVGT---PGKKLVIVINKAGKP   67 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~-------~--~~~~~--~~i~~~l~~~---~~k~~ilVlNK~Dl~   67 (161)
                      .+.+|......+|.+|+|+|.++       .  ..+..  ..+.+.+...   .+.|+++|.||+||.
T Consensus       196 ~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~DL~  263 (354)
T 2xtz_A          196 ERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKFDIF  263 (354)
T ss_dssp             GGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHH
T ss_pred             hhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECcchh
Confidence            45666777889999999999872       1  11111  1122222221   368999999999984

>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=96.21  E-value=0.0031  Score=49.85  Aligned_cols=57  Identities=11%  Similarity=0.037  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCC-------CCCCC--Cc--HHHHHHHhCC---CCCcEEEEeecCCCCC
Q psy8220          12 VVVQEIERSVVEAADVILEVVDAR-------DPMGT--RC--KVAEDLVVGT---PGKKLVIVINKAGKPS   68 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~-------~~~~~--~~--~~i~~~l~~~---~~k~~ilVlNK~Dl~~   68 (161)
                      +..+.+|....+.++.+|+|+|.+       +....  ..  ..+.+.+...   .+.|+++++||+|+..
T Consensus       178 e~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~DL~~  248 (327)
T 3ohm_A          178 RSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLE  248 (327)
T ss_dssp             HHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHHHHH
T ss_pred             hhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECchhhh
Confidence            456778888889999999999875       21111  11  1122222221   3689999999999854

>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=96.18  E-value=0.001  Score=54.06  Aligned_cols=55  Identities=9%  Similarity=-0.024  Sum_probs=35.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCC---------CCCCc--HHHHHHHhCC---CCCcEEEEeecCCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDP---------MGTRC--KVAEDLVVGT---PGKKLVIVINKAGKPS   68 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~---------~~~~~--~~i~~~l~~~---~~k~~ilVlNK~Dl~~   68 (161)
                      .+.+|......|+.+|+|+|.++.         ..+..  ..+.+.+...   .+.|+++|.||+||..
T Consensus       230 ~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgNK~DL~~  298 (402)
T 1azs_C          230 ERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLA  298 (402)
T ss_dssp             GGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEECHHHHH
T ss_pred             hhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEEEEEEChhhhh
Confidence            456677778999999999999871         11111  1122223221   3689999999999843

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=96.15  E-value=0.0012  Score=56.36  Aligned_cols=21  Identities=14%  Similarity=0.064  Sum_probs=18.3

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..++|++||.||||||||+.
T Consensus       165 k~~lkV~ivG~~n~GKSTLin  185 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMG  185 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHH
T ss_pred             CCceEEEEEECCCCCHHHHHH
Confidence            346899999999999999973

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=96.10  E-value=0.0013  Score=55.46  Aligned_cols=19  Identities=16%  Similarity=-0.032  Sum_probs=17.3

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+|+|+|.||||||||++
T Consensus        65 ~~~V~vvG~~n~GKSTLIN   83 (550)
T 2qpt_A           65 KPMVLVAGQYSTGKTSFIQ   83 (550)
T ss_dssp             CCEEEEEEBTTSCHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHH
Confidence            4799999999999999974

>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=96.03  E-value=0.029  Score=44.99  Aligned_cols=76  Identities=12%  Similarity=-0.068  Sum_probs=41.0

Q ss_pred             CCcEEEEeecCC--CCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCCCcchh----hhhhhhc-cccccCHHHH
Q psy8220          54 GKKLVIVINKAG--KPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQTE----RDLKAIN-VSSCVGAELL  126 (161)
Q Consensus        54 ~k~~ilVlNK~D--l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~~----~~~~~~~-~~~~~g~~~L  126 (161)
                      .+|+++|.||.|  +.... +. ...+.+..|...    .+.+++++||+.......+    ...++.. .....|++.|
T Consensus       201 ~KPvi~v~N~~e~d~~~~~-~n-~~~~~v~~~a~~----~g~~vv~iSAk~E~el~eL~~~~~~~~l~~~g~~~~gl~~l  274 (368)
T 2dby_A          201 AKPVIYVANVAEEDLPDGR-GN-PQVEAVRRKALE----EGAEVVVVSARLEAELAELSGEEARELLAAYGLQESGLQRL  274 (368)
T ss_dssp             GSCEEEEEECCGGGTTTCT-TC-HHHHHHHHHHHH----HTCEEEEECHHHHHHHHTSCHHHHHHHHHHTTCCSCHHHHH
T ss_pred             cCCeEEeccccHHhhcccc-hh-hHHHHHHHHHHH----cCCeEEEeechhHHHHHHhchHHHHHHHHHhCcchhhHHHH
Confidence            489999999997  33210 00 111223333222    2467899999874211111    1122221 2235789999


Q ss_pred             HHHHHhHhh
Q psy8220         127 MLLLGNYTR  135 (161)
Q Consensus       127 ~~~l~~~~~  135 (161)
                      .+...+.+.
T Consensus       275 i~~~~~~L~  283 (368)
T 2dby_A          275 ARAGYRALD  283 (368)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHhC
Confidence            888877764

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=96.03  E-value=0.0028  Score=48.01  Aligned_cols=57  Identities=18%  Similarity=0.081  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHh--hhccEEEEEEeCCCC-CCCCcHHHHHHHhCC-C---CCcEEEEeecCCCCCc
Q psy8220          12 VVVQEIERSVV--EAADVILEVVDARDP-MGTRCKVAEDLVVGT-P---GKKLVIVINKAGKPST   69 (161)
Q Consensus        12 ~~~~~~~~~~i--~~aDviL~VvD~~~~-~~~~~~~i~~~l~~~-~---~k~~ilVlNK~Dl~~~   69 (161)
                      .+++.+ ++.+  ..+|++|+|+|...+ ....+..+.+.+... .   .+|+++|+||+|+.+.
T Consensus       103 ~~~~~i-~~~l~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~  166 (262)
T 3def_A          103 QALELI-KGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPP  166 (262)
T ss_dssp             HHHHHH-HHHTTTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCS
T ss_pred             HHHHHH-HHHHhcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCC
Confidence            444445 2333  378999999877543 222333455444431 1   2599999999999643

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.95  E-value=0.0019  Score=51.11  Aligned_cols=20  Identities=25%  Similarity=0.267  Sum_probs=17.5

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+..++++|.||+|||||+.
T Consensus        54 ~g~~v~i~G~~GaGKSTLl~   73 (337)
T 2qm8_A           54 RAIRVGITGVPGVGKSTTID   73 (337)
T ss_dssp             CSEEEEEECCTTSCHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            45789999999999999974

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=95.91  E-value=0.0044  Score=49.94  Aligned_cols=52  Identities=17%  Similarity=0.305  Sum_probs=36.0

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC----CCCcEEEEeecCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT----PGKKLVIVINKAGKP   67 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~----~~k~~ilVlNK~Dl~   67 (161)
                      .++. ...+.+||++++|+|+++|... ...+...+...    ..+|.++++||+|..
T Consensus       140 g~~~-l~~i~~ad~il~vvD~~~p~~~-~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~  195 (376)
T 4a9a_A          140 GKQV-IAVARTCNLLFIILDVNKPLHH-KQIIEKELEGVGIRLNKTPPDILIKKKEKG  195 (376)
T ss_dssp             HHHH-HHHHHHCSEEEEEEETTSHHHH-HHHHHHHHHHTTEEETCCCCCEEEEECSSS
T ss_pred             HHHH-HHHHHhcCccccccccCccHHH-HHHHHHHHHHhhHhhccCChhhhhhHhhhh
Confidence            3555 6888999999999999987532 12233333221    368899999999963

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=95.86  E-value=0.0025  Score=54.17  Aligned_cols=20  Identities=15%  Similarity=0.037  Sum_probs=17.6

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..++|+++|.||+|||||+.
T Consensus       176 ~~~~I~iiG~~d~GKSTLi~  195 (592)
T 3mca_A          176 PVVHLVVTGHVDSGKSTMLG  195 (592)
T ss_dssp             CEEEEEEECCSSSTHHHHHH
T ss_pred             CccEEEEEcCCCCCHHHHHH
Confidence            45899999999999999973

>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=95.83  E-value=0.0025  Score=50.37  Aligned_cols=20  Identities=20%  Similarity=0.175  Sum_probs=17.3

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ....++++|.||+|||||+.
T Consensus        55 ~~~~i~i~G~~g~GKSTl~~   74 (341)
T 2p67_A           55 NTLRLGVTGTPGAGKSTFLE   74 (341)
T ss_dssp             CSEEEEEEECTTSCHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHH
Confidence            45789999999999999963

>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=95.78  E-value=0.0015  Score=53.27  Aligned_cols=18  Identities=33%  Similarity=0.198  Sum_probs=15.9

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.|++||.||+|||||+.
T Consensus       158 ~~VgLVG~~gAGKSTLL~  175 (416)
T 1udx_A          158 ADVGLVGYPNAGKSSLLA  175 (416)
T ss_dssp             CSEEEECCGGGCHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHH
Confidence            468999999999999974

>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=95.70  E-value=0.0031  Score=50.11  Aligned_cols=57  Identities=16%  Similarity=0.085  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCC---------CCCc---HHHHHHHhCC--CCCcEEEEeecCCCCC
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPM---------GTRC---KVAEDLVVGT--PGKKLVIVINKAGKPS   68 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~---------~~~~---~~i~~~l~~~--~~k~~ilVlNK~Dl~~   68 (161)
                      +..+.+|....+.++.+|+|+|.++..         ....   ..+...+...  .+.|++++.||+|+..
T Consensus       172 e~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~DL~~  242 (340)
T 4fid_A          172 RSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMDLFE  242 (340)
T ss_dssp             HHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHHHHH
T ss_pred             ccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECchhhh
Confidence            557888888899999999999997311         1111   1122222221  3689999999999854

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.65  E-value=0.03  Score=46.78  Aligned_cols=42  Identities=17%  Similarity=0.252  Sum_probs=29.3

Q ss_pred             hccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcE-EEEeecCCCCCc
Q psy8220          24 AADVILEVVDARDPMGTRCKVAEDLVVGTPGKKL-VIVINKAGKPST   69 (161)
Q Consensus        24 ~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~-ilVlNK~Dl~~~   69 (161)
                      .+|.+++|+|+..+..  .......+.+  ..|+ .+|+||+|....
T Consensus       213 ~pd~vllVvDa~~g~~--~~~~a~~~~~--~~~i~gvVlNK~D~~~~  255 (504)
T 2j37_W          213 QPDNIVYVMDASIGQA--CEAQAKAFKD--KVDVASVIVTKLDGHAK  255 (504)
T ss_dssp             CCSEEEEEEETTCCTT--HHHHHHHHHH--HHCCCCEEEECTTSCCC
T ss_pred             cCceEEEEEecccccc--HHHHHHHHHh--hcCceEEEEeCCccccc
Confidence            7999999999987642  3333333432  2674 899999998754

>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=95.57  E-value=0.0028  Score=51.87  Aligned_cols=18  Identities=22%  Similarity=0.156  Sum_probs=16.0

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      .++++||.+|+|||||+.
T Consensus        43 ~~vaLvG~nGaGKSTLln   60 (427)
T 2qag_B           43 FNILCVGETGLGKSTLMD   60 (427)
T ss_dssp             EEEEEECSTTSSSHHHHH
T ss_pred             eEEEEECCCCCCHHHHHH
Confidence            359999999999999974

>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=95.43  E-value=0.0024  Score=51.02  Aligned_cols=19  Identities=32%  Similarity=0.253  Sum_probs=17.1

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      .++|++||.+|||||||+.
T Consensus        37 ~~~I~vvG~~g~GKSTLln   55 (361)
T 2qag_A           37 EFTLMVVGESGLGKSTLIN   55 (361)
T ss_dssp             EECEEECCCTTSCHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHH
Confidence            4789999999999999974

>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=95.34  E-value=0.0062  Score=43.14  Aligned_cols=38  Identities=11%  Similarity=0.142  Sum_probs=25.6

Q ss_pred             HHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+..+.+.+++..-....+-.++++|.|++|||||+.
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~   56 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAV   56 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHH
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHH
Confidence            44555666666643322234578999999999999973

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.27  E-value=0.019  Score=43.93  Aligned_cols=46  Identities=11%  Similarity=-0.001  Sum_probs=36.3

Q ss_pred             hhhccEEEEEEeCC-CCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          22 VEAADVILEVVDAR-DPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        22 i~~aDviL~VvD~~-~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +.+|++.++++|.. .++...+..+.+.+.+ . .++|+|+||+|....
T Consensus       109 iaRal~~lllldep~~gL~~lD~~~l~~L~~-~-~~vI~Vi~K~D~lt~  155 (270)
T 3sop_A          109 DTRVHCCLYFISPTGHSLRPLDLEFMKHLSK-V-VNIIPVIAKADTMTL  155 (270)
T ss_dssp             CCSCCEEEEEECCCSSSCCHHHHHHHHHHHT-T-SEEEEEETTGGGSCH
T ss_pred             hheeeeeeEEEecCCCcCCHHHHHHHHHHHh-c-CcEEEEEeccccCCH
Confidence            34578999999954 6677777777777776 4 999999999998876

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.15  E-value=0.012  Score=49.19  Aligned_cols=20  Identities=10%  Similarity=-0.074  Sum_probs=16.3

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+..|+++|.|||||||++.
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~  119 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCS  119 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            35789999999999999863

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.11  E-value=0.013  Score=46.08  Aligned_cols=37  Identities=14%  Similarity=0.209  Sum_probs=25.2

Q ss_pred             HHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         124 ELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       124 ~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..|......+........+.-+||+|.+++|||||+.
T Consensus        74 ~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~  110 (321)
T 3tqc_A           74 QTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSR  110 (321)
T ss_dssp             HHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHH
Confidence            3444444445544333456889999999999999863

>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=94.90  E-value=0.0048  Score=50.80  Aligned_cols=19  Identities=21%  Similarity=0.132  Sum_probs=16.4

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      -.-|+|+|.||+|||||.+
T Consensus        67 v~vVsV~G~~~~GKStLLN   85 (447)
T 3q5d_A           67 VVAVSVAGAFRKGKSFLMD   85 (447)
T ss_dssp             EEEEEEEESTTSSHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHH
Confidence            3678999999999999864

>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=94.68  E-value=0.019  Score=46.95  Aligned_cols=19  Identities=11%  Similarity=0.003  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..|+++|.|||||||++.
T Consensus        99 ~~vI~ivG~~GvGKTTla~  117 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAA  117 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHH
T ss_pred             CeEEEEECCCCCCHHHHHH
Confidence            4679999999999999863

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=94.68  E-value=0.013  Score=49.07  Aligned_cols=40  Identities=10%  Similarity=-0.171  Sum_probs=27.4

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +|.+.-++.|.+.+..........|+|+|+++||||||+.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~  170 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIAS  170 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHH
Confidence            5766666666665543222233578999999999999974

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=94.60  E-value=0.017  Score=40.21  Aligned_cols=37  Identities=11%  Similarity=0.038  Sum_probs=24.2

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.++.++.+.+.+...   ..-.+.+.|.|++|||+|+.
T Consensus        25 ~g~~~~~~~l~~~l~~~---~~~~~ll~G~~G~GKT~l~~   61 (195)
T 1jbk_A           25 IGRDEEIRRTIQVLQRR---TKNNPVLIGEPGVGKTAIVE   61 (195)
T ss_dssp             CSCHHHHHHHHHHHTSS---SSCEEEEECCTTSCHHHHHH
T ss_pred             ccchHHHHHHHHHHhcC---CCCceEEECCCCCCHHHHHH
Confidence            34455555555554332   22458899999999999874

>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=94.47  E-value=0.38  Score=38.37  Aligned_cols=75  Identities=5%  Similarity=-0.146  Sum_probs=41.2

Q ss_pred             CCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeecCCCCcch----hhhhhhhc-cccccCHHHHHH
Q psy8220          54 GKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSRSQKDAQT----ERDLKAIN-VSSCVGAELLML  128 (161)
Q Consensus        54 ~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~~~~~~~~----~~~~~~~~-~~~~~g~~~L~~  128 (161)
                      .+|+++|.||.|..-..  . ...+.+..|...    .+.+++++||+....-..    ....++.. .....|++.|.+
T Consensus       199 ~KPvi~v~N~~e~~~~~--n-~~~~~v~~~~~~----~~~~~i~~sA~~E~el~~l~~~e~~~~l~~~g~~~~gl~~li~  271 (363)
T 1jal_A          199 LKPTMYIANVNEDGFEN--N-PYLDRVREIAAK----EGAVVVPVCAAIESEIAELDDEEKVEFLQDLGIEEPGLNRVIR  271 (363)
T ss_dssp             TSCEEEEEECCTTCSSS--C-HHHHHHHHHHHH----TTCEEEEECHHHHHHGGGSCSSTTHHHHTTSSCCSCTTHHHHH
T ss_pred             CCcEEEEEecccccccc--c-HHHHHHHHHHHH----cCCCEEEechHHHHHHHhcCHHHHHHHHHHhCcccccHHHHHH
Confidence            59999999999964210  0 111223333322    256789999875311111    01122221 223578999999


Q ss_pred             HHHhHhh
Q psy8220         129 LLGNYTR  135 (161)
Q Consensus       129 ~l~~~~~  135 (161)
                      ...+.+.
T Consensus       272 ~~~~~L~  278 (363)
T 1jal_A          272 AGYALLN  278 (363)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHhC
Confidence            8877764

>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=94.43  E-value=0.02  Score=50.14  Aligned_cols=40  Identities=20%  Similarity=0.050  Sum_probs=25.5

Q ss_pred             cCHHHHHHHHHhH---hhcCCC---CCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNY---TRNKDI---KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~---~~~~~~---~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|++.|...+.++   +..-+.   -...+|+|||.+|+|||||+.
T Consensus        24 ~~~~~li~~inkl~d~l~~lg~~~~i~lp~I~vvG~~saGKSSlln   69 (772)
T 3zvr_A           24 RGMEDLIPLVNRLQDAFSAIGQNADLDLPQIAVVGGQSAGKSSVLE   69 (772)
T ss_dssp             -CGGGHHHHHHHHHHHHHTTTCCGGGCCSEEEEEECTTTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHhcCccccCCCCEEEEECCCCCcHHHHHH
Confidence            5655555554443   332221   123599999999999999974

>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=94.31  E-value=0.0086  Score=49.37  Aligned_cols=19  Identities=11%  Similarity=0.240  Sum_probs=17.3

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      ..++|+++|.+|+|||||+
T Consensus        42 ~~~~i~iiG~vd~GKSTLi   60 (467)
T 1r5b_A           42 EHVNIVFIGHVDAGKSTLG   60 (467)
T ss_dssp             EEEEEEEEECGGGTHHHHH
T ss_pred             CeeEEEEEECCCCCHHHHH
Confidence            3589999999999999997

>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=94.16  E-value=0.13  Score=41.90  Aligned_cols=97  Identities=10%  Similarity=-0.069  Sum_probs=53.8

Q ss_pred             hhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCC--Cc------ccccccHHHHHHHHhh-hhccC--
Q psy8220          22 VEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKP--ST------KIQSGSMAQIFQTWIP-YNSIQ--   90 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~--~~------~~~~~~~~~~~~~~~~-~~~~~--   90 (161)
                      +.+.|..+. +++.. ...++..+...+.. .++|+++|+||.|+.  ++      ......+.+.+..+.. .+.+.  
T Consensus       146 L~~~~~~~~-lS~G~-~~kqrv~la~aL~~-~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~g~  222 (413)
T 1tq4_A          146 FYEYDFFII-ISATR-FKKNDIDIAKAISM-MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGI  222 (413)
T ss_dssp             GGGCSEEEE-EESSC-CCHHHHHHHHHHHH-TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTC
T ss_pred             CCccCCeEE-eCCCC-ccHHHHHHHHHHHh-cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            556677666 77754 23445566666665 579999999999964  10      0001111122222210 01111  


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ....++++|+...               ...|+++|.+.|.+.++.
T Consensus       223 ~~~~iiliSsh~l---------------~~~~~e~L~d~I~~~Lpe  253 (413)
T 1tq4_A          223 AEPPIFLLSNKNV---------------CHYDFPVLMDKLISDLPI  253 (413)
T ss_dssp             SSCCEEECCTTCT---------------TSTTHHHHHHHHHHHSCG
T ss_pred             CCCcEEEEecCcC---------------CccCHHHHHHHHHHhCcc
Confidence            1234688898432               116789999988877764

>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=94.15  E-value=0.032  Score=43.29  Aligned_cols=20  Identities=10%  Similarity=0.220  Sum_probs=17.5

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+..+||+|.+++|||||+.
T Consensus        79 ~g~iigI~G~~GsGKSTl~~   98 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTAR   98 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHH
Confidence            45789999999999999863

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=94.00  E-value=0.022  Score=39.69  Aligned_cols=37  Identities=8%  Similarity=0.011  Sum_probs=24.0

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.+.+.+...   ..-.+.+.|.|++|||+|+.
T Consensus        25 ~g~~~~~~~l~~~l~~~---~~~~vll~G~~G~GKT~la~   61 (187)
T 2p65_A           25 IGRDTEIRRAIQILSRR---TKNNPILLGDPGVGKTAIVE   61 (187)
T ss_dssp             CSCHHHHHHHHHHHTSS---SSCEEEEESCGGGCHHHHHH
T ss_pred             hcchHHHHHHHHHHhCC---CCCceEEECCCCCCHHHHHH
Confidence            34455555555554332   22467899999999999864

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=93.60  E-value=0.04  Score=40.84  Aligned_cols=38  Identities=11%  Similarity=0.101  Sum_probs=26.8

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ...-.+...|+.++...  ++.-.+.+.|.||+||||++.
T Consensus        39 ~~~~~f~~~l~~~~~~i--Pkkn~ili~GPPGtGKTt~a~   76 (212)
T 1tue_A           39 IEFITFLGALKSFLKGT--PKKNCLVFCGPANTGKSYFGM   76 (212)
T ss_dssp             CCHHHHHHHHHHHHHTC--TTCSEEEEESCGGGCHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC--CcccEEEEECCCCCCHHHHHH
Confidence            55666677777777542  222358899999999998863

>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=93.50  E-value=0.038  Score=39.35  Aligned_cols=37  Identities=16%  Similarity=0.222  Sum_probs=24.9

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.++..+.+.+.+....   .-.+.+.|.|++|||+|+.
T Consensus        20 ~g~~~~~~~l~~~l~~~~---~~~~ll~G~~G~GKT~l~~   56 (226)
T 2chg_A           20 VGQDEVIQRLKGYVERKN---IPHLLFSGPPGTGKTATAI   56 (226)
T ss_dssp             CSCHHHHHHHHHHHHTTC---CCCEEEECSTTSSHHHHHH
T ss_pred             cCcHHHHHHHHHHHhCCC---CCeEEEECCCCCCHHHHHH
Confidence            344556666666655432   1138999999999999863

>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=93.42  E-value=0.024  Score=43.46  Aligned_cols=20  Identities=15%  Similarity=0.082  Sum_probs=17.2

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+..|+|.|.|++||||++.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~   93 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQ   93 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHH
Confidence            45789999999999999863

>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=93.41  E-value=0.049  Score=42.92  Aligned_cols=20  Identities=10%  Similarity=-0.039  Sum_probs=17.4

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-.++++|.+++||||++.
T Consensus       128 ~g~vi~lvG~nGaGKTTll~  147 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIA  147 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            45789999999999999863

>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=93.23  E-value=0.023  Score=46.66  Aligned_cols=19  Identities=11%  Similarity=-0.041  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..|.++|.|++||||+..
T Consensus        39 ~~~IvlvGlpGsGKSTia~   57 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISK   57 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHH
Confidence            4789999999999999863

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=93.17  E-value=0.034  Score=46.54  Aligned_cols=39  Identities=13%  Similarity=0.005  Sum_probs=28.6

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.|.+.+.... ...--|+|.|++++|||||+.
T Consensus       127 vGR~~~l~~L~~~L~~~~-~~~~~v~I~G~~GiGKTtLa~  165 (591)
T 1z6t_A          127 VTRKKLVNAIQQKLSKLK-GEPGWVTIHGMAGCGKSVLAA  165 (591)
T ss_dssp             CCCHHHHHHHHHHHTTST-TSCEEEEEECCTTSSHHHHHH
T ss_pred             cccHHHHHHHHHHHhccc-CCCceEEEEcCCCCCHHHHHH
Confidence            677888888877765321 123468899999999999974

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=93.07  E-value=0.061  Score=41.79  Aligned_cols=20  Identities=10%  Similarity=-0.059  Sum_probs=17.2

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-.+++||.+++|||||+.
T Consensus        99 ~g~vi~lvG~nGsGKTTll~  118 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLG  118 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHH
Confidence            45689999999999999863

>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=92.96  E-value=0.047  Score=39.29  Aligned_cols=38  Identities=16%  Similarity=0.048  Sum_probs=25.3

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.|.+.+....  .+--+.+.|.|++|||||+.
T Consensus        26 ~g~~~~~~~l~~~l~~~~--~~~~~ll~G~~G~GKT~l~~   63 (250)
T 1njg_A           26 VGQEHVLTALANGLSLGR--IHHAYLFSGTRGVGKTSIAR   63 (250)
T ss_dssp             CSCHHHHHHHHHHHHHTC--CCSEEEEECSTTSCHHHHHH
T ss_pred             hCcHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHH
Confidence            455666666666554321  11257889999999999864

>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=92.80  E-value=0.069  Score=49.04  Aligned_cols=21  Identities=19%  Similarity=0.378  Sum_probs=18.3

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..++|+++|.+|+|||||+.
T Consensus       294 k~~lnIvIIGhvDvGKSTLIn  314 (1289)
T 3avx_A          294 KPHVNVGTIGHVDHGKTTLTA  314 (1289)
T ss_dssp             CCEEEEEEEESTTSSHHHHHH
T ss_pred             CCeeEEEEEcCCCCCHHHHHH
Confidence            345899999999999999973

>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=92.78  E-value=0.61  Score=38.25  Aligned_cols=45  Identities=11%  Similarity=0.011  Sum_probs=30.2

Q ss_pred             hhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          22 VEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      +-.+|.+++|+|+..+.  ........+.+ .-....+|+||+|....
T Consensus       210 ~~~pd~vlLVvDA~~gq--~a~~~a~~f~~-~~~i~gVIlTKlD~~~~  254 (443)
T 3dm5_A          210 VIHPHEVILVIDGTIGQ--QAYNQALAFKE-ATPIGSIIVTKLDGSAK  254 (443)
T ss_dssp             HHCCSEEEEEEEGGGGG--GHHHHHHHHHH-SCTTEEEEEECCSSCSS
T ss_pred             hhcCceEEEEEeCCCch--hHHHHHHHHHh-hCCCeEEEEECCCCccc
Confidence            34689999999998642  22333444443 34566789999998765

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=92.77  E-value=0.037  Score=42.29  Aligned_cols=19  Identities=11%  Similarity=0.218  Sum_probs=16.4

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      ...+.+.|.|++|||+|+.
T Consensus        67 ~~~vll~G~~GtGKT~la~   85 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVAL   85 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHH
Confidence            4579999999999999873

>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=92.77  E-value=0.075  Score=41.42  Aligned_cols=19  Identities=16%  Similarity=0.134  Sum_probs=16.4

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+-.++++|.+++||||++
T Consensus       103 ~~~vi~ivG~~GsGKTTl~  121 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSC  121 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHH
Confidence            3467899999999999986

>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=92.72  E-value=0.032  Score=43.57  Aligned_cols=21  Identities=19%  Similarity=0.340  Sum_probs=18.2

Q ss_pred             CCceEEEEEeecCCCcccccC
Q psy8220         140 KTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       140 ~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+..+||+|.+++|||||+.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~  108 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTAR  108 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHH
Confidence            356789999999999999974

>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=92.71  E-value=0.08  Score=43.49  Aligned_cols=19  Identities=11%  Similarity=-0.015  Sum_probs=16.9

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      ++..|+++|.|||||||++
T Consensus        99 ~p~vIlivG~~G~GKTTt~  117 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTV  117 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHH
Confidence            3678999999999999986

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=92.60  E-value=0.051  Score=41.80  Aligned_cols=31  Identities=19%  Similarity=0.268  Sum_probs=20.7

Q ss_pred             HHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         130 LGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       130 l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +++++...+.+.+.-+.+.|.|++|||+|+.
T Consensus        24 ~k~~l~~~~~~~p~~lLl~GppGtGKT~la~   54 (293)
T 3t15_A           24 TKNFLKLPNIKVPLILGIWGGKGQGKSFQCE   54 (293)
T ss_dssp             HHTTSCCTTCCCCSEEEEEECTTSCHHHHHH
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHH
Confidence            3444433333445667888999999999864

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=92.59  E-value=0.072  Score=38.10  Aligned_cols=38  Identities=3%  Similarity=-0.070  Sum_probs=24.6

Q ss_pred             HHHHHHHHHhHhhcCCCC-CceEEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIK-TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~-~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+..+.+.+++...... .+..+.+.|.|++|||+|+.
T Consensus        34 ~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~   72 (202)
T 2w58_A           34 RIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLA   72 (202)
T ss_dssp             HHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHH
Confidence            344555666666543211 12468999999999999863

>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=92.54  E-value=0.069  Score=41.33  Aligned_cols=19  Identities=11%  Similarity=0.031  Sum_probs=16.5

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+-.++++|.+++||||++
T Consensus       104 ~g~vi~lvG~~GsGKTTl~  122 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTL  122 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHH
Confidence            3468999999999999986

>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=92.37  E-value=0.074  Score=38.55  Aligned_cols=34  Identities=9%  Similarity=-0.050  Sum_probs=23.8

Q ss_pred             HHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         124 ELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       124 ~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ....+.+..++...   ..-.+.+.|.|++|||||+.
T Consensus        37 ~~~~~~l~~~~~~~---~~~~~ll~G~~G~GKT~la~   70 (242)
T 3bos_A           37 DELIGALKSAASGD---GVQAIYLWGPVKSGRTHLIH   70 (242)
T ss_dssp             HHHHHHHHHHHHTC---SCSEEEEECSTTSSHHHHHH
T ss_pred             HHHHHHHHHHHhCC---CCCeEEEECCCCCCHHHHHH
Confidence            45556666665432   23568999999999999863

>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=92.24  E-value=0.027  Score=43.04  Aligned_cols=18  Identities=11%  Similarity=-0.079  Sum_probs=15.8

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --++++|.|++|||||++
T Consensus        36 ~~~~i~G~~G~GKTTl~~   53 (296)
T 1cr0_A           36 EVIMVTSGSGMGKSTFVR   53 (296)
T ss_dssp             CEEEEEESTTSSHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHH
Confidence            468999999999999964

>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=92.22  E-value=0.036  Score=43.34  Aligned_cols=19  Identities=16%  Similarity=0.076  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++|+|.+++|||||+.
T Consensus       126 Ge~vaIvGpsGsGKSTLl~  144 (305)
T 2v9p_A          126 KNCLAFIGPPNTGKSMLCN  144 (305)
T ss_dssp             CSEEEEECSSSSSHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHH
Confidence            3579999999999999964

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=92.13  E-value=0.098  Score=41.72  Aligned_cols=20  Identities=10%  Similarity=-0.059  Sum_probs=17.2

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-.+++||.+++|||||+.
T Consensus       156 ~g~vi~lvG~nGsGKTTll~  175 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLG  175 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHH
Confidence            45689999999999999863

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=92.05  E-value=0.055  Score=40.82  Aligned_cols=40  Identities=13%  Similarity=0.037  Sum_probs=26.0

Q ss_pred             cCHHHHHHHHHhHhhcC----------CCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNK----------DIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~----------~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.++.++.|.+++...          +...+..+.+.|.|++|||+|+.
T Consensus        20 ~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~   69 (285)
T 3h4m_A           20 GGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAK   69 (285)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHH
Confidence            45666666666554210          11233569999999999999874

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=92.01  E-value=0.04  Score=38.19  Aligned_cols=18  Identities=22%  Similarity=-0.104  Sum_probs=15.6

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|.|++|||||+.
T Consensus        37 ~~~~l~G~~G~GKTtL~~   54 (149)
T 2kjq_A           37 QFIYVWGEEGAGKSHLLQ   54 (149)
T ss_dssp             SEEEEESSSTTTTCHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            368899999999999864

>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=91.94  E-value=0.11  Score=43.43  Aligned_cols=20  Identities=10%  Similarity=0.069  Sum_probs=17.3

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-.+++||.+++|||||+.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~  311 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIG  311 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHH
Confidence            45689999999999999974

>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=91.69  E-value=0.1  Score=40.81  Aligned_cols=17  Identities=6%  Similarity=0.075  Sum_probs=15.3

Q ss_pred             EEEEEeecCCCcccccC
Q psy8220         144 TVGVVGECNIAGSIRDL  160 (161)
Q Consensus       144 ~v~vvG~pNVGKSsl~~  160 (161)
                      .++|.|.|++|||||+.
T Consensus        46 ~~li~G~~G~GKTtl~~   62 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLR   62 (389)
T ss_dssp             EEEEECCTTSSHHHHHH
T ss_pred             eEEEECCCCCCHHHHHH
Confidence            68999999999999874

>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=91.68  E-value=0.07  Score=41.03  Aligned_cols=40  Identities=15%  Similarity=-0.006  Sum_probs=25.5

Q ss_pred             cCHHHHHHHHHhHhhc----------CCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRN----------KDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~----------~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.|.+.+..          .+...+--+.+.|.|++|||+|+.
T Consensus        18 ~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~   67 (301)
T 3cf0_A           18 GGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAK   67 (301)
T ss_dssp             CSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHH
Confidence            4556666666554321          112234568999999999999864

>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=91.53  E-value=0.12  Score=40.48  Aligned_cols=18  Identities=6%  Similarity=-0.012  Sum_probs=15.7

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.+.|.|++|||||+.
T Consensus        46 ~~vll~G~~G~GKT~la~   63 (384)
T 2qby_B           46 FSNLFLGLTGTGKTFVSK   63 (384)
T ss_dssp             CEEEEEECTTSSHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHH
Confidence            468899999999999874

>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=91.53  E-value=0.2  Score=40.82  Aligned_cols=42  Identities=14%  Similarity=0.165  Sum_probs=28.0

Q ss_pred             hccEEEEEEeCCCCCCCCcHHHHHHHhCCCCC-c-EEEEeecCCCCCc
Q psy8220          24 AADVILEVVDARDPMGTRCKVAEDLVVGTPGK-K-LVIVINKAGKPST   69 (161)
Q Consensus        24 ~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k-~-~ilVlNK~Dl~~~   69 (161)
                      .+|.+++|+|+..+.  ........+..  .. | ..+|+||+|....
T Consensus       210 ~~d~vllVvda~~g~--~~~~~~~~~~~--~~~~i~gvVlnK~D~~~~  253 (432)
T 2v3c_C          210 NPDEIILVIDGTIGQ--QAGIQAKAFKE--AVGEIGSIIVTKLDGSAK  253 (432)
T ss_dssp             CCSEEEEEEEGGGGG--GHHHHHHHHHT--TSCSCEEEEEECSSSCST
T ss_pred             cCcceeEEeeccccH--HHHHHHHHHhh--cccCCeEEEEeCCCCccc
Confidence            699999999997653  11222233332  35 5 8899999998654

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=91.53  E-value=0.14  Score=40.11  Aligned_cols=19  Identities=11%  Similarity=-0.087  Sum_probs=16.4

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+-.++++|.+++||||++
T Consensus       104 ~~~vI~ivG~~G~GKTT~~  122 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSL  122 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHH
Confidence            4567999999999999986

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=91.51  E-value=0.071  Score=39.73  Aligned_cols=18  Identities=17%  Similarity=0.052  Sum_probs=15.7

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      ..++++|.|++|||||+.
T Consensus        46 ~~vll~G~~GtGKT~la~   63 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAK   63 (257)
T ss_dssp             CEEEEECCTTSCHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHH
Confidence            458999999999999864

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=91.43  E-value=0.099  Score=42.94  Aligned_cols=38  Identities=11%  Similarity=0.064  Sum_probs=26.9

Q ss_pred             ccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         120 CVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       120 ~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      -.|-+..++.+.+.+...   ..-.+.++|-|+||||+|+.
T Consensus       182 iiGr~~~i~~l~~~l~r~---~~~~~LL~G~pG~GKT~la~  219 (468)
T 3pxg_A          182 VIGRSKEIQRVIEVLSRR---TKNNPVLIGEPGVGKTAIAE  219 (468)
T ss_dssp             CCCCHHHHHHHHHHHHCS---SSCEEEEESCTTTTTHHHHH
T ss_pred             ccCcHHHHHHHHHHHhcc---CCCCeEEECCCCCCHHHHHH
Confidence            356666666666666432   22468999999999999863

>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=91.38  E-value=0.073  Score=41.40  Aligned_cols=37  Identities=14%  Similarity=0.109  Sum_probs=25.5

Q ss_pred             cCHHHHHHHHHhHh-hcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYT-RNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~-~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-+...+.|.+.+ ...  ..+. +++.|.|++|||||+.
T Consensus        17 vg~~~~~~~l~~~~~~~~--~~~~-~ll~Gp~G~GKTtl~~   54 (354)
T 1sxj_E           17 SHNEELTNFLKSLSDQPR--DLPH-LLLYGPNGTGKKTRCM   54 (354)
T ss_dssp             CSCHHHHHHHHTTTTCTT--CCCC-EEEECSTTSSHHHHHH
T ss_pred             cCCHHHHHHHHHHHhhCC--CCCe-EEEECCCCCCHHHHHH
Confidence            34566667777665 322  1223 8999999999999974

>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=91.31  E-value=0.13  Score=38.57  Aligned_cols=20  Identities=10%  Similarity=0.007  Sum_probs=16.9

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ....+.+.|.|++|||+|+.
T Consensus        63 ~~~~vLl~G~~GtGKT~la~   82 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAA   82 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHH
Confidence            44678999999999999864

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=91.19  E-value=0.048  Score=41.25  Aligned_cols=18  Identities=11%  Similarity=0.012  Sum_probs=15.6

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.|+++|+|++||||+..
T Consensus        49 ~~i~l~G~~GsGKSTl~~   66 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGK   66 (250)
T ss_dssp             CCEEEECSTTSCHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            369999999999999853

>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=91.16  E-value=0.047  Score=40.65  Aligned_cols=16  Identities=19%  Similarity=0.100  Sum_probs=14.7

Q ss_pred             EEEEeecCCCcccccC
Q psy8220         145 VGVVGECNIAGSIRDL  160 (161)
Q Consensus       145 v~vvG~pNVGKSsl~~  160 (161)
                      ++++|.|++|||||+.
T Consensus        52 ~ll~G~~G~GKTtl~~   67 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLAR   67 (254)
T ss_dssp             EEEECCTTSSHHHHHH
T ss_pred             EEEECCCCCCHHHHHH
Confidence            9999999999999864

>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=90.85  E-value=0.061  Score=41.84  Aligned_cols=19  Identities=21%  Similarity=0.095  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.+++|||||+.
T Consensus       102 g~vi~lvG~nGsGKTTll~  120 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIA  120 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHH
Confidence            4589999999999999863

>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=90.81  E-value=0.046  Score=43.32  Aligned_cols=19  Identities=21%  Similarity=0.156  Sum_probs=17.0

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      .-+++|+|.+++|||||+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk  188 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVN  188 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHH
Confidence            4689999999999999974

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=90.76  E-value=0.11  Score=46.67  Aligned_cols=40  Identities=13%  Similarity=0.018  Sum_probs=29.6

Q ss_pred             ccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         120 CVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       120 ~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      -.|.++.++.|.+.+.... ...-.|+|+|+++||||||+.
T Consensus       126 ~vgR~~~~~~l~~~l~~~~-~~~~~v~i~G~gG~GKTtLa~  165 (1249)
T 3sfz_A          126 FVTRKKLVHAIQQKLWKLN-GEPGWVTIYGMAGCGKSVLAA  165 (1249)
T ss_dssp             CCCCHHHHHHHHHHHHTTT-TSCEEEEEECSTTSSHHHHHH
T ss_pred             eccHHHHHHHHHHHHhhcc-CCCCEEEEEeCCCCCHHHHHH
Confidence            4688888888888774321 123468899999999999974

>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=90.49  E-value=0.14  Score=39.83  Aligned_cols=37  Identities=5%  Similarity=0.100  Sum_probs=25.1

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-+...+.|...+.....  + .+++.|.|++||||++.
T Consensus        28 ~g~~~~~~~L~~~i~~g~~--~-~~ll~Gp~G~GKTtla~   64 (340)
T 1sxj_C           28 YGQNEVITTVRKFVDEGKL--P-HLLFYGPPGTGKTSTIV   64 (340)
T ss_dssp             CSCHHHHHHHHHHHHTTCC--C-CEEEECSSSSSHHHHHH
T ss_pred             cCcHHHHHHHHHHHhcCCC--c-eEEEECCCCCCHHHHHH
Confidence            3445666666666654321  1 28999999999999874

>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=90.25  E-value=0.095  Score=40.58  Aligned_cols=18  Identities=11%  Similarity=0.121  Sum_probs=15.9

Q ss_pred             ceEEEEEeecCCCccccc
Q psy8220         142 SITVGVVGECNIAGSIRD  159 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~  159 (161)
                      +..++++|.+|+||||++
T Consensus        98 ~~vi~i~G~~G~GKTT~~  115 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTA  115 (297)
T ss_dssp             SEEEEEECSSCSSTTHHH
T ss_pred             CeEEEEECCCCCCHHHHH
Confidence            567889999999999986

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=90.22  E-value=0.085  Score=40.08  Aligned_cols=40  Identities=8%  Similarity=-0.012  Sum_probs=25.3

Q ss_pred             cCHHHHHHHHHhHhhc--------CC-CCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRN--------KD-IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~--------~~-~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.|.+.+..        .. ...+.-+.+.|.|++|||||+.
T Consensus        24 ~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~   72 (297)
T 3b9p_A           24 AGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLAR   72 (297)
T ss_dssp             CCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHH
T ss_pred             CChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHH
Confidence            4556666666654421        00 0123578999999999999874

>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=90.22  E-value=0.08  Score=41.19  Aligned_cols=40  Identities=5%  Similarity=-0.155  Sum_probs=25.0

Q ss_pred             cCHHHHHHHHHhHhhcCC-CCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKD-IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~-~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+.-++.|.+.+.... ...+--+++.|.|++|||||+.
T Consensus        23 ~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~   63 (386)
T 2qby_A           23 PHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVK   63 (386)
T ss_dssp             TTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHH
Confidence            455555555555443210 1123468899999999999974

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=90.09  E-value=0.067  Score=40.50  Aligned_cols=16  Identities=19%  Similarity=0.100  Sum_probs=14.7

Q ss_pred             EEEEeecCCCcccccC
Q psy8220         145 VGVVGECNIAGSIRDL  160 (161)
Q Consensus       145 v~vvG~pNVGKSsl~~  160 (161)
                      ++++|.|++|||||+.
T Consensus        76 vll~Gp~GtGKTtl~~   91 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLAR   91 (278)
T ss_dssp             EEEECCTTSSHHHHHH
T ss_pred             EEEECCCcChHHHHHH
Confidence            8999999999999864

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=90.05  E-value=0.21  Score=40.77  Aligned_cols=19  Identities=11%  Similarity=-0.022  Sum_probs=16.4

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+..|+++|.+||||||++
T Consensus        99 ~~~vI~ivG~~GvGKTT~a  117 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSV  117 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHH
Confidence            3568899999999999986

>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=90.04  E-value=0.063  Score=40.43  Aligned_cols=18  Identities=22%  Similarity=0.296  Sum_probs=15.9

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|..++|||||+.
T Consensus        36 e~~~i~G~nGsGKSTLl~   53 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTK   53 (247)
T ss_dssp             CEEEEECSTTSSHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            369999999999999964

>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=89.90  E-value=0.061  Score=40.97  Aligned_cols=19  Identities=21%  Similarity=0.015  Sum_probs=16.3

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|..++|||||+.
T Consensus        50 Gei~~liG~NGsGKSTLlk   68 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLR   68 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHH
T ss_pred             CCEEEEEcCCCCcHHHHHH
Confidence            3479999999999999964

>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=89.89  E-value=0.16  Score=39.27  Aligned_cols=40  Identities=15%  Similarity=-0.017  Sum_probs=27.0

Q ss_pred             cCHHHHHHHHHhHhh------c---CCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTR------N---KDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~------~---~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.|.+.+.      .   .....+..+.+.|-|++|||+|+.
T Consensus        21 ~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~   69 (322)
T 3eie_A           21 AGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAK   69 (322)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHH
T ss_pred             cChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHH
Confidence            566777777766541      1   111234578999999999999874

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=89.79  E-value=0.11  Score=40.58  Aligned_cols=40  Identities=8%  Similarity=-0.144  Sum_probs=25.4

Q ss_pred             cCHHHHHHHHHhHhhcCC-CCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKD-IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~-~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.|.+.+.... ...+-.+.+.|.|++|||||+.
T Consensus        22 ~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~   62 (387)
T 2v1u_A           22 PHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVAR   62 (387)
T ss_dssp             TTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHH
Confidence            455555666655553210 1123468899999999999874

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=89.70  E-value=0.069  Score=40.50  Aligned_cols=19  Identities=21%  Similarity=0.165  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|..++|||||+.
T Consensus        46 Ge~~~i~G~nGsGKSTLl~   64 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAK   64 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3479999999999999964

>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=89.65  E-value=0.066  Score=39.52  Aligned_cols=17  Identities=18%  Similarity=0.053  Sum_probs=15.3

Q ss_pred             EEEEEeecCCCcccccC
Q psy8220         144 TVGVVGECNIAGSIRDL  160 (161)
Q Consensus       144 ~v~vvG~pNVGKSsl~~  160 (161)
                      .++++|..++|||||..
T Consensus        37 ~~~iiG~NGsGKSTLlk   53 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLK   53 (214)
T ss_dssp             CEEEECCTTSSHHHHHH
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            59999999999999964

>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=89.62  E-value=0.073  Score=43.07  Aligned_cols=19  Identities=21%  Similarity=-0.122  Sum_probs=15.9

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +.-|.++|.|++||||++.
T Consensus       258 ~~lIil~G~pGSGKSTla~  276 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQ  276 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHH
Confidence            4568888999999999863

>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=89.56  E-value=0.067  Score=40.77  Aligned_cols=18  Identities=17%  Similarity=0.063  Sum_probs=15.9

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|..++|||||+.
T Consensus        38 e~~~liG~nGsGKSTLl~   55 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLR   55 (266)
T ss_dssp             CEEEEECCTTSCHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHH
Confidence            469999999999999964

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=89.53  E-value=0.073  Score=40.60  Aligned_cols=16  Identities=13%  Similarity=0.050  Sum_probs=14.8

Q ss_pred             EEEEeecCCCcccccC
Q psy8220         145 VGVVGECNIAGSIRDL  160 (161)
Q Consensus       145 v~vvG~pNVGKSsl~~  160 (161)
                      ++++|.|++|||||+.
T Consensus        47 vlL~Gp~GtGKTtLak   62 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAK   62 (274)
T ss_dssp             EEEESSTTSCHHHHHH
T ss_pred             EEEECCCCCcHHHHHH
Confidence            9999999999999964

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=89.46  E-value=0.12  Score=47.80  Aligned_cols=20  Identities=20%  Similarity=0.152  Sum_probs=17.2

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-+|||||.++.|||||+.
T Consensus      1104 ~Ge~vaIVG~SGsGKSTL~~ 1123 (1321)
T 4f4c_A         1104 PGQTLALVGPSGCGKSTVVA 1123 (1321)
T ss_dssp             TTCEEEEECSTTSSTTSHHH
T ss_pred             CCCEEEEECCCCChHHHHHH
Confidence            34589999999999999974

>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=89.31  E-value=0.08  Score=40.31  Aligned_cols=19  Identities=11%  Similarity=0.036  Sum_probs=16.4

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|..++|||||+.
T Consensus        46 Ge~~~l~G~NGsGKSTLlk   64 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSA   64 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3479999999999999964

>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=89.30  E-value=0.072  Score=40.37  Aligned_cols=18  Identities=11%  Similarity=0.115  Sum_probs=16.0

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|..++|||||+.
T Consensus        42 ei~~l~G~NGsGKSTLlk   59 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLR   59 (256)
T ss_dssp             CEEEEECCTTSSHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHH
Confidence            479999999999999964

>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=89.19  E-value=0.075  Score=40.31  Aligned_cols=18  Identities=6%  Similarity=0.080  Sum_probs=15.6

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+.+.|.|++|||+|+.
T Consensus        51 ~~vll~G~~GtGKT~la~   68 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIAR   68 (310)
T ss_dssp             CCEEEECCTTSSHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHH
Confidence            468999999999999864

>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=89.10  E-value=0.095  Score=42.91  Aligned_cols=19  Identities=11%  Similarity=0.090  Sum_probs=16.6

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+..++++|.|||||||++
T Consensus        96 ~~~vI~lvG~~GsGKTTt~  114 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTA  114 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHH
Confidence            3578899999999999986

>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=89.01  E-value=0.057  Score=42.12  Aligned_cols=19  Identities=21%  Similarity=0.120  Sum_probs=16.7

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++|||..++|||||+.
T Consensus        80 Ge~vaivG~sGsGKSTLl~   98 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILR   98 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHH
T ss_pred             CCEEEEECCCCchHHHHHH
Confidence            3589999999999999964

>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=88.96  E-value=0.092  Score=40.63  Aligned_cols=16  Identities=13%  Similarity=-0.037  Sum_probs=14.6

Q ss_pred             EEEEeecCCCcccccC
Q psy8220         145 VGVVGECNIAGSIRDL  160 (161)
Q Consensus       145 v~vvG~pNVGKSsl~~  160 (161)
                      +.+.|.|++||||++.
T Consensus        61 ~ll~G~~G~GKT~la~   76 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTIL   76 (353)
T ss_dssp             EEEECSTTSSHHHHHH
T ss_pred             EEEECCCCCCHHHHHH
Confidence            8999999999999874

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=88.95  E-value=0.087  Score=40.42  Aligned_cols=18  Identities=6%  Similarity=-0.318  Sum_probs=16.0

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|..++|||||+.
T Consensus        48 e~~~liG~NGsGKSTLlk   65 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLN   65 (279)
T ss_dssp             CEEEEECCTTSSHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHH
Confidence            479999999999999964

>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=88.89  E-value=0.087  Score=41.17  Aligned_cols=17  Identities=12%  Similarity=0.055  Sum_probs=15.1

Q ss_pred             EEEEEeecCCCcccccC
Q psy8220         144 TVGVVGECNIAGSIRDL  160 (161)
Q Consensus       144 ~v~vvG~pNVGKSsl~~  160 (161)
                      .++++|.|++|||||+.
T Consensus        53 ~~ll~Gp~G~GKTTLa~   69 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAH   69 (334)
T ss_dssp             CEEEESSTTSSHHHHHH
T ss_pred             eEEEECCCCCcHHHHHH
Confidence            48999999999999964

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=88.87  E-value=0.1  Score=39.88  Aligned_cols=19  Identities=16%  Similarity=0.080  Sum_probs=16.4

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|..++|||||+.
T Consensus        45 Ge~~~i~G~nGsGKSTLlk   63 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAA   63 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3479999999999999964

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=88.86  E-value=0.092  Score=42.88  Aligned_cols=18  Identities=11%  Similarity=-0.009  Sum_probs=15.4

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.|.|.|++|||||++
T Consensus       204 ~liiI~G~pG~GKTtl~l  221 (454)
T 2r6a_A          204 DLIIVAARPSVGKTAFAL  221 (454)
T ss_dssp             CEEEEECCTTSCHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            467888999999999964

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=88.83  E-value=0.11  Score=40.29  Aligned_cols=40  Identities=10%  Similarity=0.057  Sum_probs=23.9

Q ss_pred             cCHHHHHHHHHhHhhcC--CCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNK--DIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~--~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.+...+...  .......|.+.|.|++|||+|+.
T Consensus        32 iG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~   73 (338)
T 3pfi_A           32 IGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLAN   73 (338)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHH
Confidence            34455555555444321  01122358999999999999864

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=88.75  E-value=0.18  Score=38.44  Aligned_cols=37  Identities=19%  Similarity=0.266  Sum_probs=25.5

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-++..+.|.+.+....   .-.+.+.|.|++||||++.
T Consensus        28 ~g~~~~~~~l~~~l~~~~---~~~~ll~G~~G~GKT~la~   64 (327)
T 1iqp_A           28 VGQEHIVKRLKHYVKTGS---MPHLLFAGPPGVGKTTAAL   64 (327)
T ss_dssp             CSCHHHHHHHHHHHHHTC---CCEEEEESCTTSSHHHHHH
T ss_pred             hCCHHHHHHHHHHHHcCC---CCeEEEECcCCCCHHHHHH
Confidence            455666666666665432   1238999999999999864

>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=88.73  E-value=0.2  Score=39.36  Aligned_cols=19  Identities=5%  Similarity=0.090  Sum_probs=16.3

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..+.+.|.|++|||+++.
T Consensus        51 ~~~vll~GppGtGKT~la~   69 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAE   69 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHH
Confidence            3579999999999999864

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=88.71  E-value=0.18  Score=42.00  Aligned_cols=35  Identities=17%  Similarity=-0.041  Sum_probs=26.3

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-+++.+.+...+...     ..|.+.|.|++|||+|+.
T Consensus        25 vGq~~~i~~l~~al~~~-----~~VLL~GpPGtGKT~LAr   59 (500)
T 3nbx_X           25 YERSHAIRLCLLAALSG-----ESVFLLGPPGIAKSLIAR   59 (500)
T ss_dssp             SSCHHHHHHHHHHHHHT-----CEEEEECCSSSSHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcC-----CeeEeecCchHHHHHHHH
Confidence            56677777766655543     379999999999999863

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=88.56  E-value=0.19  Score=38.37  Aligned_cols=18  Identities=6%  Similarity=-0.027  Sum_probs=15.6

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+.+.|.|++|||+|+.
T Consensus        39 ~~vll~G~~GtGKT~la~   56 (324)
T 1hqc_A           39 EHLLLFGPPGLGKTTLAH   56 (324)
T ss_dssp             CCCEEECCTTCCCHHHHH
T ss_pred             CcEEEECCCCCCHHHHHH
Confidence            458999999999999864

>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=88.56  E-value=0.12  Score=41.48  Aligned_cols=20  Identities=5%  Similarity=-0.175  Sum_probs=16.9

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-.++++|.|++|||||+.
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~  187 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAA  187 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            34578999999999999864

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=88.55  E-value=0.15  Score=40.01  Aligned_cols=35  Identities=3%  Similarity=-0.191  Sum_probs=24.0

Q ss_pred             HHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ...|...|...+...   .+-.+.+.|.|++|||+++.
T Consensus        29 ~~~i~~~L~~~i~~~---~~~~lli~GpPGTGKT~~v~   63 (318)
T 3te6_A           29 FTRIFLPIYDSLMSS---QNKLFYITNADDSTKFQLVN   63 (318)
T ss_dssp             HHHHHHHHHHHHHTT---CCCEEEEECCCSHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCC---CCCeEEEECCCCCCHHHHHH
Confidence            445555555555432   34578999999999999864

>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=88.50  E-value=0.089  Score=42.15  Aligned_cols=19  Identities=21%  Similarity=0.160  Sum_probs=16.4

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|..++|||||+.
T Consensus        54 Gei~~IiGpnGaGKSTLlr   72 (366)
T 3tui_C           54 GQIYGVIGASGAGKSTLIR   72 (366)
T ss_dssp             TCEEEEECCTTSSHHHHHH
T ss_pred             CCEEEEEcCCCchHHHHHH
Confidence            3479999999999999964

>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=88.43  E-value=0.14  Score=42.82  Aligned_cols=19  Identities=11%  Similarity=-0.018  Sum_probs=15.9

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +.-|.++|.|++||||+..
T Consensus        35 ~~lIvlvGlpGSGKSTia~   53 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISK   53 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHH
Confidence            3568889999999999853

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=88.35  E-value=0.083  Score=41.06  Aligned_cols=34  Identities=15%  Similarity=-0.018  Sum_probs=22.6

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|...|-+.+.      +..++--+.|.|.|++|||||++
T Consensus        53 TG~~~LD~~lg------Gl~~G~l~li~G~pG~GKTtl~l   86 (315)
T 3bh0_A           53 SGFTELDRMTY------GYKRRNFVLIAARPSMGKTAFAL   86 (315)
T ss_dssp             CSCHHHHHHHS------SBCTTCEEEEECCTTSSHHHHHH
T ss_pred             CChHHHHhhcC------CCCCCcEEEEEeCCCCCHHHHHH
Confidence            56667666542      12223357778999999999864

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=88.22  E-value=0.13  Score=40.77  Aligned_cols=19  Identities=11%  Similarity=0.088  Sum_probs=16.7

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-+++++|-+++|||||+.
T Consensus        71 Gq~~gIiG~nGaGKTTLl~   89 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLG   89 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3589999999999999964

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=88.14  E-value=0.091  Score=41.59  Aligned_cols=34  Identities=9%  Similarity=0.007  Sum_probs=22.8

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|...|-+.+.-+.+      +--+.|.|.|++|||||++
T Consensus        31 TG~~~LD~~~gGl~~------G~LiiIaG~pG~GKTt~al   64 (338)
T 4a1f_A           31 TGFVQLDNYTSGFNK------GSLVIIGARPSMGKTSLMM   64 (338)
T ss_dssp             CSCHHHHHHHCSBCT------TCEEEEEECTTSCHHHHHH
T ss_pred             CCChHHHHHhcCCCC------CcEEEEEeCCCCCHHHHHH
Confidence            567777665532222      2347778999999999964

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=88.13  E-value=0.25  Score=42.88  Aligned_cols=38  Identities=11%  Similarity=0.064  Sum_probs=27.6

Q ss_pred             ccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         120 CVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       120 ~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      -.|.+..++.+.+.+...   ..-.+.++|-|+||||+++.
T Consensus       182 iiG~~~~i~~l~~~l~~~---~~~~vLL~G~pGtGKT~la~  219 (758)
T 3pxi_A          182 VIGRSKEIQRVIEVLSRR---TKNNPVLIGEPGVGKTAIAE  219 (758)
T ss_dssp             CCCCHHHHHHHHHHHHCS---SSCEEEEESCTTTTTHHHHH
T ss_pred             ccCchHHHHHHHHHHhCC---CCCCeEEECCCCCCHHHHHH
Confidence            466777777777666432   22468999999999999863

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=88.12  E-value=0.29  Score=37.86  Aligned_cols=36  Identities=8%  Similarity=-0.025  Sum_probs=23.3

Q ss_pred             HHHHHHHHhHhhcCCCCCceEEEEEeecCCCccccc
Q psy8220         124 ELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       124 ~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~  159 (161)
                      ....+.+.+++........-.+.+.|-|++|||+|+
T Consensus       134 ~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La  169 (308)
T 2qgz_A          134 MEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLL  169 (308)
T ss_dssp             HHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHH
T ss_pred             HHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHH
Confidence            344555556655421111357899999999999986

>1sxj_B Activator 1 37 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=87.96  E-value=0.21  Score=37.89  Aligned_cols=36  Identities=11%  Similarity=0.070  Sum_probs=23.9

Q ss_pred             CHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         122 GAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       122 g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      |-+...+.|.+.+....  .+. +.+.|.|++||||++.
T Consensus        25 g~~~~~~~l~~~l~~~~--~~~-~ll~G~~G~GKt~la~   60 (323)
T 1sxj_B           25 GNKETIDRLQQIAKDGN--MPH-MIISGMPGIGKTTSVH   60 (323)
T ss_dssp             SCTHHHHHHHHHHHSCC--CCC-EEEECSTTSSHHHHHH
T ss_pred             CCHHHHHHHHHHHHcCC--CCe-EEEECcCCCCHHHHHH
Confidence            44455556666554322  123 8999999999999864

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=87.90  E-value=0.4  Score=36.32  Aligned_cols=18  Identities=6%  Similarity=-0.047  Sum_probs=15.8

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+++.|-|++|||+++.
T Consensus        48 ~~~ll~G~~GtGKt~la~   65 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAK   65 (311)
T ss_dssp             EEEEEESCSSSSHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHH
Confidence            469999999999999874

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=87.79  E-value=0.43  Score=36.48  Aligned_cols=39  Identities=8%  Similarity=-0.032  Sum_probs=27.6

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..-.+...+..++..... +.-.+.+.|.||+|||.|+.
T Consensus        84 ~~~~~~~~~l~~~l~~~~~-~~n~~~l~GppgtGKt~~a~  122 (267)
T 1u0j_A           84 YDPQYAASVFLGWATKKFG-KRNTIWLFGPATTGKTNIAE  122 (267)
T ss_dssp             CCHHHHHHHHHHHHTTCST-TCCEEEEECSTTSSHHHHHH
T ss_pred             CCHHHHHHHHHHHHhCCCC-CCcEEEEECCCCCCHHHHHH
Confidence            5566777777777765411 12358889999999999863

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=87.63  E-value=0.27  Score=38.19  Aligned_cols=40  Identities=13%  Similarity=-0.092  Sum_probs=25.7

Q ss_pred             cCHHHHHHHHHhHhh------c---CCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTR------N---KDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~------~---~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.|.+.+.      .   .....+--+.+.|.|++|||+|+.
T Consensus        15 ~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~   63 (322)
T 1xwi_A           15 AGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAK   63 (322)
T ss_dssp             CSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHH
Confidence            466666666665441      1   111223568899999999999874

>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=87.59  E-value=0.16  Score=40.44  Aligned_cols=19  Identities=16%  Similarity=-0.087  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++|+|.+++|||||+.
T Consensus       136 g~~i~ivG~~GsGKTTll~  154 (372)
T 2ewv_A          136 MGLILVTGPTGSGKSTTIA  154 (372)
T ss_dssp             SEEEEEECSSSSSHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3579999999999999863

>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=87.45  E-value=0.27  Score=41.14  Aligned_cols=40  Identities=10%  Similarity=0.014  Sum_probs=27.5

Q ss_pred             cCHHHHHHHHHhHhhcC---CCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNK---DIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~---~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+.+.+.+.++....   ....+-.++++|.|++|||||+.
T Consensus        84 ~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar  126 (543)
T 3m6a_A           84 HGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAK  126 (543)
T ss_dssp             SSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHH
Confidence            67788877776544211   11134578999999999999864

>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=87.41  E-value=0.13  Score=39.71  Aligned_cols=19  Identities=11%  Similarity=0.083  Sum_probs=16.4

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|..++|||||+.
T Consensus        64 Ge~~~i~G~NGsGKSTLlk   82 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLM   82 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHH
Confidence            3479999999999999964

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=87.40  E-value=0.1  Score=42.94  Aligned_cols=19  Identities=16%  Similarity=0.097  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++|+|..++|||||..
T Consensus       138 Ge~v~IvGpnGsGKSTLlr  156 (460)
T 2npi_A          138 GPRVVIVGGSQTGKTSLSR  156 (460)
T ss_dssp             CCCEEEEESTTSSHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            4579999999999999964

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=87.31  E-value=0.26  Score=38.81  Aligned_cols=17  Identities=12%  Similarity=0.133  Sum_probs=13.8

Q ss_pred             EEEE--EeecCCCcccccC
Q psy8220         144 TVGV--VGECNIAGSIRDL  160 (161)
Q Consensus       144 ~v~v--vG~pNVGKSsl~~  160 (161)
                      -+.|  .|.|++|||||+.
T Consensus        52 ~~li~i~G~~G~GKT~L~~   70 (412)
T 1w5s_A           52 NMIYGSIGRVGIGKTTLAK   70 (412)
T ss_dssp             EEEEECTTCCSSSHHHHHH
T ss_pred             EEEEeCcCcCCCCHHHHHH
Confidence            4555  7999999999974

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=87.12  E-value=0.14  Score=39.61  Aligned_cols=35  Identities=14%  Similarity=-0.011  Sum_probs=24.1

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-+++.+.+...+...     ..+.+.|-|++|||+|+.
T Consensus        30 ~g~~~~~~~l~~~l~~~-----~~vll~G~pGtGKT~la~   64 (331)
T 2r44_A           30 VGQKYMINRLLIGICTG-----GHILLEGVPGLAKTLSVN   64 (331)
T ss_dssp             CSCHHHHHHHHHHHHHT-----CCEEEESCCCHHHHHHHH
T ss_pred             eCcHHHHHHHHHHHHcC-----CeEEEECCCCCcHHHHHH
Confidence            34555666665554432     259999999999999863

>1knx_A Probable HPR(Ser) kinase/phosphatase; HPR kinase, HPR kinase/phosphatase, HPRK/P, P-loop, walker A BOX, catabolite repression; 2.50A {Mycoplasma pneumoniae} SCOP: c.98.2.1 c.91.1.2

Probab=87.01  E-value=0.1  Score=40.94  Aligned_cols=19  Identities=26%  Similarity=0.267  Sum_probs=16.4

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +.=|++.|.+++||||+++
T Consensus       147 g~gvli~G~sG~GKStlal  165 (312)
T 1knx_A          147 GVGVLLTGRSGIGKSECAL  165 (312)
T ss_dssp             TEEEEEEESSSSSHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHH
Confidence            4568899999999999875

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=86.99  E-value=0.25  Score=37.46  Aligned_cols=37  Identities=16%  Similarity=0.259  Sum_probs=25.9

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-+...+.|.+.+....  .+ .+.+.|.|++|||+++.
T Consensus        20 ~g~~~~~~~l~~~l~~~~--~~-~~ll~G~~G~GKt~la~   56 (319)
T 2chq_A           20 VGQDEVIQRLKGYVERKN--IP-HLLFSGPPGTGKTATAI   56 (319)
T ss_dssp             CSCHHHHHHHHTTTTTTC--CC-CEEEESSSSSSHHHHHH
T ss_pred             hCCHHHHHHHHHHHhCCC--CC-eEEEECcCCcCHHHHHH
Confidence            455667777776665432  12 28999999999999864

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.99  E-value=0.25  Score=40.32  Aligned_cols=40  Identities=10%  Similarity=0.003  Sum_probs=27.7

Q ss_pred             cCHHHHHHHHHhHhh----------cCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTR----------NKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~----------~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|+++..+.|.+...          ..+.+.+--|.+.|.|++|||+|+.
T Consensus       175 gGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lak  224 (428)
T 4b4t_K          175 GGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVK  224 (428)
T ss_dssp             CSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHH
Confidence            577877777776542          1123334458889999999999874

>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=86.82  E-value=0.14  Score=37.81  Aligned_cols=18  Identities=6%  Similarity=-0.044  Sum_probs=15.6

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      .-+.+.|.|++|||+|+.
T Consensus        40 ~~vll~G~~GtGKT~la~   57 (262)
T 2qz4_A           40 KGALLLGPPGCGKTLLAK   57 (262)
T ss_dssp             CEEEEESCTTSSHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHH
Confidence            458899999999999864

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=86.76  E-value=0.1  Score=44.44  Aligned_cols=17  Identities=18%  Similarity=0.153  Sum_probs=15.2

Q ss_pred             EEEEEeecCCCcccccC
Q psy8220         144 TVGVVGECNIAGSIRDL  160 (161)
Q Consensus       144 ~v~vvG~pNVGKSsl~~  160 (161)
                      .++|||.+|+|||||+.
T Consensus        47 ~iaIvG~nGsGKSTLL~   63 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLE   63 (608)
T ss_dssp             CEECCCCTTSCHHHHHH
T ss_pred             eEEEECCCCChHHHHHH
Confidence            49999999999999963

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=86.74  E-value=0.36  Score=37.60  Aligned_cols=18  Identities=11%  Similarity=0.106  Sum_probs=15.8

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.+.|.|++|||+|+.
T Consensus        71 ~~vLl~GppGtGKT~la~   88 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAM   88 (368)
T ss_dssp             CEEEEEESTTSSHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            478999999999999874

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=86.63  E-value=0.12  Score=41.97  Aligned_cols=18  Identities=6%  Similarity=-0.108  Sum_probs=15.0

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.|.|.|++|||||++
T Consensus       201 ~l~ii~G~pg~GKT~lal  218 (444)
T 2q6t_A          201 SLNIIAARPAMGKTAFAL  218 (444)
T ss_dssp             CEEEEEECTTSCHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHH
Confidence            357778999999999864

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=86.59  E-value=0.13  Score=42.18  Aligned_cols=18  Identities=11%  Similarity=-0.016  Sum_probs=15.0

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.|.|.|++|||||++
T Consensus       198 ~liiIaG~pG~GKTtlal  215 (444)
T 3bgw_A          198 NFVLIAARPSMGKTAFAL  215 (444)
T ss_dssp             CEEEEEECSSSSHHHHHH
T ss_pred             cEEEEEeCCCCChHHHHH
Confidence            357778999999999864

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=86.33  E-value=0.28  Score=44.86  Aligned_cols=38  Identities=16%  Similarity=-0.032  Sum_probs=28.0

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.|.+.+....  ..--|+|+|++++|||||+.
T Consensus       131 VGRe~eLeeL~elL~~~d--~~RVV~IvGmGGIGKTTLAk  168 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLELR--PAKNVLIDGVLGSGKTWVAL  168 (1221)
T ss_dssp             CCCHHHHHHHHHHHHHCC--SSCEEEECCSTTSSHHHHHH
T ss_pred             CCcHHHHHHHHHHHhccC--CCeEEEEEcCCCccHHHHHH
Confidence            677777777777665321  12468899999999999974

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=86.27  E-value=0.34  Score=37.65  Aligned_cols=38  Identities=16%  Similarity=0.048  Sum_probs=24.9

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-+..++.|.+.+....  .+--+.+.|.|++||||++.
T Consensus        19 vg~~~~~~~L~~~l~~~~--~~~~~ll~G~~G~GKT~la~   56 (373)
T 1jr3_A           19 VGQEHVLTALANGLSLGR--IHHAYLFSGTRGVGKTSIAR   56 (373)
T ss_dssp             CSCHHHHHHHHHHHHHTC--CCSEEEEESCTTSSHHHHHH
T ss_pred             cCcHHHHHHHHHHHHhCC--CCeEEEEECCCCCCHHHHHH
Confidence            455566666666554322  12247889999999999864

>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=86.19  E-value=0.21  Score=39.31  Aligned_cols=40  Identities=8%  Similarity=-0.035  Sum_probs=25.9

Q ss_pred             cCHHHHHHHHHhHhhc----C-----CCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRN----K-----DIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~----~-----~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.|.+.+..    .     ....+..+.+.|.|++|||+|+.
T Consensus        87 ~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~  135 (357)
T 3d8b_A           87 AGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGK  135 (357)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHH
Confidence            4566666666655421    0     01234579999999999999864

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=86.11  E-value=0.24  Score=43.61  Aligned_cols=37  Identities=8%  Similarity=0.014  Sum_probs=25.8

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.++.++.+.+++....   .-.+.++|-|+||||||+.
T Consensus       173 iGr~~~i~~l~~~l~~~~---~~~vlL~G~pG~GKT~la~  209 (854)
T 1qvr_A          173 IGRDEEIRRVIQILLRRT---KNNPVLIGEPGVGKTAIVE  209 (854)
T ss_dssp             CSCHHHHHHHHHHHHCSS---CCCCEEEECTTSCHHHHHH
T ss_pred             CCcHHHHHHHHHHHhcCC---CCceEEEcCCCCCHHHHHH
Confidence            566666666666654321   2357899999999999863

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=86.04  E-value=0.38  Score=39.16  Aligned_cols=40  Identities=18%  Similarity=0.042  Sum_probs=24.9

Q ss_pred             cCHHHHHHHHHhHhhc--CCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRN--KDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~--~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.++.++.+..+...  .+...+..+.+.|.|++|||+|+.
T Consensus        40 iG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~   81 (456)
T 2c9o_A           40 VGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALAL   81 (456)
T ss_dssp             ESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHH
Confidence            4556665555443321  122233569999999999999864

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=86.03  E-value=0.36  Score=41.80  Aligned_cols=37  Identities=14%  Similarity=0.038  Sum_probs=26.1

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.+.+.+...   ..-.+.++|-|+||||+|+.
T Consensus       189 iGr~~~i~~l~~~l~~~---~~~~vlL~G~~GtGKT~la~  225 (758)
T 1r6b_X          189 IGREKELERAIQVLCRR---RKNNPLLVGESGVGKTAIAE  225 (758)
T ss_dssp             CSCHHHHHHHHHHHTSS---SSCEEEEECCTTSSHHHHHH
T ss_pred             cCCHHHHHHHHHHHhcc---CCCCeEEEcCCCCCHHHHHH
Confidence            56666666666655432   23568999999999999863

>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=85.97  E-value=0.18  Score=39.56  Aligned_cols=17  Identities=18%  Similarity=-0.011  Sum_probs=15.3

Q ss_pred             EEEEEeecCCCcccccC
Q psy8220         144 TVGVVGECNIAGSIRDL  160 (161)
Q Consensus       144 ~v~vvG~pNVGKSsl~~  160 (161)
                      .++|+|.+++|||||..
T Consensus       173 ~v~i~G~~GsGKTTll~  189 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIK  189 (330)
T ss_dssp             CEEEEESTTSCHHHHHH
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            69999999999999863

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=85.70  E-value=0.22  Score=42.10  Aligned_cols=19  Identities=16%  Similarity=0.051  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..|.+.|.|++||||++.
T Consensus       396 ~~~I~l~GlsGSGKSTiA~  414 (573)
T 1m8p_A          396 GFTIFLTGYMNSGKDAIAR  414 (573)
T ss_dssp             CEEEEEECSTTSSHHHHHH
T ss_pred             ceEEEeecCCCCCHHHHHH
Confidence            4789999999999999864

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=85.55  E-value=0.16  Score=42.85  Aligned_cols=20  Identities=20%  Similarity=0.036  Sum_probs=17.0

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-.++++|.+++|||||..
T Consensus       368 ~G~iI~LiG~sGSGKSTLar  387 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLAR  387 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHH
Confidence            34679999999999999864

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=85.50  E-value=0.32  Score=41.20  Aligned_cols=35  Identities=20%  Similarity=0.229  Sum_probs=26.4

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +|-+.+++.+...+...     -.++++|-|++|||||+.
T Consensus        44 ~G~~~~l~~l~~~i~~g-----~~vll~Gp~GtGKTtlar   78 (604)
T 3k1j_A           44 IGQEHAVEVIKTAANQK-----RHVLLIGEPGTGKSMLGQ   78 (604)
T ss_dssp             CSCHHHHHHHHHHHHTT-----CCEEEECCTTSSHHHHHH
T ss_pred             ECchhhHhhccccccCC-----CEEEEEeCCCCCHHHHHH
Confidence            56666777776666543     369999999999999974

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=85.33  E-value=0.24  Score=42.48  Aligned_cols=20  Identities=15%  Similarity=0.134  Sum_probs=17.0

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+..|.+.|.|++||||++.
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr   70 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSM   70 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHH
Confidence            34679999999999999864

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=85.24  E-value=0.25  Score=38.02  Aligned_cols=19  Identities=11%  Similarity=-0.121  Sum_probs=16.1

Q ss_pred             CceEEEEEeecCCCccccc
Q psy8220         141 TSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~  159 (161)
                      .+-.++++|.+++||||++
T Consensus        97 ~~~~i~i~g~~G~GKTT~~  115 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTA  115 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHH
Confidence            3457889999999999986

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=85.01  E-value=0.38  Score=40.43  Aligned_cols=19  Identities=16%  Similarity=-0.073  Sum_probs=16.4

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..|.+.|.|++||||++.
T Consensus       372 ~~~I~l~G~~GsGKSTia~  390 (546)
T 2gks_A          372 GFCVWLTGLPCAGKSTIAE  390 (546)
T ss_dssp             CEEEEEECSTTSSHHHHHH
T ss_pred             ceEEEccCCCCCCHHHHHH
Confidence            4678999999999999863

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=85.00  E-value=0.21  Score=39.61  Aligned_cols=18  Identities=17%  Similarity=0.043  Sum_probs=15.9

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++|+|.+++|||||+.
T Consensus       176 ~~i~ivG~sGsGKSTll~  193 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMK  193 (361)
T ss_dssp             CCEEEEESSSSCHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            469999999999999863

>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=84.85  E-value=0.2  Score=38.57  Aligned_cols=18  Identities=6%  Similarity=-0.095  Sum_probs=15.3

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.+.|.|++|||||+.
T Consensus        38 ~~lll~G~~GtGKT~la~   55 (324)
T 1l8q_A           38 NPIFIYGSVGTGKTHLLQ   55 (324)
T ss_dssp             SSEEEECSSSSSHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHH
Confidence            348899999999999863

>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=84.85  E-value=2.6  Score=34.36  Aligned_cols=43  Identities=14%  Similarity=0.090  Sum_probs=29.1

Q ss_pred             hccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          24 AADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        24 ~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      ..|-+++|+|+..+  .....+.+.+.+ .-.+..+|+||+|....
T Consensus       211 ~pd~vlLVlDa~~g--q~a~~~a~~f~~-~~~~~gVIlTKlD~~a~  253 (433)
T 3kl4_A          211 KPDDVILVIDASIG--QKAYDLASRFHQ-ASPIGSVIITKMDGTAK  253 (433)
T ss_dssp             CCSEEEEEEEGGGG--GGGHHHHHHHHH-HCSSEEEEEECGGGCSC
T ss_pred             CCcceEEEEeCccc--hHHHHHHHHHhc-ccCCcEEEEeccccccc
Confidence            46999999999864  223344444443 23567899999998654

>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=84.65  E-value=0.21  Score=39.71  Aligned_cols=18  Identities=22%  Similarity=-0.064  Sum_probs=15.9

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++|+|.+++|||||..
T Consensus       124 g~i~I~GptGSGKTTlL~  141 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLA  141 (356)
T ss_dssp             EEEEEECSTTSCHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            479999999999999863

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=84.62  E-value=0.26  Score=40.29  Aligned_cols=19  Identities=11%  Similarity=0.104  Sum_probs=16.7

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-+++++|-+++|||||+.
T Consensus       157 Gq~~~IvG~sGsGKSTLl~  175 (438)
T 2dpy_A          157 GQRMGLFAGSGVGKSVLLG  175 (438)
T ss_dssp             TCEEEEEECTTSSHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            4589999999999999963

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=84.54  E-value=0.28  Score=41.29  Aligned_cols=19  Identities=26%  Similarity=0.006  Sum_probs=16.9

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.+++||.++.|||||+.
T Consensus       367 G~~~~ivG~sGsGKSTll~  385 (578)
T 4a82_A          367 GETVAFVGMSGGGKSTLIN  385 (578)
T ss_dssp             TCEEEEECSTTSSHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHH
Confidence            4589999999999999975

>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=84.48  E-value=0.29  Score=41.23  Aligned_cols=19  Identities=26%  Similarity=0.209  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|.+++|||||+.
T Consensus       369 G~~~~ivG~sGsGKSTLl~  387 (582)
T 3b60_A          369 GKTVALVGRSGSGKSTIAS  387 (582)
T ss_dssp             TCEEEEEECTTSSHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            4589999999999999964

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=84.41  E-value=0.3  Score=38.79  Aligned_cols=40  Identities=10%  Similarity=0.013  Sum_probs=27.1

Q ss_pred             cCHHHHHHHHHhHhhc----CC-----CCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRN----KD-----IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~----~~-----~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+..++.|.+++..    ..     ......+.+.|-|++|||+|+.
T Consensus       118 iG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~  166 (389)
T 3vfd_A          118 AGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAK  166 (389)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHH
Confidence            5677777777766521    00     0123579999999999999874

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=84.31  E-value=0.39  Score=39.28  Aligned_cols=42  Identities=10%  Similarity=-0.008  Sum_probs=28.6

Q ss_pred             cccCHHHHHHHHHhHhh----------cCCCCCceEEEEEeecCCCcccccC
Q psy8220         119 SCVGAELLMLLLGNYTR----------NKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       119 ~~~g~~~L~~~l~~~~~----------~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .-.|.++..+.|.+...          ..+.+.+--|.+.|.|++|||+|+.
T Consensus       182 digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAk  233 (434)
T 4b4t_M          182 DVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLAR  233 (434)
T ss_dssp             GSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHH
T ss_pred             hcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHH
Confidence            33577777777766431          1123345578999999999999874

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=84.30  E-value=0.3  Score=38.66  Aligned_cols=18  Identities=11%  Similarity=0.089  Sum_probs=15.4

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      .-|.|+|.+++|||||..
T Consensus        41 ~lIvI~GPTgsGKTtLa~   58 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSI   58 (339)
T ss_dssp             EEEEEECSTTSSHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHH
Confidence            468889999999999864

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=84.22  E-value=0.35  Score=40.37  Aligned_cols=20  Identities=0%  Similarity=0.059  Sum_probs=17.0

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+..|.++|.+++||||+..
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~  413 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSI  413 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHH
T ss_pred             cceEEEecccCCCCHHHHHH
Confidence            34789999999999999863

>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=84.12  E-value=0.37  Score=37.95  Aligned_cols=18  Identities=11%  Similarity=-0.079  Sum_probs=15.5

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      .-+.+.|.|++|||+|+.
T Consensus        85 ~~iLL~GppGtGKT~la~  102 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAK  102 (355)
T ss_dssp             CCEEEECSTTSCHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHH
Confidence            458899999999999874

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=84.08  E-value=0.35  Score=40.89  Aligned_cols=20  Identities=15%  Similarity=0.069  Sum_probs=17.1

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+-.+++||.++.|||||+.
T Consensus       380 ~G~~~~ivG~sGsGKSTll~  399 (598)
T 3qf4_B          380 PGQKVALVGPTGSGKTTIVN  399 (598)
T ss_dssp             TTCEEEEECCTTSSTTHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHH
Confidence            34589999999999999863

>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=83.85  E-value=0.22  Score=39.28  Aligned_cols=20  Identities=20%  Similarity=0.112  Sum_probs=16.9

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+--++|+|.|++|||||.+
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~  149 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAH  149 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            34678999999999999964

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=83.76  E-value=0.23  Score=41.32  Aligned_cols=18  Identities=11%  Similarity=0.137  Sum_probs=15.9

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|.|++|||||+.
T Consensus        40 e~~~l~G~nGsGKSTL~~   57 (525)
T 1tf7_A           40 RSTLVSGTSGTGKTLFSI   57 (525)
T ss_dssp             SEEEEEESTTSSHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHH
Confidence            469999999999999974

>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=83.48  E-value=0.27  Score=41.42  Aligned_cols=19  Identities=26%  Similarity=0.193  Sum_probs=16.7

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++++|..++|||||+.
T Consensus       369 G~~~~ivG~sGsGKSTll~  387 (582)
T 3b5x_A          369 GKTVALVGRSGSGKSTIAN  387 (582)
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            4589999999999999974

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=83.40  E-value=0.22  Score=39.60  Aligned_cols=18  Identities=17%  Similarity=0.128  Sum_probs=15.8

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|..++|||||..
T Consensus        42 e~~~llGpnGsGKSTLLr   59 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILR   59 (355)
T ss_dssp             CEEEEECSTTSSHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHH
Confidence            468999999999999964

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=83.39  E-value=0.24  Score=40.02  Aligned_cols=19  Identities=16%  Similarity=0.013  Sum_probs=16.1

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +--+.|+|.|++|||||.+
T Consensus       178 Gei~~I~G~sGsGKTTLl~  196 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCH  196 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHH
Confidence            3468899999999999964

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=83.29  E-value=0.4  Score=39.22  Aligned_cols=37  Identities=11%  Similarity=0.023  Sum_probs=23.5

Q ss_pred             cCHHHHH---HHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLM---LLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~---~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-+.++   ..|...+....   .-.+.+.|-|++|||||+.
T Consensus        29 vGq~~~~~~~~~L~~~i~~~~---~~~vLL~GppGtGKTtlAr   68 (447)
T 3pvs_A           29 IGQQHLLAAGKPLPRAIEAGH---LHSMILWGPPGTGKTTLAE   68 (447)
T ss_dssp             CSCHHHHSTTSHHHHHHHHTC---CCEEEEECSTTSSHHHHHH
T ss_pred             CCcHHHHhchHHHHHHHHcCC---CcEEEEECCCCCcHHHHHH
Confidence            3444444   44444444332   1368899999999999874

>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=83.08  E-value=0.28  Score=38.69  Aligned_cols=18  Identities=6%  Similarity=0.124  Sum_probs=15.7

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      ..+.+.|.|++|||+|+.
T Consensus        73 ~~ill~Gp~GtGKT~la~   90 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQ   90 (376)
T ss_dssp             CCEEEECCTTSSHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHH
Confidence            468999999999999863

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=83.05  E-value=0.67  Score=38.27  Aligned_cols=18  Identities=11%  Similarity=0.049  Sum_probs=15.5

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.++|.|++|||+|+.
T Consensus        50 ~gvLL~GppGtGKT~Lar   67 (476)
T 2ce7_A           50 KGILLVGPPGTGKTLLAR   67 (476)
T ss_dssp             SEEEEECCTTSSHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHH
Confidence            348999999999999864

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=82.95  E-value=0.58  Score=38.05  Aligned_cols=40  Identities=13%  Similarity=-0.101  Sum_probs=26.8

Q ss_pred             cCHHHHHHHHHhHhh------cC---CCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTR------NK---DIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~------~~---~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|.+...+.|.+.+.      ..   ....+.-+.+.|.|++|||+|+.
T Consensus       137 ~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~  185 (444)
T 2zan_A          137 AGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAK  185 (444)
T ss_dssp             CSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHH
Confidence            567777777776541      00   01123568899999999999874

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=82.88  E-value=0.51  Score=38.59  Aligned_cols=40  Identities=15%  Similarity=0.023  Sum_probs=27.2

Q ss_pred             cCHHHHHHHHHhHhh----------cCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTR----------NKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~----------~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|+++..+.|.+...          ..+.+.+--|.+.|.|++|||+|+.
T Consensus       184 gGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAk  233 (437)
T 4b4t_L          184 GGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAK  233 (437)
T ss_dssp             CSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHH
Confidence            467777777765431          1123344568889999999999874

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=82.53  E-value=0.29  Score=41.03  Aligned_cols=19  Identities=26%  Similarity=0.333  Sum_probs=16.5

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +=.+++||..++|||||+.
T Consensus        47 Ge~~~LvG~NGaGKSTLlk   65 (538)
T 1yqt_A           47 GMVVGIVGPNGTGKSTAVK   65 (538)
T ss_dssp             TSEEEEECCTTSSHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            3579999999999999964

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=82.47  E-value=0.27  Score=39.10  Aligned_cols=36  Identities=14%  Similarity=0.142  Sum_probs=24.4

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|..+|-+.|.    .-+..++--+.|.|.|++|||||.+
T Consensus        44 TG~~~LD~~Lg----~GGi~~G~i~~I~GppGsGKSTLal   79 (356)
T 3hr8_A           44 TGSLAIDIATG----VGGYPRGRIVEIFGQESSGKTTLAL   79 (356)
T ss_dssp             CSCHHHHHHTS----SSSEETTEEEEEEESTTSSHHHHHH
T ss_pred             CCCHHHHHHhc----cCCccCCcEEEEECCCCCCHHHHHH
Confidence            67777766653    0122233568888999999999964

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=82.33  E-value=0.31  Score=37.54  Aligned_cols=17  Identities=24%  Similarity=0.073  Sum_probs=15.0

Q ss_pred             EEEEEeecCCCcccccC
Q psy8220         144 TVGVVGECNIAGSIRDL  160 (161)
Q Consensus       144 ~v~vvG~pNVGKSsl~~  160 (161)
                      .+.+.|-|++|||+|+.
T Consensus        47 ~vLl~G~~GtGKT~la~   63 (350)
T 1g8p_A           47 GVLVFGDRGTGKSTAVR   63 (350)
T ss_dssp             CEEEECCGGGCTTHHHH
T ss_pred             eEEEECCCCccHHHHHH
Confidence            39999999999999863

>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=82.32  E-value=0.27  Score=39.36  Aligned_cols=18  Identities=6%  Similarity=-0.060  Sum_probs=15.8

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++++|..++|||||..
T Consensus        38 e~~~llGpnGsGKSTLLr   55 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLR   55 (372)
T ss_dssp             CEEEEECCTTSSHHHHHH
T ss_pred             CEEEEECCCCChHHHHHH
Confidence            468999999999999964

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=82.09  E-value=0.53  Score=38.55  Aligned_cols=40  Identities=15%  Similarity=0.031  Sum_probs=28.0

Q ss_pred             cCHHHHHHHHHhHhhc----------CCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRN----------KDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~----------~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|+++..+.|.+....          .+.+.+--|.+.|.|++|||+|+.
T Consensus       185 gGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAk  234 (437)
T 4b4t_I          185 GGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAK  234 (437)
T ss_dssp             CSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHH
Confidence            5788888877765421          122334568999999999999874

>1sxj_A Activator 1 95 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=81.94  E-value=0.75  Score=38.08  Aligned_cols=18  Identities=11%  Similarity=0.010  Sum_probs=15.4

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.+.|.|++|||||+.
T Consensus        78 ~~lLL~GppGtGKTtla~   95 (516)
T 1sxj_A           78 RAAMLYGPPGIGKTTAAH   95 (516)
T ss_dssp             SEEEEECSTTSSHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHH
Confidence            468888999999999874

>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=81.58  E-value=0.14  Score=38.15  Aligned_cols=17  Identities=18%  Similarity=0.100  Sum_probs=14.7

Q ss_pred             EEEEEeecCCCcccccC
Q psy8220         144 TVGVVGECNIAGSIRDL  160 (161)
Q Consensus       144 ~v~vvG~pNVGKSsl~~  160 (161)
                      -+.+.|.|++|||+|+.
T Consensus        46 ~vll~G~~GtGKT~la~   62 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAK   62 (268)
T ss_dssp             CCCCBCSSCSSHHHHHH
T ss_pred             eEEEECCCCCcHHHHHH
Confidence            37889999999999874

>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=81.56  E-value=0.7  Score=37.49  Aligned_cols=18  Identities=17%  Similarity=-0.034  Sum_probs=15.7

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --++|+|.+++|||||..
T Consensus       168 gii~I~GpnGSGKTTlL~  185 (418)
T 1p9r_A          168 GIILVTGPTGSGKSTTLY  185 (418)
T ss_dssp             EEEEEECSTTSCHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHH
Confidence            469999999999999863

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=81.46  E-value=0.4  Score=40.47  Aligned_cols=19  Identities=26%  Similarity=0.134  Sum_probs=16.7

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.+++||.+++|||||+.
T Consensus       369 Ge~~~ivG~sGsGKSTll~  387 (587)
T 3qf4_A          369 GSLVAVLGETGSGKSTLMN  387 (587)
T ss_dssp             TCEEEEECSSSSSHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHH
Confidence            4589999999999999974

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=81.40  E-value=0.32  Score=38.48  Aligned_cols=36  Identities=17%  Similarity=0.185  Sum_probs=23.2

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|...|-..|.    .-+..++--+.|.|.|++|||||++
T Consensus        44 TG~~~LD~~Lg----~GGl~~G~iv~I~G~pGsGKTtLal   79 (349)
T 2zr9_A           44 TGSISLDVALG----IGGLPRGRVIEIYGPESSGKTTVAL   79 (349)
T ss_dssp             CSCHHHHHHTS----SSSEETTSEEEEEESTTSSHHHHHH
T ss_pred             cCCHHHHHHhc----cCCccCCeEEEEECCCCCCHHHHHH
Confidence            56666655543    0112223468888999999999964

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=81.24  E-value=0.48  Score=38.43  Aligned_cols=41  Identities=10%  Similarity=-0.011  Sum_probs=28.1

Q ss_pred             ccCHHHHHHHHHhHhh----------cCCCCCceEEEEEeecCCCcccccC
Q psy8220         120 CVGAELLMLLLGNYTR----------NKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       120 ~~g~~~L~~~l~~~~~----------~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      -.|+++..+.|++...          ..+.+.+--|.+.|.|++|||+|+.
T Consensus       150 IgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAk  200 (405)
T 4b4t_J          150 VGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLAR  200 (405)
T ss_dssp             SCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHH
Confidence            3577888777776541          1123334458899999999999874

>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=81.19  E-value=0.32  Score=39.14  Aligned_cols=19  Identities=21%  Similarity=0.172  Sum_probs=16.3

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +=.++++|..+.|||||..
T Consensus        47 Ge~~~llGpsGsGKSTLLr   65 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLS   65 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHH
T ss_pred             CCEEEEECCCCChHHHHHH
Confidence            3479999999999999864

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.87  E-value=0.51  Score=38.98  Aligned_cols=42  Identities=10%  Similarity=0.020  Sum_probs=29.4

Q ss_pred             cccCHHHHHHHHHhHhh----------cCCCCCceEEEEEeecCCCcccccC
Q psy8220         119 SCVGAELLMLLLGNYTR----------NKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       119 ~~~g~~~L~~~l~~~~~----------~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .-.|+++..+.|++...          ..+...+--|.+.|.|++|||+|+.
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAk  261 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCAR  261 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHH
Confidence            44678888888876531          1123345568899999999999864

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=80.44  E-value=0.45  Score=39.34  Aligned_cols=18  Identities=11%  Similarity=0.250  Sum_probs=16.2

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -+++++|-|+||||||+.
T Consensus       152 q~~~i~G~sGvGKTtL~~  169 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQ  169 (473)
T ss_dssp             CEEEEECCSSSCHHHHHH
T ss_pred             CEEEEECCCCCCccHHHH
Confidence            479999999999999974

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=80.30  E-value=0.46  Score=40.69  Aligned_cols=18  Identities=22%  Similarity=0.017  Sum_probs=16.0

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      -.++|+|..++|||||+.
T Consensus       349 e~vaIiGpnGsGKSTLl~  366 (670)
T 3ux8_A          349 TFVAVTGVSGSGKSTLVN  366 (670)
T ss_dssp             SEEEEECSTTSSHHHHHT
T ss_pred             CEEEEEeeCCCCHHHHHH
Confidence            478999999999999973

---

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	161
d1puja_	273	c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subti	9e-10

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]} Length = 273

class: 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]

 Score = 53.7 bits (128), Expect = 9e-10
 Identities = 23/119 (19%), Positives = 43/119 (36%), Gaps = 3/119 (2%)

Query: 19  RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQ 78
              ++  D++ E+VDAR PM +R  + ED++     K  ++++NKA K    +       
Sbjct: 10  TEKLKLIDIVYELVDARIPMSSRNPMIEDIL---KNKPRIMLLNKADKADAAVTQQWKEH 66

Query: 79  IFQTWIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK 137
                I   SI S+                +     +         +  L++G     K
Sbjct: 67  FENQGIRSLSINSVNGQGLNQIVPASKEILQEKFDRMRAKGVKPRAIRALIIGIPNVGK 125

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	161
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	99.94
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	99.56
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.47
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.46
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	99.43
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.41
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.36
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.25
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.23
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.19
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.17
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.17
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.13
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.11
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.1
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.05
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.92
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.91
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.83
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	98.75
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.74
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.69
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.65
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.62
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	98.6
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	98.6
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.6
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	98.55
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	98.54
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	98.54
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	98.53
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	98.52
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	98.49
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	98.49
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	98.49
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	98.48
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	98.46
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.43
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	98.42
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	98.42
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	98.4
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	98.38
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	98.36
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	98.36
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	98.36
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	98.36
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	98.34
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	98.33
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	98.32
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	98.32
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	98.32
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	98.32
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	98.3
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.27
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	98.25
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	98.23
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	98.2
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	98.18
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	98.14
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	98.14
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.12
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	98.11
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	98.1
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	98.08
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	98.07
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	98.04
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	97.98
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.97
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	97.92
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	97.88
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	97.87
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	97.84
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	97.76
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	97.75
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	97.73
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	97.7
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	97.68
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.5
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	97.48
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.28
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.24
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.18
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.06
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.86
d1nrjb_	209	Signal recognition particle receptor beta-subunit	96.8
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.79
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.16
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	94.94
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	94.9
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.88
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.78
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	94.75
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	94.3
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	94.17
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.13
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.72
d1tuea_	205	Replication protein E1 helicase domain {Human papi	93.31
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	93.21
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	92.86
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	92.82
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	92.74
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	92.69
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	92.59
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	92.46
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	92.35
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	92.17
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	92.05
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.59
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	91.58
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	91.46
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	91.35
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.16
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	91.13
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	90.28
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	89.4
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	88.54
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	86.92
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	86.54
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	86.14
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	84.84
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	84.6
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	84.46
d1s2da_	167	Purine transdeoxyribosylase {Lactobacillus helveti	81.81
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	81.63

>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=99.94  E-value=1.8e-27  Score=183.73  Aligned_cols=122  Identities=23%  Similarity=0.273  Sum_probs=97.4

Q ss_pred             cchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh
Q psy8220           8 EMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN   87 (161)
Q Consensus         8 ~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~   87 (161)
                      ||.. .++++ ++.++.+|+||+|+||+.|.++.++.+.+++.   ++|+|+|+||+||++.        +....|.+++
T Consensus         1 Hm~k-a~r~i-~~~i~~~DvIl~V~DaR~P~ss~~~~l~~~~~---~Kp~IlVlNK~DLv~~--------~~~~~w~~~f   67 (273)
T d1puja_           1 HMAK-ARREV-TEKLKLIDIVYELVDARIPMSSRNPMIEDILK---NKPRIMLLNKADKADA--------AVTQQWKEHF   67 (273)
T ss_dssp             CTTH-HHHHH-HHHGGGCSEEEEEEETTSTTTTSCHHHHHHCS---SSCEEEEEECGGGSCH--------HHHHHHHHHH
T ss_pred             CHHH-HHHHH-HHHHHhCCEEEEEEECCCCCCCCCHHHHHHHc---CCCeEEEEECccCCch--------HHHHHHHHHH
Confidence            5664 58899 79999999999999999999999999998774   5999999999999987        6678899988


Q ss_pred             ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc-------C-CCCCceEEEEEeecCCCccccc
Q psy8220          88 SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN-------K-DIKTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~-------~-~~~~~~~v~vvG~pNVGKSsl~  159 (161)
                      .. .+.+.+++|+.++                 .|...+.+.+.+.+..       . ....+++|+|||+|||||||||
T Consensus        68 ~~-~~~~~i~isa~~~-----------------~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~vvG~PNvGKSsli  129 (273)
T d1puja_          68 EN-QGIRSLSINSVNG-----------------QGLNQIVPASKEILQEKFDRMRAKGVKPRAIRALIIGIPNVGKSTLI  129 (273)
T ss_dssp             HT-TTCCEEECCTTTC-----------------TTGGGHHHHHHHHHHHHHHHHHHTTCCCCCEEEEEEESTTSSHHHHH
T ss_pred             Hh-cCCccceeecccC-----------------CCccccchhhhhhhhhhhhhhhhccCCCCceEEEEEecCccchhhhh
Confidence            63 3566888999887                 4555554444433321       2 2346799999999999999998


Q ss_pred             C
Q psy8220         160 L  160 (161)
Q Consensus       160 ~  160 (161)
                      +
T Consensus       130 N  130 (273)
T d1puja_         130 N  130 (273)
T ss_dssp             H
T ss_pred             h
Confidence            5

>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=99.56  E-value=3.2e-15  Score=111.33  Aligned_cols=102  Identities=20%  Similarity=0.176  Sum_probs=74.6

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHh---hhhccCCCCce
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI---PYNSIQSIYSS   95 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~   95 (161)
                      .+...|.++.|+.+..|... ...+.+++.-  ..+.+.++|+||+||.++        +....|.   ..+.  ..+++
T Consensus         7 ~vANiD~vliV~s~~~P~~~-~~~ldR~Lv~a~~~~i~pvIvlnK~DL~~~--------~~~~~~~~~~~~~~--~~~~v   75 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETS-TYIIDKFLVLAEKNELETVMVINKMDLYDE--------DDLRKVRELEEIYS--GLYPI   75 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCC-HHHHHHHHHHHHHTTCEEEEEECCGGGCCH--------HHHHHHHHHHHHHT--TTSCE
T ss_pred             CcccCCEEEEEEeCCCCCCC-HHHHHHHHHHHHHcCCCEEEEEeCcccCCH--------HHHHHHHHhhcccc--cceeE
Confidence            35678999999988777532 2345555431  158999999999999876        3333333   3333  35789


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +.+|++++                 .|+++|.+.|.    .      -+.+++|.+||||||||+
T Consensus        76 ~~vSa~~~-----------------~g~~~L~~~l~----~------kt~~~~G~SGVGKSTLiN  113 (225)
T d1u0la2          76 VKTSAKTG-----------------MGIEELKEYLK----G------KISTMAGLSGVGKSSLLN  113 (225)
T ss_dssp             EECCTTTC-----------------TTHHHHHHHHS----S------SEEEEECSTTSSHHHHHH
T ss_pred             EEeccccc-----------------hhHhhHHHHhc----C------CeEEEECCCCCCHHHHHH
Confidence            99999998                 99999887762    2      267899999999999985

>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=99.47  E-value=8e-14  Score=99.39  Aligned_cols=102  Identities=12%  Similarity=0.058  Sum_probs=76.2

Q ss_pred             chHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhh
Q psy8220           9 MRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYN   87 (161)
Q Consensus         9 ~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~   87 (161)
                      ...+++.+...+++.+||++|+|+|++.+....+..+.+.++.. .++|+++|+||+|+.+..      .+....+.+.+
T Consensus        69 ~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~~~piilv~NK~Dl~~~~------~~~~~~~~~~~  142 (178)
T d1wf3a1          69 ALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYP------EEAMKAYHELL  142 (178)
T ss_dssp             HHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSSH------HHHHHHHHHTS
T ss_pred             ccchhcccccccccccccceeeeechhhhhcccccchhhheeccccchhhhhhhcccccccCH------HHHHHHHHhhc
Confidence            34455666657889999999999999998877777777777542 468999999999997651      02223333333


Q ss_pred             ccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          88 SIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        88 ~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .   ...++++||+++                 .|+++|.+.|.+.+|+
T Consensus       143 ~---~~~~~~iSA~~~-----------------~gi~~L~~~i~~~lpe  171 (178)
T d1wf3a1         143 P---EAEPRMLSALDE-----------------RQVAELKADLLALMPE  171 (178)
T ss_dssp             T---TSEEEECCTTCH-----------------HHHHHHHHHHHTTCCB
T ss_pred             c---cCceEEEecCCC-----------------CCHHHHHHHHHHhCCC
Confidence            2   345788999998                 9999999999998875

>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=99.46  E-value=1.1e-13  Score=99.22  Aligned_cols=106  Identities=18%  Similarity=0.170  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      +|.++. ..++..+|++++|+|++.+...++.++...+.. .+.|+++|+||+|+++.. +.....+....+........
T Consensus        71 ~~~~~~-~~~l~~~d~~ilv~d~~~g~~~~~~~~~~~~~~-~~~p~iiv~NKiD~~~~~-~~~~~~~~~~~~~~~~~~~~  147 (179)
T d1wb1a4          71 DLIRAV-VSAADIIDLALIVVDAKEGPKTQTGEHMLILDH-FNIPIIVVITKSDNAGTE-EIKRTEMIMKSILQSTHNLK  147 (179)
T ss_dssp             HHHHHH-HHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHH-TTCCBCEEEECTTSSCHH-HHHHHHHHHHHHHHHSSSGG
T ss_pred             ccccch-hhhhhhccccccccccccccchhhhhhhhhhhh-cCCcceeccccccccCHH-HHHHHHHHHHHHHHHhhcCC
Confidence            466666 789999999999999999887777777776666 689999999999998751 00000011111122111112


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      ..|++++||++|                 .|+++|++.|.+.+++.
T Consensus       148 ~~~iv~iSA~~g-----------------~gi~eL~~~I~~~l~~~  176 (179)
T d1wb1a4         148 NSSIIPISAKTG-----------------FGVDELKNLIITTLNNA  176 (179)
T ss_dssp             GCCEEECCTTTC-----------------TTHHHHHHHHHHHHHHS
T ss_pred             CCeEEEEEccCC-----------------cCHHHHHHHHHhcCCcc
Confidence            457899999999                 99999999999988764

>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=99.43  E-value=4.1e-15  Score=111.04  Aligned_cols=107  Identities=16%  Similarity=0.085  Sum_probs=73.4

Q ss_pred             HhhhccEEEEEEeCCCCCCCCcHHHHHHHhC--CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          21 VVEAADVILEVVDARDPMGTRCKVAEDLVVG--TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~--~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      .+...|.+++|+.+.+|.. ....+.+++.-  ..+.+.++|+||+||.++.    +..+.+..|.+.+.. .+++++.+
T Consensus         7 ~vANiD~~~iV~s~~~P~~-~~~~idR~Lv~a~~~~i~pvIvlnK~DL~~~~----~~~~~~~~~~~~y~~-~g~~v~~~   80 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSF-STALLDRFLVLVEANDIQPIICITKMDLIEDQ----DTEDTIQAYAEDYRN-IGYDVYLT   80 (231)
T ss_dssp             TEECCCEEEEEEESTTTTC-CHHHHHHHHHHHHTTTCEEEEEEECGGGCCCH----HHHHHHHHHHHHHHH-HTCCEEEC
T ss_pred             CccccCEEEEEEECCCCCC-CHHHHHHHHHHHHHcCCCEEEEEecccccccH----HHHHHHHHHHHHHhh-ccccceee
Confidence            4578999999999987743 23445555431  1588999999999998761    111123334433321 37889999


Q ss_pred             eecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220          99 SSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus        99 Sa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      |+.++                 .|+++|.+.|    +.+      +.+++|.+||||||||+
T Consensus        81 Sa~~~-----------------~gl~~L~~~l----~~~------~~vl~G~SGVGKSSLiN  115 (231)
T d1t9ha2          81 SSKDQ-----------------DSLADIIPHF----QDK------TTVFAGQSGVGKSSLLN  115 (231)
T ss_dssp             CHHHH-----------------TTCTTTGGGG----TTS------EEEEEESHHHHHHHHHH
T ss_pred             ecCCh-----------------hHHHHHHHhh----ccc------eEEEECCCCccHHHHHH
Confidence            99987                 7887776554    322      45688999999999985

>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=99.41  E-value=3.7e-13  Score=95.17  Aligned_cols=100  Identities=15%  Similarity=0.137  Sum_probs=75.1

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      .++...+...+..||++++++|++.+....+..+.+.+.. .++|+|+|+||+|+.++        ...+...+... ..
T Consensus        68 ~~~~~~~~~~~~~ad~i~~~~~~~~~~~~~~~~~~~~l~~-~~~pviiv~NK~Dl~~~--------~~~~~~~~~~~-~~  137 (171)
T d1mkya1          68 QKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRK-STVDTILVANKAENLRE--------FEREVKPELYS-LG  137 (171)
T ss_dssp             HHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHH-HTCCEEEEEESCCSHHH--------HHHHTHHHHGG-GS
T ss_pred             cccccccccccccCcEEEEeeccccccccccccccccccc-ccccccccchhhhhhhh--------hhhHHHHHHHh-cC
Confidence            4455555788999999999999998887777777777765 68999999999999754        11111111111 12


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD  138 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~  138 (161)
                      ..+++++||+++                 .|+++|++.|.+.++++.
T Consensus       138 ~~~~i~iSAk~g-----------------~gid~L~~~i~~~l~e~~  167 (171)
T d1mkya1         138 FGEPIPVSAEHN-----------------INLDTMLETIIKKLEEKG  167 (171)
T ss_dssp             SCSCEECBTTTT-----------------BSHHHHHHHHHHHHHHTT
T ss_pred             CCCeEEEecCCC-----------------CCHHHHHHHHHHhCCCCC
Confidence            345789999999                 999999999999888764

>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=99.36  E-value=2.7e-12  Score=92.39  Aligned_cols=95  Identities=14%  Similarity=0.084  Sum_probs=71.3

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      .+....+|++++|+|++.++...+.++.+++.. .++|+++|+||+|+.++.    +..+......+.+......+++++
T Consensus       100 ~~~~~~~~~vi~viD~~~~~~~~~~~~~~~l~~-~~~piivv~NK~D~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~  174 (195)
T d1svia_         100 ITTREELKAVVQIVDLRHAPSNDDVQMYEFLKY-YGIPVIVIATKADKIPKG----KWDKHAKVVRQTLNIDPEDELILF  174 (195)
T ss_dssp             HHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH-TTCCEEEEEECGGGSCGG----GHHHHHHHHHHHHTCCTTSEEEEC
T ss_pred             hccccchhhhhhhhhcccccccccccccccccc-ccCcceechhhccccCHH----HHHHHHHHHHHHhcccCCCCEEEE
Confidence            567778999999999999888777888888876 789999999999997652    111222222223321134568999


Q ss_pred             eecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          99 SSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        99 Sa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ||.++                 .|+++|++.|.+.+.
T Consensus       175 SA~~~-----------------~gi~el~~~i~~~l~  194 (195)
T d1svia_         175 SSETK-----------------KGKDEAWGAIKKMIN  194 (195)
T ss_dssp             CTTTC-----------------TTHHHHHHHHHHHHT
T ss_pred             eCCCC-----------------CCHHHHHHHHHHHhC
Confidence            99999                 999999999988763

>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=99.25  E-value=2e-11  Score=86.85  Aligned_cols=97  Identities=14%  Similarity=0.078  Sum_probs=69.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      .+.++.+|++++|+|+..+.......+..++.. .+.|+|+|+||+|+....  .....+..+...+.+......|++++
T Consensus        86 ~~~~~~~dvii~v~d~~~~~~~~~~~~~~~~~~-~~~~~i~v~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~i~~v  162 (186)
T d1mkya2          86 VDSIEKADVVVIVLDATQGITRQDQRMAGLMER-RGRASVVVFNKWDLVVHR--EKRYDEFTKLFREKLYFIDYSPLIFT  162 (186)
T ss_dssp             HHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHH-TTCEEEEEEECGGGSTTG--GGCHHHHHHHHHHHCGGGTTSCEEEC
T ss_pred             HHHHhcCCEEEEeecccccchhhHHHHHHHHHH-cCCceeeeccchhhhcch--hhhhhhHHHHHHHHhcccCCCeEEEE
Confidence            567789999999999998888777777777766 689999999999987652  11111111111122211135578999


Q ss_pred             eecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          99 SSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        99 Sa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ||+++                 .|+++|++.|.+...
T Consensus       163 Sa~~g-----------------~gv~~L~~~i~~~~~  182 (186)
T d1mkya2         163 SADKG-----------------WNIDRMIDAMNLAYA  182 (186)
T ss_dssp             BTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             eCCCC-----------------CCHHHHHHHHHHHHH
Confidence            99999                 999999999987654

>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=99.23  E-value=1.5e-11  Score=89.67  Aligned_cols=106  Identities=18%  Similarity=0.164  Sum_probs=70.9

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCC-CCcHHHHHHHhCCCC-CcEEEEeecCCCCCcccccccHHHHHHHH
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMG-TRCKVAEDLVVGTPG-KKLVIVINKAGKPSTKIQSGSMAQIFQTW   83 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~-~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~   83 (161)
                      |.|.  .|.+++ ..++..||++|+|+|+.+++. .+..+....+.. .+ +|+|+++||+|+.+.. +..   ......
T Consensus        94 PGH~--df~~~~-~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~-~~i~~iIV~vNK~Dl~~~~-~~~---~~~~~~  165 (205)
T d2qn6a3          94 PGHE--VLMATM-LSGAALMDGAILVVAANEPFPQPQTREHFVALGI-IGVKNLIIVQNKVDVVSKE-EAL---SQYRQI  165 (205)
T ss_dssp             SCHH--HHHHHH-HHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHH-TTCCCEEEEEECGGGSCHH-HHH---HHHHHH
T ss_pred             chHH--HHHhhh-hcceeccccccccccccccccchhHHHHHHHHHH-cCCceeeeccccCCCccch-HHH---HHHHHH
Confidence            4444  467777 688999999999999999863 233334444433 34 5888899999998752 000   111111


Q ss_pred             hhhhcc--CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          84 IPYNSI--QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        84 ~~~~~~--~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      ...+..  ....|++++||+++                 .|+++|++.|.++.|.
T Consensus       166 ~~~l~~~~~~~~p~ipiSA~~g-----------------~nI~~L~e~i~~~ip~  203 (205)
T d2qn6a3         166 KQFTKGTWAENVPIIPVSALHK-----------------INIDSLIEGIEEYIKT  203 (205)
T ss_dssp             HHHHTTSTTTTCCEEECBTTTT-----------------BSHHHHHHHHHHHSCC
T ss_pred             HHHhccccCCCCeEEEEeCCCC-----------------CChHHHHHHHHhhCCC
Confidence            122221  12467899999999                 9999999999998763

>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=99.19  E-value=3.2e-11  Score=85.45  Aligned_cols=95  Identities=13%  Similarity=-0.028  Sum_probs=66.1

Q ss_pred             HHHHhhhccEEEEEEeCCC-----------CCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhh
Q psy8220          18 ERSVVEAADVILEVVDARD-----------PMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~-----------~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~   86 (161)
                      ....++.+|++++|+|++.           .....+.++.+.+.. .++|+|+|+||+|+.+..      ......+...
T Consensus        75 ~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~-~~~p~iiv~NK~D~~~~~------~~~~~~~~~~  147 (184)
T d2cxxa1          75 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE-LDIPTIVAVNKLDKIKNV------QEVINFLAEK  147 (184)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH-TTCCEEEEEECGGGCSCH------HHHHHHHHHH
T ss_pred             hhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH-cCCCEEEEEeeeehhhhH------HHHHHHHHHH
Confidence            3677889999999999864           334455666666766 689999999999987651      0111222222


Q ss_pred             hccC---CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          87 NSIQ---SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        87 ~~~~---~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      +...   ...+++++||+++                 .|+++|++.|.+.+++
T Consensus       148 ~~~~~~~~~~~~~~vSA~~g-----------------~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         148 FEVPLSEIDKVFIPISAKFG-----------------DNIERLKNRIFEVIRE  183 (184)
T ss_dssp             HTCCGGGHHHHEEECCTTTC-----------------TTHHHHHHHHHHHHHH
T ss_pred             hcccccccCCeEEEEECCCC-----------------CCHHHHHHHHHHHccC
Confidence            2200   0123688999999                 9999999999998875

>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=99.17  E-value=1.8e-11  Score=89.06  Aligned_cols=121  Identities=12%  Similarity=-0.031  Sum_probs=75.3

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      .|.|.  .|++++ .+++..||++|+|+|+.+++..+..+...++.....+|+|+++||+|+.+...+...+...+..+.
T Consensus        73 tPGh~--~f~~~~-~~~~~~aD~allVVda~~G~~~QT~~~~~~a~~~~~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l  149 (196)
T d1d2ea3          73 CPGHA--DYVKNM-ITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADAVQDSEMVELVELEIRELL  149 (196)
T ss_dssp             CSSHH--HHHHHH-HHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHH
T ss_pred             CcchH--HHHHHH-HHHHhhcCeEEEEEEcCCCCchhHHHHHHHHHHhcCCcEEEEEecccccccHHHHHHHHHHHHHHH
Confidence            35554  378888 789999999999999999988777776666554234678899999999865211111111122222


Q ss_pred             hhhcc-CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          85 PYNSI-QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        85 ~~~~~-~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      ..+.. ....|++++||.++-..       ......-.++.+|++.|.++.|
T Consensus       150 ~~~~~~~~~~pii~iSa~~g~~~-------~~~~~~~~~~~~Lldai~~~iP  194 (196)
T d1d2ea3         150 TEFGYKGEETPIIVGSALCALEQ-------RDPELGLKSVQKLLDAVDTYIP  194 (196)
T ss_dssp             HHTTSCTTTSCEEECCHHHHHTT-------CCTTTTHHHHHHHHHHHHHHSC
T ss_pred             HHhCCCcccCEEEEEEccccccc-------cCcccccCCHHHHHHHHHhhCC
Confidence            22210 12367899999876100       0011112478889998887765

>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=99.17  E-value=7.5e-11  Score=81.76  Aligned_cols=84  Identities=20%  Similarity=0.160  Sum_probs=63.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRF   98 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i   98 (161)
                      ++.+..||++++|+|++++....+..+...+   ...++++++||+|+.++.        ..+.....+.  ...+++++
T Consensus        75 ~~~~~~ad~ii~v~d~~~~~~~~~~~~~~~~---~~~~~i~~~~k~d~~~~~--------~~~~~~~~~~--~~~~~~~v  141 (160)
T d1xzpa2          75 LQEIEKADIVLFVLDASSPLDEEDRKILERI---KNKRYLVVINKVDVVEKI--------NEEEIKNKLG--TDRHMVKI  141 (160)
T ss_dssp             HHHHHHCSEEEEEEETTSCCCHHHHHHHHHH---TTSSEEEEEEECSSCCCC--------CHHHHHHHHT--CSTTEEEE
T ss_pred             HHHHHhCCEEEEEEeCCCCcchhhhhhhhhc---ccccceeeeeeccccchh--------hhHHHHHHhC--CCCcEEEE
Confidence            5678899999999999998776666665554   358999999999998762        1122223333  35678999


Q ss_pred             eecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          99 SSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        99 Sa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      ||+++                 .|+++|.+.|.+
T Consensus       142 SA~~g-----------------~gi~~L~~~I~k  158 (160)
T d1xzpa2         142 SALKG-----------------EGLEKLEESIYR  158 (160)
T ss_dssp             EGGGT-----------------CCHHHHHHHHHH
T ss_pred             ECCCC-----------------CCHHHHHHHHHh
Confidence            99999                 999999998854

>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=99.13  E-value=2.6e-12  Score=95.30  Aligned_cols=55  Identities=15%  Similarity=0.123  Sum_probs=46.1

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      |..+. ..++..||++|+|+||.+++..++..+...+.. .++|+|+|+||+|+...
T Consensus        83 f~~~~-~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~-~~~p~iivlNK~D~~~~  137 (227)
T d1g7sa4          83 FTTLR-KRGGALADLAILIVDINEGFKPQTQEALNILRM-YRTPFVVAANKIDRIHG  137 (227)
T ss_dssp             CTTSB-CSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHH-TTCCEEEEEECGGGSTT
T ss_pred             ccccc-hhcccccceEEEEEecccCcccchhHHHHHhhc-CCCeEEEEEECccCCCc
Confidence            34444 467889999999999999998888888888776 68999999999998754

>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=99.11  E-value=1.1e-10  Score=84.19  Aligned_cols=106  Identities=10%  Similarity=0.071  Sum_probs=68.3

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCC-cHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTR-CKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI   84 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~-~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~   84 (161)
                      |.|.  .|.... .+.+..+|++++|+|+.++.... ..+....+.....+++|+++||+|+.+..    ...+......
T Consensus        86 PGh~--~f~~~~-~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~~~iiv~inK~D~~d~~----~~~~~~~~~~  158 (195)
T d1kk1a3          86 PGHE--ALMTTM-LAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKE----KALENYRQIK  158 (195)
T ss_dssp             SSHH--HHHHHH-HHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHH----HHHHHHHHHH
T ss_pred             chhh--hhhHHh-hcccccccccccccchhhhhhhhhhHHHHHHHHHhcCccceeeeecccchhhH----HHHHHHHHHH
Confidence            5543  466666 78899999999999999875432 22222333220235578889999998752    1111111112


Q ss_pred             hhhcc--CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          85 PYNSI--QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        85 ~~~~~--~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+..  ....|++++||++|                 .|+++|++.|.++.|
T Consensus       159 ~~~~~~~~~~~~iIpiSA~~G-----------------~ni~~Ll~~I~~~iP  194 (195)
T d1kk1a3         159 EFIEGTVAENAPIIPISALHG-----------------ANIDVLVKAIEDFIP  194 (195)
T ss_dssp             HHHTTSTTTTCCEEECBTTTT-----------------BSHHHHHHHHHHHSC
T ss_pred             HHhccccCCCCeEEEEECCCC-----------------CCHHHHHHHHHHHCc
Confidence            22221  12357899999999                 999999999998876

>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=99.10  E-value=2.5e-11  Score=84.36  Aligned_cols=84  Identities=20%  Similarity=0.120  Sum_probs=61.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHH-HHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAE-DLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~-~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      ......+|++++++|+..+....+.... ..+... .++|+++|+||+|+.++.       .       .+.+..+.+++
T Consensus        75 ~~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~Dl~~~~-------~-------~~~~~~~~~~~  140 (161)
T d2gj8a1          75 WQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITGET-------L-------GMSEVNGHALI  140 (161)
T ss_dssp             HHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHCCC-------C-------EEEEETTEEEE
T ss_pred             HHHHHhccccceeeccccccchhhhhhhhhhhhhcccccceeeccchhhhhhhH-------H-------HHHHhCCCcEE
Confidence            6788999999999999987665444432 333322 479999999999987651       0       11222366889


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ++||+++                 .|+++|++.|.+.
T Consensus       141 ~iSAk~~-----------------~gi~~L~~~l~~~  160 (161)
T d2gj8a1         141 RLSARTG-----------------EGVDVLRNHLKQS  160 (161)
T ss_dssp             ECCTTTC-----------------TTHHHHHHHHHHH
T ss_pred             EEECCCC-----------------CCHHHHHHHHHhh
Confidence            9999999                 9999999998764

>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=99.05  E-value=1.2e-10  Score=82.47  Aligned_cols=96  Identities=16%  Similarity=0.084  Sum_probs=66.5

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC----CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT----PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .+. .+.+..+|++++++|+..........+...+...    .++|+|+|+||+|+..+        +..+...+.+. .
T Consensus        71 ~~~-l~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~--------~~~~~~~~~~~-~  140 (180)
T d1udxa2          71 LEF-LRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--------EAVKALADALA-R  140 (180)
T ss_dssp             HHH-HHHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--------HHHHHHHHHHH-T
T ss_pred             HHH-HHHHHhhhhhhhhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhhhhH--------HHHHHHHHHHH-h
Confidence            344 5778999999999998654322222222222110    25899999999999876        33343334443 1


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      .+.+++++||+++                 .|+++|++.|.+.++..
T Consensus       141 ~~~~~~~iSA~tg-----------------~gid~L~~~i~~~l~~~  170 (180)
T d1udxa2         141 EGLAVLPVSALTG-----------------AGLPALKEALHALVRST  170 (180)
T ss_dssp             TTSCEEECCTTTC-----------------TTHHHHHHHHHHHHHTS
T ss_pred             cCCeEEEEEcCCC-----------------CCHHHHHHHHHHHHhhc
Confidence            4678999999999                 99999999999988653

>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=98.92  E-value=1.5e-09  Score=76.93  Aligned_cols=93  Identities=18%  Similarity=0.193  Sum_probs=64.1

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHH----HH--HHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVA----ED--LVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i----~~--~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      .+.+.++|+++++++............    ..  .....  .++|+++|+||+|+.+..       +..+.+.+.+.  
T Consensus        74 l~~~~~~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~-------~~~~~~~~~~~--  144 (185)
T d1lnza2          74 LRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA-------ENLEAFKEKLT--  144 (185)
T ss_dssp             HHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH-------HHHHHHHHHCC--
T ss_pred             HHHHHHhhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHH-------HHHHHHHHHhc--
Confidence            467788999999999875543322111    11  11111  368999999999998651       22344444444  


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      .+.|++++||+++                 .|+++|++.|.+.+++.
T Consensus       145 ~~~~v~~iSA~~g-----------------~Gi~~L~~~i~~~L~~~  174 (185)
T d1lnza2         145 DDYPVFPISAVTR-----------------EGLRELLFEVANQLENT  174 (185)
T ss_dssp             SCCCBCCCSSCCS-----------------STTHHHHHHHHHHHTSC
T ss_pred             cCCcEEEEECCCC-----------------CCHHHHHHHHHHhhhhC
Confidence            4678999999999                 99999999999888653

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.91  E-value=1.9e-09  Score=78.45  Aligned_cols=61  Identities=18%  Similarity=0.133  Sum_probs=49.9

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCc-EEEEeecCCCCCc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKK-LVIVINKAGKPST   69 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~   69 (161)
                      .|.|..  |..++ .+++..||++|+|+||.+++..+..+...++.. .+.| +++++||+|+.+.
T Consensus        74 tPGh~d--f~~~~-~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~-~gi~~iiv~iNK~D~~~~  135 (204)
T d2c78a3          74 CPGHAD--YIKNM-ITGAAQMDGAILVVSAADGPMPQTREHILLARQ-VGVPYIVVFMNKVDMVDD  135 (204)
T ss_dssp             CCCSGG--GHHHH-HHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHH-TTCCCEEEEEECGGGCCC
T ss_pred             CCCchh--hHHHH-HHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHH-cCCCeEEEEEEecccCCC
Confidence            467664  67787 799999999999999999998888777777766 5765 6677999999765

>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=98.83  E-value=7.8e-09  Score=72.38  Aligned_cols=97  Identities=14%  Similarity=0.122  Sum_probs=60.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh-hhc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP-YNS   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~-~~~   88 (161)
                      ++..|...+..+|.+++|+|++++....+  ..+.......  .+.|+++|.||+|+.+..    .. ..+..... ...
T Consensus        73 ~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~----~~-~~~~~~~~~~~~  147 (176)
T d1fzqa_          73 IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA----PA-SEIAEGLNLHTI  147 (176)
T ss_dssp             GHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC----CH-HHHHHHTTGGGC
T ss_pred             chhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccc----cH-HHHHHHHHHHHH
Confidence            44556778899999999999987643211  1122222211  368999999999997651    11 11222221 111


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .....+++.+||+++                 .|+++++++|.+
T Consensus       148 ~~~~~~~~~~SA~tg-----------------~gv~e~~~~l~~  174 (176)
T d1fzqa_         148 RDRVWQIQSCSALTG-----------------EGVQDGMNWVCK  174 (176)
T ss_dssp             CSSCEEEEECCTTTC-----------------TTHHHHHHHHHH
T ss_pred             HhcCCEEEEEeCCCC-----------------CCHHHHHHHHHh
Confidence            112445778999999                 999999998865

>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=98.75  E-value=1.9e-08  Score=70.90  Aligned_cols=99  Identities=15%  Similarity=0.071  Sum_probs=62.7

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhh-hhccC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP-YNSIQ   90 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~   90 (161)
                      .++...+..+|++++|+|++++.....  ..+...+...  .+.|+++|.||+|+....    .. +.+..... .....
T Consensus        76 ~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~----~~-~~i~~~~~~~~~~~  150 (182)
T d1moza_          76 PYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGAL----SA-SEVSKELNLVELKD  150 (182)
T ss_dssp             TTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCC----CH-HHHHHHTTTTTCCS
T ss_pred             hhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeecccccc----CH-HHHHHHHHHHHHhh
Confidence            344567789999999999988754322  2223333321  368999999999996531    00 11222111 11111


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+++.+||+++                 .|++++.++|.+.+.+
T Consensus       151 ~~~~~~e~SA~~g-----------------~gv~e~~~~l~~~i~~  179 (182)
T d1moza_         151 RSWSIVASSAIKG-----------------EGITEGLDWLIDVIKE  179 (182)
T ss_dssp             SCEEEEEEBGGGT-----------------BTHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCC-----------------CCHHHHHHHHHHHHHH
Confidence            2346789999999                 9999999998887654

>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=98.74  E-value=2.4e-08  Score=69.13  Aligned_cols=100  Identities=19%  Similarity=0.130  Sum_probs=62.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHh-hhhc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI-PYNS   88 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~-~~~~   88 (161)
                      ++..+...+..+|.+++|+|+.+.....+  ..+...+...  .+.|+++|.||+|+.+..    ...+...... ..+.
T Consensus        59 ~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~----~~~~~~~~~~~~~~~  134 (165)
T d1ksha_          59 LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL----SCNAIQEALELDSIR  134 (165)
T ss_dssp             HHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC----CHHHHHHHTTGGGCC
T ss_pred             hhhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEecccccccc----CHHHHHHHHHhhhhh
Confidence            45555678899999999999887543211  2233333221  468999999999996541    1111111111 1122


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                       ....+++.+||+++                 .|+++++++|.+.+.
T Consensus       135 -~~~~~~~~~Sa~~g-----------------~gv~e~~~~l~~~i~  163 (165)
T d1ksha_         135 -SHHWRIQGCSAVTG-----------------EDLLPGIDWLLDDIS  163 (165)
T ss_dssp             -SSCEEEEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             -cCCCEEEEEECCCC-----------------CCHHHHHHHHHHHHH
Confidence             12345788999999                 999999998876543

>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=98.69  E-value=4.3e-08  Score=68.55  Aligned_cols=97  Identities=13%  Similarity=0.050  Sum_probs=61.1

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHh--hhhc
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI--PYNS   88 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~--~~~~   88 (161)
                      +..+...+..+|.+++|+|+++......  ..+...+...  ...|+++|.||+|+.+..    .. ..+....  ..+.
T Consensus        70 ~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~----~~-~~i~~~~~~~~~~  144 (173)
T d1e0sa_          70 RPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAM----KP-HEIQEKLGLTRIR  144 (173)
T ss_dssp             HHHHGGGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC----CH-HHHHHHTTGGGCC
T ss_pred             hhHHHhhhcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccccc----cH-HHHHHHHHHHHHH
Confidence            3455678899999999999976533211  2233333221  368999999999997531    11 1122211  1222


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       ....+++.+||+++                 .|++++.++|.+.+
T Consensus       145 -~~~~~~~e~SA~tg-----------------~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         145 -DRNWYVQPSCATSG-----------------DGLYEGLTWLTSNY  172 (173)
T ss_dssp             -SSCEEEEECBTTTT-----------------BTHHHHHHHHHHHC
T ss_pred             -hCCCEEEEeeCCCC-----------------cCHHHHHHHHHHhc
Confidence             12345678899999                 99999999987653

>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=98.65  E-value=5.9e-08  Score=67.23  Aligned_cols=100  Identities=12%  Similarity=0.105  Sum_probs=62.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +...|......+|.+++|+|+.+...-.  ...+...+...  .+.|+++|.||+|+....    ...+..+........
T Consensus        60 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~----~~~~i~~~~~~~~~~  135 (164)
T d1zd9a1          60 FRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL----DEKELIEKMNLSAIQ  135 (164)
T ss_dssp             HHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC----CHHHHHHHTTGGGCC
T ss_pred             ccccccccccccchhhcccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhh----hHHHHHHHHHHHHHH
Confidence            4455567789999999999998653311  11222333221  478999999999986531    111212222112111


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ....+++.+||+++                 .|+++++++|.+++
T Consensus       136 ~~~~~~~e~Sa~~g-----------------~gv~e~~~~l~~~~  163 (164)
T d1zd9a1         136 DREICCYSISCKEK-----------------DNIDITLQWLIQHS  163 (164)
T ss_dssp             SSCEEEEECCTTTC-----------------TTHHHHHHHHHHTC
T ss_pred             hCCCEEEEEeCcCC-----------------cCHHHHHHHHHHcc
Confidence            23456789999999                 99999999987754

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=98.62  E-value=1.1e-07  Score=66.39  Aligned_cols=94  Identities=14%  Similarity=0.118  Sum_probs=62.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC-CCceeE
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS-IYSSPR   97 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~   97 (161)
                      ......++.++.+.|+..+....+......+.. ...+.++++||+|+....    ........+.+.+.... ..++++
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~v~~k~D~~~~~----~~~~~~~~~~~~l~~~~~~~~~i~  167 (188)
T d1puia_          93 LEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVD-SNIAVLVLLTKADKLASG----ARKAQLNMVREAVLAFNGDVQVET  167 (188)
T ss_dssp             HHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH-TTCCEEEEEECGGGSCHH----HHHHHHHHHHHHHGGGCSCEEEEE
T ss_pred             hhhhhheeEEEEeecccccchhHHHHHHHHhhh-ccccccchhhhhhccCHH----HHHHHHHHHHHHHHhhCCCCcEEE
Confidence            345566777888888877765555555555544 578999999999998762    11111222233332112 346899


Q ss_pred             EeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          98 FSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        98 iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +||++|                 .|+++|++.|.+++
T Consensus       168 vSA~~g-----------------~Gid~L~~~i~~~~  187 (188)
T d1puia_         168 FSSLKK-----------------QGVDKLRQKLDTWF  187 (188)
T ss_dssp             CBTTTT-----------------BSHHHHHHHHHHHH
T ss_pred             EeCCCC-----------------CCHHHHHHHHHHHh
Confidence            999999                 99999999998875

>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=98.60  E-value=7.7e-08  Score=70.65  Aligned_cols=93  Identities=16%  Similarity=0.186  Sum_probs=60.2

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCC-CcEEEEeecCCCCCcccccccHHHHHHHH
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPG-KKLVIVINKAGKPSTKIQSGSMAQIFQTW   83 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~-k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~   83 (161)
                      .|.|.-  |+..+ ...+..+|.+++|+|+.+++..+..+....+.. .+ +.+|+++||+|+.+..  ...........
T Consensus        96 ~PGH~d--fv~~~-~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~~~-~gv~~iiv~vNK~D~~~~~--~~~~~~~~~~l  169 (222)
T d1zunb3          96 TPGHEQ--YTRNM-ATGASTCDLAIILVDARYGVQTQTRRHSYIASL-LGIKHIVVAINKMDLNGFD--ERVFESIKADY  169 (222)
T ss_dssp             CCCSGG--GHHHH-HHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHH-TTCCEEEEEEECTTTTTSC--HHHHHHHHHHH
T ss_pred             ccchhh--hhhhh-ccccccCceEEEEeccccCcccchHHHHHHHHH-cCCCEEEEEEEcccccccc--ceehhhhHHHH
Confidence            466654  67777 688999999999999999987777666655554 56 5588899999998642  00111111122


Q ss_pred             hhhhccC----CCCceeEEeecCC
Q psy8220          84 IPYNSIQ----SIYSSPRFSSRSQ  103 (161)
Q Consensus        84 ~~~~~~~----~~~~~i~iSa~~~  103 (161)
                      ..++...    ...+++|+||.+|
T Consensus       170 ~~~~~~~~~~~~~i~~IPiSA~~G  193 (222)
T d1zunb3         170 LKFAEGIAFKPTTMAFVPMSALKG  193 (222)
T ss_dssp             HHHHHTTTCCCSEEEEEECCTTTC
T ss_pred             hhhhHhhccCCCceEEEEEEcccC
Confidence            2222211    1135689999998

>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=98.60  E-value=5.8e-08  Score=68.56  Aligned_cols=97  Identities=11%  Similarity=0.007  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCC------CCCcEEEEeecCCCCCcccccccHHHHHHHHhh
Q psy8220          12 VVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGT------PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP   85 (161)
Q Consensus        12 ~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~------~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~   85 (161)
                      +.++.++...++.||.+++|.|++++.+.  ..+..++...      ...|+++|.||+|+....  .... +....+.+
T Consensus        75 e~~~~~~~~~~~~~~~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~--~v~~-~e~~~~~~  149 (186)
T d2f7sa1          75 ERFRSLTTAFFRDAMGFLLMFDLTSQQSF--LNVRNWMSQLQANAYCENPDIVLIGNKADLPDQR--EVNE-RQARELAD  149 (186)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEETTCHHHH--HHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGC--CSCH-HHHHHHHH
T ss_pred             hhhHHHHHHHHhcCCEEEEEEeccccccc--eeeeeccchhhhhccCCCceEEEEeeeccchhhh--cchH-HHHHHHHH
Confidence            44566666778999999999998775322  2233333221      246889999999986431  1111 22233333


Q ss_pred             hhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          86 YNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        86 ~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .    .+.+.+.+||+++                 .|++++.+.|.+.+
T Consensus       150 ~----~~~~~~e~Sak~~-----------------~~i~e~f~~l~~~i  177 (186)
T d2f7sa1         150 K----YGIPYFETSAATG-----------------QNVEKAVETLLDLI  177 (186)
T ss_dssp             H----TTCCEEEEBTTTT-----------------BTHHHHHHHHHHHH
T ss_pred             H----cCCEEEEEeCCCC-----------------CCHHHHHHHHHHHH
Confidence            2    3567899999999                 99999999887654

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.60  E-value=5.9e-08  Score=67.75  Aligned_cols=90  Identities=7%  Similarity=0.115  Sum_probs=61.4

Q ss_pred             hhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc-cCCCCceeEEee
Q psy8220          22 VEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS-IQSIYSSPRFSS  100 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~iSa  100 (161)
                      ...+|+++++.|+...... ...+...+.+ ...|.++|+||+|....+       ..+......+. .....+++++||
T Consensus        83 ~~~~~~~l~~~d~~~~~~~-~~~~~~~l~~-~~~~~i~v~~k~d~~~~~-------~~~~~~~~~~~~~~~~~~~~~vSA  153 (179)
T d1egaa1          83 IGDVELVIFVVEGTRWTPD-DEMVLNKLRE-GKAPVILAVNKVDNVQEK-------ADLLPHLQFLASQMNFLDIVPISA  153 (179)
T ss_dssp             CCCEEEEEEEEETTCCCHH-HHHHHHHHHS-SSSCEEEEEESTTTCCCH-------HHHHHHHHHHHTTSCCSEEEECCT
T ss_pred             hhhcceeEEEEecCccchh-HHHHHHHhhh-ccCceeeeeeeeeccchh-------hhhhhHhhhhhhhcCCCCEEEEeC
Confidence            4578999999998754433 3334444555 578999999999987652       11222222221 112457899999


Q ss_pred             cCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220         101 RSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      +++                 .|+++|++.|.+.+++.
T Consensus       154 ~~g-----------------~gi~~L~~~i~~~lpe~  173 (179)
T d1egaa1         154 ETG-----------------LNVDTIAAIVRKHLPEA  173 (179)
T ss_dssp             TTT-----------------TTHHHHHHHHHTTCCBC
T ss_pred             cCC-----------------CCHHHHHHHHHHhCCCC
Confidence            999                 99999999999988653

>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=98.55  E-value=1.1e-07  Score=66.39  Aligned_cols=98  Identities=15%  Similarity=0.033  Sum_probs=58.3

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHh----CC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVV----GT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY   86 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~----~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~   86 (161)
                      ....+....+.+|.+++|.|.+++.+-.. ..+...+.    ..  .+.|+++|.||+|+.+.. +.... +....+...
T Consensus        65 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~-~~v~~-~~~~~~~~~  142 (175)
T d1ky3a_          65 FQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESK-KIVSE-KSAQELAKS  142 (175)
T ss_dssp             ------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGG-CCSCH-HHHHHHHHH
T ss_pred             hhhHHHHHhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhh-cchhH-HHHHHHHHH
Confidence            34444667899999999999987643211 12222221    11  267999999999987531 10111 222333333


Q ss_pred             hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          87 NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +.   ..+.+.+||+++                 .|++++.+.|.+.
T Consensus       143 ~~---~~~~~e~SA~~g-----------------~gv~e~f~~l~~~  169 (175)
T d1ky3a_         143 LG---DIPLFLTSAKNA-----------------INVDTAFEEIARS  169 (175)
T ss_dssp             TT---SCCEEEEBTTTT-----------------BSHHHHHHHHHHH
T ss_pred             cC---CCeEEEEeCCCC-----------------cCHHHHHHHHHHH
Confidence            32   467889999999                 9999998877653

>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=98.54  E-value=3.7e-08  Score=68.43  Aligned_cols=92  Identities=13%  Similarity=0.051  Sum_probs=60.5

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+..+|++++|.|.+++.+-.. ..+...+.+.   .+.|+++|.||+|+.....   .. +....+.+..    +.+
T Consensus        69 ~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~---~~-~~~~~~~~~~----~~~  140 (166)
T d1ctqa_          69 DQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTV---ES-RQAQDLARSY----GIP  140 (166)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCCCS---CH-HHHHHHHHHH----TCC
T ss_pred             hhhhhcccccceeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccccccc---cH-HHHHHHHHHh----CCe
Confidence            456789999999999987643211 2222222211   3689999999999976421   11 2233333332    467


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+||+++                 .|++++...|.+.+.
T Consensus       141 ~~e~Sak~g-----------------~gi~e~f~~i~~~i~  164 (166)
T d1ctqa_         141 YIETSAKTR-----------------QGVEDAFYTLVREIR  164 (166)
T ss_dssp             EEECCTTTC-----------------TTHHHHHHHHHHHHH
T ss_pred             EEEEcCCCC-----------------cCHHHHHHHHHHHHH
Confidence            889999999                 999999888865543

>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=98.54  E-value=1.2e-08  Score=71.31  Aligned_cols=97  Identities=9%  Similarity=-0.080  Sum_probs=59.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      +..++...+..||++|+|.|.+++.+-.. ..+...+.. .  ...|+++|.||+|+....  .... .....+...   
T Consensus        61 ~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~--~v~~-~~~~~~~~~---  134 (168)
T d2gjsa1          61 GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSR--EVSV-DEGRACAVV---  134 (168)
T ss_dssp             ---CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGC--CSCH-HHHHHHHHH---
T ss_pred             cceecccchhhhhhhceeccccccccccccccccchhhcccccccceEEEeecccchhhhc--chhH-HHHHHHHHh---
Confidence            44555667899999999999987643211 122222211 1  357999999999986531  1111 112233222   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       .+.+.+.+||+++                 .|++++.+.|.+.+
T Consensus       135 -~~~~~~e~Sak~~-----------------~~v~~~f~~l~~~i  161 (168)
T d2gjsa1         135 -FDCKFIETSAALH-----------------HNVQALFEGVVRQI  161 (168)
T ss_dssp             -HTSEEEECBTTTT-----------------BSHHHHHHHHHHHH
T ss_pred             -cCCEEEEEeCCCC-----------------cCHHHHHHHHHHHH
Confidence             2567788999999                 99999988876543

>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=98.53  E-value=4.8e-08  Score=67.74  Aligned_cols=90  Identities=12%  Similarity=0.017  Sum_probs=58.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCcee
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSP   96 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   96 (161)
                      ...++.+|++++|+|..++.+-.. ..+.+.+.+. .+.|+++|.||+|+.++.  .... +....+.+.+    +.+.+
T Consensus        69 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~iilVgnK~Dl~~~~--~v~~-~~~~~~~~~~----~~~~~  141 (164)
T d1z2aa1          69 KAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDS--CIKN-EEAEGLAKRL----KLRFY  141 (164)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGGGC--SSCH-HHHHHHHHHH----TCEEE
T ss_pred             hhhhccCceEEEEEeccchhhhhhcccccccccccCCCceEEEeeccCCcccce--eeee-hhhHHHHHHc----CCEEE
Confidence            456789999999999987643211 1122222221 478999999999986541  1111 2233333332    46788


Q ss_pred             EEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          97 RFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        97 ~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .+||+++                 .|++++.+.|.+
T Consensus       142 e~Sak~g-----------------~~v~e~f~~l~~  160 (164)
T d1z2aa1         142 RTSVKED-----------------LNVSEVFKYLAE  160 (164)
T ss_dssp             ECBTTTT-----------------BSSHHHHHHHHH
T ss_pred             EeccCCC-----------------cCHHHHHHHHHH
Confidence            9999999                 999999888754

>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=98.52  E-value=1.7e-08  Score=70.36  Aligned_cols=95  Identities=12%  Similarity=0.059  Sum_probs=60.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHH---hCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLV---VGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l---~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ...+..||++++|.|.+++.+-.. ..+...+   ... .+.|+++|.||+|+.+..  .... +..+.+.+.+    +.
T Consensus        68 ~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~--~v~~-~e~~~~~~~~----~~  140 (171)
T d2erxa1          68 RLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSR--EVQS-SEAEALARTW----KC  140 (171)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGC--CSCH-HHHHHHHHHH----TC
T ss_pred             cccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccc--cccH-HHHHHHHHHc----CC
Confidence            456789999999999987643211 2222222   111 368999999999986431  1111 2223333332    46


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      +.+.+||+++                 .|++++.+.|.+.+.++
T Consensus       141 ~~~e~Sak~~-----------------~~v~e~f~~l~~~~~~~  167 (171)
T d2erxa1         141 AFMETSAKLN-----------------HNVKELFQELLNLEKRR  167 (171)
T ss_dssp             EEEECBTTTT-----------------BSHHHHHHHHHHTCCSS
T ss_pred             eEEEEcCCCC-----------------cCHHHHHHHHHHHHHHh
Confidence            7888999999                 99999999888766543

>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=98.49  E-value=1.5e-07  Score=65.48  Aligned_cols=95  Identities=9%  Similarity=0.038  Sum_probs=59.9

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      .++...++.+|.+++|.|..++.+-.. ..+.+.+.+   ..+.|+++|.||+|+....  .... +....+...+    
T Consensus        67 ~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~--~v~~-~~~~~~~~~~----  139 (168)
T d1u8za_          67 AIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKR--QVSV-EEAKNRADQW----  139 (168)
T ss_dssp             HHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGC--CSCH-HHHHHHHHHH----
T ss_pred             hhhhhcccccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccc--cccH-HHHHHHHHHc----
Confidence            344567889999999999987543211 122222221   1468999999999985431  1111 2233333332    


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +.+.+.+||+++                 .|++++.+.|.+.+
T Consensus       140 ~~~~~e~Sak~g-----------------~gv~e~f~~l~~~i  165 (168)
T d1u8za_         140 NVNYVETSAKTR-----------------ANVDKVFFDLMREI  165 (168)
T ss_dssp             TCEEEECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCC-----------------cCHHHHHHHHHHHH
Confidence            467788999999                 99999888765543

>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=98.49  E-value=1e-07  Score=66.42  Aligned_cols=92  Identities=11%  Similarity=-0.016  Sum_probs=60.1

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHH----HHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAE----DLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~----~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ...+..||++++|.|..++.+-.. ..+.    +.... ...|+++|.||+|+....  .... +....+.+.    .+.
T Consensus        71 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~ilvgnK~Dl~~~~--~v~~-~~~~~~~~~----~~~  142 (171)
T d2erya1          71 EQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDR-DEFPMILIGNKADLDHQR--QVTQ-EEGQQLARQ----LKV  142 (171)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTS-SCCSEEEEEECTTCTTSC--SSCH-HHHHHHHHH----TTC
T ss_pred             cccccccceEEEeeccccccchhhHHHHhHHHHhhccc-CCCCEEEEEeccchhhhc--cchH-HHHHHHHHH----cCC
Confidence            456789999999999987643211 1122    11112 468999999999986541  1111 223333333    356


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+.+||+++                 .|++++...|.+.+.
T Consensus       143 ~~~e~Sak~~-----------------~~i~e~f~~l~~~i~  167 (171)
T d2erya1         143 TYMEASAKIR-----------------MNVDQAFHELVRVIR  167 (171)
T ss_dssp             EEEECBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCC-----------------cCHHHHHHHHHHHHH
Confidence            7788999999                 999999998876654

>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=98.49  E-value=4.4e-08  Score=68.61  Aligned_cols=94  Identities=14%  Similarity=0.003  Sum_probs=59.7

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+..+|++++|.|.+++.+-.. ..+...+..   ..+.|+++|.||+|+....  .... +....+...    .+.+
T Consensus        72 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~--~~~~-~~~~~~~~~----~~~~  144 (173)
T d2fn4a1          72 EQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQR--QVPR-SEASAFGAS----HHVA  144 (173)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGC--CSCH-HHHHHHHHH----TTCE
T ss_pred             chhhccceeeeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhcc--ccch-hhhhHHHHh----cCCE
Confidence            456778999999999987643211 122222211   1467999999999986431  1011 222222222    3567


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+||+++                 .|++++.+.|.+.+.+
T Consensus       145 ~~e~Sak~g-----------------~gv~e~f~~l~~~i~k  169 (173)
T d2fn4a1         145 YFEASAKLR-----------------LNVDEAFEQLVRAVRK  169 (173)
T ss_dssp             EEECBTTTT-----------------BSHHHHHHHHHHHHHH
T ss_pred             EEEEeCCCC-----------------cCHHHHHHHHHHHHHH
Confidence            788999999                 9999999988876543

>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=98.48  E-value=3.5e-08  Score=68.83  Aligned_cols=98  Identities=9%  Similarity=-0.009  Sum_probs=61.9

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...++.||.+|+|+|..++.+... ..+...+.. . ...|+++|.||+|+....  .... +....+.+.    
T Consensus        67 ~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~--~v~~-~~~~~~~~~----  139 (169)
T d3raba_          67 YRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDER--VVSS-ERGRQLADH----  139 (169)
T ss_dssp             GHHHHHTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGC--CSCH-HHHHHHHHH----
T ss_pred             hHHHHHHHHhcCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeeccccccc--ccch-hhhHHHHHH----
Confidence            34555567899999999999987643211 122222211 1 467889999999986431  1011 222223222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+.+.+||+++                 .|++++.+.|.+.+.
T Consensus       140 ~~~~~~e~Sak~g-----------------~gv~e~f~~l~~~i~  167 (169)
T d3raba_         140 LGFEFFEASAKDN-----------------INVKQTFERLVDVIC  167 (169)
T ss_dssp             HTCEEEECBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             cCCEEEEecCCCC-----------------cCHHHHHHHHHHHHh
Confidence            2568899999999                 999999998877653

>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=98.46  E-value=5.3e-08  Score=67.36  Aligned_cols=95  Identities=12%  Similarity=-0.037  Sum_probs=61.1

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      .+...+..+|++++|.|..++.+-.. ..+...+...  .+.|+++|.||+|+.+..  .... +....+.+.    .+.
T Consensus        65 ~~~~~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~--~~~~-~~~~~~~~~----~~~  137 (164)
T d1yzqa1          65 LIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKR--QVSI-EEGERKAKE----LNV  137 (164)
T ss_dssp             GHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGC--CSCH-HHHHHHHHH----TTC
T ss_pred             chHHHhhccceEEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhh--hhhH-HHHHHHHHH----cCC
Confidence            34567889999999999987643211 1222211111  468999999999986541  1111 112222222    356


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+.+||+++                 .|++++.+.|.+.++
T Consensus       138 ~~~e~SAk~g-----------------~~v~e~f~~i~~~l~  162 (164)
T d1yzqa1         138 MFIETSAKAG-----------------YNVKQLFRRVAAALP  162 (164)
T ss_dssp             EEEECCTTTC-----------------TTHHHHHHHHHHHSC
T ss_pred             EEEEecCCCC-----------------cCHHHHHHHHHHhhC
Confidence            7889999999                 999999999887665

>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=98.43  E-value=9.6e-07  Score=61.12  Aligned_cols=95  Identities=9%  Similarity=0.035  Sum_probs=59.1

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCCcH-HHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhh-hhccCCC
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTRCK-VAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIP-YNSIQSI   92 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~~~-~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~   92 (161)
                      +......++.+++|+|..+....... .........   .+.|+++|.||+|+....    .. ..+..... .......
T Consensus        76 ~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~----~~-~~i~~~~~~~~~~~~~  150 (177)
T d1zj6a1          76 WNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECM----TV-AEISQFLKLTSIKDHQ  150 (177)
T ss_dssp             GHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC----CH-HHHHHHHTGGGCCSSC
T ss_pred             hhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccC----cH-HHHHHHHHHHhhHhcC
Confidence            35567789999999999876432211 111112111   478999999999986541    00 11222111 1111124


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+++.+||+++                 .|++++.++|.+.+
T Consensus       151 ~~~~~~Sa~tg-----------------~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         151 WHIQACCALTG-----------------EGLCQGLEWMMSRL  175 (177)
T ss_dssp             EEEEECBTTTT-----------------BTHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCC-----------------CCHHHHHHHHHHHh
Confidence            46788999999                 99999999998765

>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=98.42  E-value=1.8e-07  Score=65.90  Aligned_cols=92  Identities=13%  Similarity=0.067  Sum_probs=57.4

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHH----HHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVA----EDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i----~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      ...+..||.+++++|..++..... ..+    .......  .+.|+++|.||+|+.+..   ... +....+...   ..
T Consensus        69 ~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~---~~~-~~~~~~~~~---~~  141 (184)
T d1vg8a_          69 VAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQ---VAT-KRAQAWCYS---KN  141 (184)
T ss_dssp             CGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCC---SCH-HHHHHHHHH---TT
T ss_pred             cccccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccccc---hhH-HHHHHHHHH---hc
Confidence            456789999999999976532111 111    1221111  247999999999986541   011 112222222   23


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +.+.+.+||+++                 .|++++.+.|.+.+
T Consensus       142 ~~~~~e~Sak~~-----------------~gI~e~f~~l~~~i  167 (184)
T d1vg8a_         142 NIPYFETSAKEA-----------------INVEQAFQTIARNA  167 (184)
T ss_dssp             SCCEEECBTTTT-----------------BSHHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCC-----------------cCHHHHHHHHHHHH
Confidence            677889999999                 99999998875543

>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=98.42  E-value=5.4e-08  Score=68.14  Aligned_cols=94  Identities=12%  Similarity=-0.037  Sum_probs=59.6

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      ++...+..+|.+|+|.|.+++.+-.. ..+...+...   .+.|+++|.||+|+....  .... +....+...    .+
T Consensus        70 ~~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~--~v~~-~~~~~~a~~----~~  142 (172)
T d2g3ya1          70 LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCR--EVSV-SEGRACAVV----FD  142 (172)
T ss_dssp             HHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGC--CSCH-HHHHHHHHH----HT
T ss_pred             cccccccccceeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccc--cccH-HHHHHHHHH----cC
Confidence            33456889999999999987543111 1222223221   368999999999986531  1111 112222222    25


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.+.+||+++                 .|++++.+.|.+.+
T Consensus       143 ~~~~e~Sak~g-----------------~~i~~~f~~l~~~i  167 (172)
T d2g3ya1         143 CKFIETSAAVQ-----------------HNVKELFEGIVRQV  167 (172)
T ss_dssp             CEEEECBTTTT-----------------BSHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCC-----------------cCHHHHHHHHHHHH
Confidence            67888999999                 99999988877654

>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=98.40  E-value=8.5e-08  Score=66.25  Aligned_cols=91  Identities=11%  Similarity=0.018  Sum_probs=56.1

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+..+|++++|.|..++.+-.. ..+...+.+ .  .+.|+++|.||+|+.++.  .... +..+.+.+.    .+.+
T Consensus        70 ~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~--~v~~-~~~~~~~~~----~~~~  142 (165)
T d1z06a1          70 QHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAI--QVPT-DLAQKFADT----HSMP  142 (165)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGC--CSCH-HHHHHHHHH----TTCC
T ss_pred             eeeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhcc--chhH-HHHHHHHHH----CCCE
Confidence            456789999999999987743222 122222221 1  468999999999986541  1111 222333333    3567


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHH
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLL  130 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l  130 (161)
                      .+.+||+++.              .+.|++++.+.|
T Consensus       143 ~~e~SAkt~~--------------~~~~V~e~F~~l  164 (165)
T d1z06a1         143 LFETSAKNPN--------------DNDHVEAIFMTL  164 (165)
T ss_dssp             EEECCSSSGG--------------GGSCHHHHHHHH
T ss_pred             EEEEecccCC--------------cCcCHHHHHHHh
Confidence            8899998862              236888877665

>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=98.40  E-value=7.9e-08  Score=67.34  Aligned_cols=91  Identities=11%  Similarity=-0.061  Sum_probs=56.5

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      ...++.+|++|+|+|.+++.+-.. ..+...+...  .+.|+++|.||+|+.+..  .... +....+...    ...+.
T Consensus        71 ~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~--~~~~-~~~~~~~~~----~~~~~  143 (175)
T d2f9la1          71 SAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLR--AVPT-DEARAFAEK----NNLSF  143 (175)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--CSCH-HHHHHHHHH----TTCEE
T ss_pred             HHHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccc--cchH-HHHHHhhcc----cCceE
Confidence            456789999999999987643211 1222222211  367999999999987541  1010 111222221    35678


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +.+||+++                 .|++++.+.|.+.
T Consensus       144 ~e~Sa~~g-----------------~~i~e~f~~l~~~  164 (175)
T d2f9la1         144 IETSALDS-----------------TNVEEAFKNILTE  164 (175)
T ss_dssp             EECCTTTC-----------------TTHHHHHHHHHHH
T ss_pred             EEEecCCC-----------------cCHHHHHHHHHHH
Confidence            89999999                 8999887766543

>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=98.40  E-value=1.7e-07  Score=65.33  Aligned_cols=94  Identities=13%  Similarity=0.058  Sum_probs=60.8

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      .++...++.+|.+++|.|++++.+-.. ..+...+.+. .+.|+++|.||+|+.......    + ...+..    ..+.
T Consensus        67 ~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~----~-~~~~~~----~~~~  137 (170)
T d1i2ma_          67 GLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKVKA----K-SIVFHR----KKNL  137 (170)
T ss_dssp             SCGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHHCSCCEEEEEECCCCSCSCCTT----T-SHHHHS----SCSS
T ss_pred             eecchhcccccchhhccccccccccchhHHHHHHHhhccCCCceeeecchhhhhhhhhhh----H-HHHHHH----HcCC
Confidence            344567889999999999988754222 1222222211 479999999999997652110    1 111111    1356


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+.+||+++                 .|++++.+.|.+.+.
T Consensus       138 ~~~e~Sak~~-----------------~~v~e~f~~l~~~l~  162 (170)
T d1i2ma_         138 QYYDISAKSN-----------------YNFEKPFLWLARKLI  162 (170)
T ss_dssp             EEEEEBTTTT-----------------BTTTHHHHHHHHHHH
T ss_pred             EEEEEeCCCC-----------------CCHHHHHHHHHHHHc
Confidence            7889999999                 999999888876543

>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=98.40  E-value=4.8e-07  Score=62.61  Aligned_cols=92  Identities=10%  Similarity=-0.021  Sum_probs=58.0

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHh---CCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVV---GTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~---~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+..+|++++|.|.+++.+-.. ..+...+.   ...+.|+++|.||+|+....  .... +....+.+.+   .+.+
T Consensus        69 ~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~--~~~~-~~~~~~~~~~---~~~~  142 (167)
T d1c1ya_          69 DLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDER--VVGK-EQGQNLARQW---CNCA  142 (167)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGC--CSCH-HHHHHHHHHT---TSCE
T ss_pred             cccccccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCccccc--ccch-hHHHHHHHHh---CCCE
Confidence            456789999999999987643222 12222221   11367999999999986541  1111 1122222222   2567


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .+.+||+++                 .|++++.+.|.+.
T Consensus       143 ~~e~Sak~g-----------------~gv~e~F~~l~~~  164 (167)
T d1c1ya_         143 FLESSAKSK-----------------INVNEIFYDLVRQ  164 (167)
T ss_dssp             EEECBTTTT-----------------BSHHHHHHHHHHH
T ss_pred             EEEEcCCCC-----------------cCHHHHHHHHHHH
Confidence            788999999                 9999998877654

>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=98.38  E-value=2.4e-07  Score=64.17  Aligned_cols=91  Identities=11%  Similarity=-0.111  Sum_probs=57.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-H----HHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-K----VAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~----~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ...+..+|.+++|.|..++.+-.. .    .+.+.... .+.|+++|.||+|+....  .... +....+.+.+    +.
T Consensus        70 ~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilvgnK~Dl~~~r--~v~~-~~~~~~a~~~----~~  141 (167)
T d1xtqa1          70 QTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGK-VQIPIMLVGNKKDLHMER--VISY-EEGKALAESW----NA  141 (167)
T ss_dssp             GGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCS-SCCCEEEEEECTTCGGGC--CSCH-HHHHHHHHHH----TC
T ss_pred             chhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccc-cccceeeecccccccccc--chhH-HHHHHHHHHc----CC
Confidence            346778999999999987643211 1    12222222 468999999999986431  1111 2233343332    45


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +.+.+||+++                 .|++++.+.|...+
T Consensus       142 ~~~e~Sak~~-----------------~~v~~~f~~li~~~  165 (167)
T d1xtqa1         142 AFLESSAKEN-----------------QTAVDVFRRIILEA  165 (167)
T ss_dssp             EEEECCTTCH-----------------HHHHHHHHHHHHHH
T ss_pred             EEEEEecCCC-----------------CCHHHHHHHHHHHh
Confidence            6788999998                 99999988765443

>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=98.36  E-value=2e-07  Score=65.24  Aligned_cols=99  Identities=12%  Similarity=0.072  Sum_probs=58.5

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCC-CCCcEEEEeecCCCCCccccc--------ccH-HHHHHHH
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTR--CKVAEDLVVGT-PGKKLVIVINKAGKPSTKIQS--------GSM-AQIFQTW   83 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~--------~~~-~~~~~~~   83 (161)
                      .++...+..+|.+++|.|.+++.+-.  ...+...+... .+.|+++|.||+|+.+.....        ... .+....+
T Consensus        65 ~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~  144 (177)
T d1kmqa_          65 RLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM  144 (177)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHH
T ss_pred             ccchhhcccchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHH
Confidence            34455788999999999998764211  11222222221 468999999999997641000        000 0011112


Q ss_pred             hhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          84 IPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        84 ~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.+   ...+.+.+||+++                 .|++++.+.+.+.+
T Consensus       145 a~~~---~~~~~~E~SAkt~-----------------~gi~e~F~~i~~~~  175 (177)
T d1kmqa_         145 ANRI---GAFGYMECSAKTK-----------------DGVREVFEMATRAA  175 (177)
T ss_dssp             HHHT---TCSEEEECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             HHHc---CCcEEEEecCCCC-----------------cCHHHHHHHHHHHH
Confidence            2221   1245678899999                 99999988876543

>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=98.36  E-value=1.2e-06  Score=60.80  Aligned_cols=93  Identities=11%  Similarity=0.014  Sum_probs=58.5

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC---CCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG---TPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~---~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ...+..||++++|.|.+++.+-.. ..+...+.+   ..+.|+++|.||+|+....  .... +....+.+.+    +.+
T Consensus        70 ~~~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~--~v~~-e~~~~~~~~~----~~~  142 (169)
T d1x1ra1          70 EQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLR--KVTR-DQGKEMATKY----NIP  142 (169)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTC--CSCH-HHHHHHHHHH----TCC
T ss_pred             hhhhhhccEEEEecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhc--eeeh-hhHHHHHHHc----CCE
Confidence            456789999999999987643211 122222211   1468999999999987641  1111 2233444433    467


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.+||+++                ..|++++...|.+.+
T Consensus       143 ~~e~Sak~~----------------~~nV~~~F~~l~~~i  166 (169)
T d1x1ra1         143 YIETSAKDP----------------PLNVDKTFHDLVRVI  166 (169)
T ss_dssp             EEEEBCSSS----------------CBSHHHHHHHHHHHH
T ss_pred             EEEEcCCCC----------------CcCHHHHHHHHHHHH
Confidence            889999876                158999887776544

>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=98.36  E-value=9.5e-08  Score=66.35  Aligned_cols=95  Identities=9%  Similarity=-0.018  Sum_probs=59.5

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ++...+..+|.+|+|.|.+++.+-.. ..+...+.. . ...|+++|.||+|+....  .... +....+...    .+.
T Consensus        69 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~--~v~~-~~~~~~~~~----~~~  141 (167)
T d1z0ja1          69 LAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVR--EVME-RDAKDYADS----IHA  141 (167)
T ss_dssp             GTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGC--CSCH-HHHHHHHHH----TTC
T ss_pred             HHHHHHhhccceEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhcccc--chhH-HHHHHHHHH----cCC
Confidence            33556789999999999876533211 111111111 1 478999999999996431  1111 222222222    356


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      +.+.+||+++                 .|++++...|.+.+|
T Consensus       142 ~~~e~SAk~~-----------------~nV~e~f~~l~~~i~  166 (167)
T d1z0ja1         142 IFVETSAKNA-----------------ININELFIEISRRIP  166 (167)
T ss_dssp             EEEECBTTTT-----------------BSHHHHHHHHHHHCC
T ss_pred             EEEEEecCCC-----------------CCHHHHHHHHHHhCC
Confidence            7889999999                 999999888876543

>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=98.36  E-value=9.4e-07  Score=61.49  Aligned_cols=93  Identities=14%  Similarity=0.033  Sum_probs=59.1

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHH----HHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVA----EDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i----~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      ..+...+..+|+++++.|.+++.+-.. ..+    .++....  .+.|+++|.||+|+.+..   ... +....+.... 
T Consensus        70 ~~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~~~---v~~-~~~~~~~~~~-  144 (174)
T d1wmsa_          70 SLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQ---VST-EEAQAWCRDN-  144 (174)
T ss_dssp             HHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCS---SCH-HHHHHHHHHT-
T ss_pred             hhhhhhhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhhcc---CcH-HHHHHHHHHc-
Confidence            344678899999999999986643211 112    2221111  357999999999986531   111 2233343322 


Q ss_pred             cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          89 IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        89 ~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                        ...+.+.+||+++                 .|++++.+.|.+
T Consensus       145 --~~~~~~e~Sak~~-----------------~gI~e~f~~l~~  169 (174)
T d1wmsa_         145 --GDYPYFETSAKDA-----------------TNVAAAFEEAVR  169 (174)
T ss_dssp             --TCCCEEECCTTTC-----------------TTHHHHHHHHHH
T ss_pred             --CCCeEEEEcCCCC-----------------cCHHHHHHHHHH
Confidence              2467888999999                 999999877643

>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=98.34  E-value=1e-07  Score=66.44  Aligned_cols=94  Identities=18%  Similarity=0.081  Sum_probs=58.7

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      +..++...++.||.+++|+|..++.+-.. ..+...+.. . ...|+++|.||+|+....  .... +....+.+.    
T Consensus        67 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~--~v~~-~~~~~~~~~----  139 (171)
T d2ew1a1          67 FRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERR--EVSQ-QRAEEFSEA----  139 (171)
T ss_dssp             GHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--SSCH-HHHHHHHHH----
T ss_pred             hHHHHHHHHhccceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeeccccccc--chhh-hHHHHHHHh----
Confidence            45555567899999999999887643211 222222221 1 367899999999986431  1111 222333222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHH
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLG  131 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~  131 (161)
                      .+.+.+.+||+++                 .|++++...|.
T Consensus       140 ~~~~~~~~SAktg-----------------~gV~e~f~~l~  163 (171)
T d2ew1a1         140 QDMYYLETSAKES-----------------DNVEKLFLDLA  163 (171)
T ss_dssp             HTCCEEECCTTTC-----------------TTHHHHHHHHH
T ss_pred             CCCEEEEEccCCC-----------------CCHHHHHHHHH
Confidence            2567899999999                 99999866544

>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=98.33  E-value=1.3e-07  Score=66.01  Aligned_cols=93  Identities=13%  Similarity=-0.024  Sum_probs=59.0

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      ++......+|++++|.|..++.+-.. ..+...+...  .+.|+++|.||+|+....  .... +....+.+.    .+.
T Consensus        68 ~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~--~~~~-~~~~~~a~~----~~~  140 (173)
T d2a5ja1          68 ITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR--DVKR-EEGEAFARE----HGL  140 (173)
T ss_dssp             CCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--CSCH-HHHHHHHHH----HTC
T ss_pred             HHHHHhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhh--hhHH-HHHHHHHHH----cCC
Confidence            34556789999999999987643211 1222222211  468999999999975431  1111 222333333    256


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +.+.+||+++                 .|++++...|.+.
T Consensus       141 ~~~e~Sa~tg-----------------~~V~e~f~~i~~~  163 (173)
T d2a5ja1         141 IFMETSAKTA-----------------CNVEEAFINTAKE  163 (173)
T ss_dssp             EEEEECTTTC-----------------TTHHHHHHHHHHH
T ss_pred             EEEEecCCCC-----------------CCHHHHHHHHHHH
Confidence            7889999999                 9999988777654

>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=98.32  E-value=1e-07  Score=66.33  Aligned_cols=95  Identities=12%  Similarity=0.069  Sum_probs=60.0

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .++...+..+|.+++|.|..++..-.. ..+...+.. . .+.|+++|.||+|+..+.  .... +....+...    .+
T Consensus        70 ~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~--~v~~-e~~~~~~~~----~~  142 (170)
T d1r2qa_          70 SLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKR--AVDF-QEAQSYADD----NS  142 (170)
T ss_dssp             GGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--CSCH-HHHHHHHHH----TT
T ss_pred             hhHHHHhhCcceEEEEeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccc--cccH-HHHHHHHHh----cC
Confidence            344556789999999999876533111 122222211 1 468999999999986431  1111 222333222    35


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.+.+||+++                 .|++++.+.|.+.+
T Consensus       143 ~~~~e~SAk~g-----------------~~V~e~f~~l~~~i  167 (170)
T d1r2qa_         143 LLFMETSAKTS-----------------MNVNEIFMAIAKKL  167 (170)
T ss_dssp             CEEEECCTTTC-----------------TTHHHHHHHHHHTS
T ss_pred             CEEEEeeCCCC-----------------CCHHHHHHHHHHHH
Confidence            67899999999                 99999998886544

>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=98.32  E-value=1e-07  Score=66.10  Aligned_cols=91  Identities=12%  Similarity=-0.018  Sum_probs=56.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHh---CCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC-KVAEDLVV---GTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~---~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ......||++++|.|.+++.+-.+ ..+...+.   ...+.|+++|.||+|+....  .... +....+.+.+    +.+
T Consensus        69 ~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~--~~~~-~~~~~~~~~~----~~~  141 (167)
T d1kaoa_          69 DLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESER--EVSS-SEGRALAEEW----GCP  141 (167)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGC--CSCH-HHHHHHHHHH----TSC
T ss_pred             HHHhhcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcc--cchH-HHHHHHHHHc----CCe
Confidence            456789999999999987643211 11211121   11367999999999986531  1111 1222333332    467


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      .+.+||+++                 .|++++.+.|.+.
T Consensus       142 ~~e~Sak~g-----------------~~i~e~f~~i~~~  163 (167)
T d1kaoa_         142 FMETSAKSK-----------------TMVDELFAEIVRQ  163 (167)
T ss_dssp             EEEECTTCH-----------------HHHHHHHHHHHHH
T ss_pred             EEEECCCCC-----------------cCHHHHHHHHHHH
Confidence            889999998                 9999988877543

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=98.32  E-value=9.7e-07  Score=66.39  Aligned_cols=59  Identities=29%  Similarity=0.250  Sum_probs=50.3

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCC
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKP   67 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~   67 (161)
                      .|.|.-  |..+. ..++.-+|.+|+|+|+..+...+.+.+.+++.+ .+.|.++++||+|..
T Consensus        74 tPGh~d--F~~e~-~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~~-~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          74 APGYGD--FVGEI-RGALEAADAALVAVSAEAGVQVGTERAWTVAER-LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             CCCSGG--GHHHH-HHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHH-TTCCEEEEEECGGGC
T ss_pred             cCchhh--hhhhh-hhhhcccCceEEEeeccCCccchhHHHHHhhhh-ccccccccccccccc
Confidence            466654  77888 789999999999999999988888888887776 789999999999964

>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=98.32  E-value=2.1e-07  Score=64.83  Aligned_cols=96  Identities=10%  Similarity=-0.069  Sum_probs=59.9

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      ..++...+..+|++++|+|.+++..... ..+...+.. . .+.|+++|.||+|+.+..  ... ......+...    .
T Consensus        68 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~--~~~-~~~~~~~~~~----~  140 (174)
T d2bmea1          68 RSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADR--EVT-FLEASRFAQE----N  140 (174)
T ss_dssp             HHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--CSC-HHHHHHHHHH----T
T ss_pred             hhhHHHHhhhCCEEEEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchh--chh-hhHHHHHHHh----C
Confidence            3445678899999999999987643211 111111211 1 468999999999985431  100 0111222221    3


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +.+.+.+||+++                 .|++++.+.|.+.+
T Consensus       141 ~~~~~e~Sak~~-----------------~gi~e~f~~l~~~i  166 (174)
T d2bmea1         141 ELMFLETSALTG-----------------ENVEEAFVQCARKI  166 (174)
T ss_dssp             TCEEEECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             CCEEEEeeCCCC-----------------cCHHHHHHHHHHHH
Confidence            567889999999                 99999987776543

>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=98.30  E-value=1.5e-07  Score=65.17  Aligned_cols=94  Identities=15%  Similarity=0.051  Sum_probs=58.7

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      ..++...++.+|++++|.|.++..+-.. ..+...+.. . ...|+++|.||+|+....  .... +....+.+.    .
T Consensus        67 ~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~--~~~~-~~~~~~~~~----~  139 (166)
T d1z0fa1          67 RAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQR--DVTY-EEAKQFAEE----N  139 (166)
T ss_dssp             CHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--CSCH-HHHHHHHHH----T
T ss_pred             HHHHHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhc--ccHH-HHHHHHHHH----c
Confidence            3444567889999999999987533211 122222221 1 468899999999985431  1111 112222222    3


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      +.+.+.+||+++                 .|++++.+.|.+
T Consensus       140 ~~~~~e~Saktg-----------------~~v~e~f~~i~~  163 (166)
T d1z0fa1         140 GLLFLEASAKTG-----------------ENVEDAFLEAAK  163 (166)
T ss_dssp             TCEEEECCTTTC-----------------TTHHHHHHHHHH
T ss_pred             CCEEEEEeCCCC-----------------CCHHHHHHHHHH
Confidence            567889999999                 999999877754

>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=98.27  E-value=3.6e-06  Score=56.78  Aligned_cols=97  Identities=15%  Similarity=0.071  Sum_probs=60.2

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQS   91 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~   91 (161)
                      ..+......+|.+++++|..++.....  ..+.+.+...  ...|+++|.||.|+....    ...+........+....
T Consensus        59 ~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~----~~~~i~~~~~~~~~~~~  134 (160)
T d1r8sa_          59 PLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRHR  134 (160)
T ss_dssp             HHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC----CHHHHHHHTTGGGCSSC
T ss_pred             hhhhhhhccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccc----cHHHHHHHHHHHHHhhC
Confidence            334567889999999999987643221  1222323221  368999999999987641    00111111111222123


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +.+++++||++|                 .|++++.+.|.+.
T Consensus       135 ~~~~~~~SAktg-----------------~gi~e~~~~l~~~  159 (160)
T d1r8sa_         135 NWYIQATCATSG-----------------DGLYEGLDWLSNQ  159 (160)
T ss_dssp             CEEEEECBTTTT-----------------BTHHHHHHHHHHH
T ss_pred             CCEEEEeECCCC-----------------CCHHHHHHHHHhc
Confidence            456889999999                 9999999998653

>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=98.25  E-value=7e-07  Score=62.95  Aligned_cols=94  Identities=10%  Similarity=-0.045  Sum_probs=56.5

Q ss_pred             HHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCccc----------ccccHHHHHHHHh
Q psy8220          18 ERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKI----------QSGSMAQIFQTWI   84 (161)
Q Consensus        18 ~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~----------~~~~~~~~~~~~~   84 (161)
                      +...+..||++++|.|++++.+-..  ..+...+... .+.|+++|.||+|+.+...          +.... +....+.
T Consensus        74 ~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~-~~~~~~a  152 (185)
T d2atxa1          74 RPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICV-EQGQKLA  152 (185)
T ss_dssp             GGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCH-HHHHHHH
T ss_pred             hhhcccccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccH-HHHHHHH
Confidence            3457789999999999987643111  1222323221 4789999999999976410          00000 1112222


Q ss_pred             hhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          85 PYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        85 ~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      +.+.   ..+.+.+||+++                 .|++++.+.+.+
T Consensus       153 ~~~~---~~~~~E~SAk~~-----------------~gv~e~F~~li~  180 (185)
T d2atxa1         153 KEIG---ACCYVECSALTQ-----------------KGLKTVFDEAII  180 (185)
T ss_dssp             HHHT---CSCEEECCTTTC-----------------TTHHHHHHHHHH
T ss_pred             HHcC---CCEEEEecCCCC-----------------cCHHHHHHHHHH
Confidence            2221   345677899999                 999999777654

>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=98.23  E-value=4.5e-07  Score=63.20  Aligned_cols=98  Identities=12%  Similarity=-0.002  Sum_probs=56.3

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ...++...++.+|++|+|+|++++.+-.. ..+...+.. . .+.|+++|.||.|+....  .... +....+...    
T Consensus        68 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~--~~~~-~~~~~~~~~----  140 (173)
T d2fu5c1          68 FRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKR--QVSK-ERGEKLALD----  140 (173)
T ss_dssp             ----CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCC--CSCH-HHHHHHHHH----
T ss_pred             hHHHHHHhccCCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhc--ccHH-HHHHHHHHh----
Confidence            44555567899999999999987643211 122222221 1 468999999999987642  1111 112222222    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .+.+.+.+||+++                 .|++++.+.|.+.+.
T Consensus       141 ~~~~~~e~Sa~~g-----------------~gv~e~f~~l~~~i~  168 (173)
T d2fu5c1         141 YGIKFMETSAKAN-----------------INVENAFFTLARDIK  168 (173)
T ss_dssp             HTCEEEECCC--------------------CCHHHHHHHHHHHHH
T ss_pred             cCCEEEEEeCCCC-----------------CCHHHHHHHHHHHHH
Confidence            2567889999998                 999999988876554

>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=98.20  E-value=1.6e-07  Score=65.21  Aligned_cols=97  Identities=18%  Similarity=0.030  Sum_probs=58.6

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQ   90 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~   90 (161)
                      ...++...+..+|++++|.|.+++.+-.. ..+.+.+...  ...|+++|.||+|+....  .... +....+.+.    
T Consensus        65 ~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~--~v~~-~e~~~~a~~----  137 (167)
T d1z08a1          65 FHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKER--HVSI-QEAESYAES----  137 (167)
T ss_dssp             -----CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGC--CSCH-HHHHHHHHH----
T ss_pred             ecccchhhccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeecccccccccc--ccch-HHHHHHHHH----
Confidence            34444567889999999999987643211 1111112110  367889999999986531  1111 223333333    


Q ss_pred             CCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          91 SIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        91 ~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.+.+.+||+++                 .|++++.+.|.+.+
T Consensus       138 ~~~~~~e~Sak~~-----------------~~v~e~F~~l~~~i  164 (167)
T d1z08a1         138 VGAKHYHTSAKQN-----------------KGIEELFLDLCKRM  164 (167)
T ss_dssp             TTCEEEEEBTTTT-----------------BSHHHHHHHHHHHH
T ss_pred             cCCeEEEEecCCC-----------------cCHHHHHHHHHHHH
Confidence            3567889999999                 99999988876543

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.18  E-value=7e-07  Score=66.27  Aligned_cols=95  Identities=19%  Similarity=0.132  Sum_probs=47.3

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCC-------CCcHHHHHHHhCCCCC-cEEEEeecCCCCCccccc---
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMG-------TRCKVAEDLVVGTPGK-KLVIVINKAGKPSTKIQS---   73 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~-------~~~~~i~~~l~~~~~k-~~ilVlNK~Dl~~~~~~~---   73 (161)
                      .|.|.  .|+..+ ...+..+|.+++|+|+.++..       .+..+....+.. .+. ++++++||+|+.+.....   
T Consensus       109 tPGH~--df~~~~-~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~-~~i~~iiv~iNKmD~~~~~~~e~~~  184 (245)
T d1r5ba3         109 APGHK--GYVTNM-INGASQADIGVLVISARRGEFEAGFERGGQTREHAVLART-QGINHLVVVINKMDEPSVQWSEERY  184 (245)
T ss_dssp             CCC--------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHH-TTCSSEEEEEECTTSTTCSSCHHHH
T ss_pred             ccccc--cchhhh-hhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHH-cCCCeEEEEEEcCCCCccchhHHHH
Confidence            36664  377888 688999999999999987631       133333333333 344 577999999997532111   


Q ss_pred             ccHHHHHHHHhhhhccC---CCCceeEEeecCC
Q psy8220          74 GSMAQIFQTWIPYNSIQ---SIYSSPRFSSRSQ  103 (161)
Q Consensus        74 ~~~~~~~~~~~~~~~~~---~~~~~i~iSa~~~  103 (161)
                      .++.+.+......+...   ...|++++||.+|
T Consensus       185 ~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G  217 (245)
T d1r5ba3         185 KECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTG  217 (245)
T ss_dssp             HHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTT
T ss_pred             HHHHHHHHHHHHHHhCcCcccCCEEEEeeccCC
Confidence            11111122222222100   1236899999998

>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=98.14  E-value=1.2e-06  Score=61.90  Aligned_cols=98  Identities=9%  Similarity=-0.043  Sum_probs=59.1

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccc----------cccHHHHHHH
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQ----------SGSMAQIFQT   82 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~----------~~~~~~~~~~   82 (161)
                      .++...+..+|++++|.|.+++.+-..  ..+...+... .+.|+++|.||+|+.+....          .... +....
T Consensus        66 ~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~-~~~~~  144 (191)
T d2ngra_          66 RLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITP-ETAEK  144 (191)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCH-HHHHH
T ss_pred             hhhhhcccccceeecccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccH-HHHHH
Confidence            343556789999999999987643111  1122222211 47899999999998654100          0000 11122


Q ss_pred             HhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          83 WIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        83 ~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      |...+   .+.+.+.+||+++                 .|++++.+.+...+
T Consensus       145 ~~~~~---~~~~~~e~SAk~~-----------------~~V~e~f~~l~~~~  176 (191)
T d2ngra_         145 LARDL---KAVKYVECSALTQ-----------------KGLKNVFDEAILAA  176 (191)
T ss_dssp             HHHHT---TCSCEEECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             HHHHc---CCCeEEEEeCCCC-----------------cCHHHHHHHHHHHH
Confidence            22222   2456788999999                 89999988776554

>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=98.14  E-value=1.7e-06  Score=60.30  Aligned_cols=93  Identities=12%  Similarity=-0.071  Sum_probs=59.0

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      ++...+..+|++++|+|.+++.+... ..+...+...   ...|++++.||.|......   .. +....+...    .+
T Consensus        72 ~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~v---~~-~~~~~~~~~----~~  143 (177)
T d1x3sa1          72 LTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREV---DR-NEGLKFARK----HS  143 (177)
T ss_dssp             SHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCCS---CH-HHHHHHHHH----TT
T ss_pred             HHHHHHhcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeeccccccccc---cH-HHHHHHHHH----CC
Confidence            33456789999999999887543211 2233333321   3578899999999765421   11 111222221    35


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.+.+||+++                 .|++++.+.|.+.+
T Consensus       144 ~~~~e~Sa~tg-----------------~gv~e~f~~l~~~l  168 (177)
T d1x3sa1         144 MLFIEASAKTC-----------------DGVQCAFEELVEKI  168 (177)
T ss_dssp             CEEEECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCC-----------------CCHHHHHHHHHHHH
Confidence            67889999999                 99999988776544

>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=98.12  E-value=1.1e-05  Score=54.57  Aligned_cols=98  Identities=14%  Similarity=0.086  Sum_probs=61.0

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcH--HHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCK--VAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~--~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      ......+|.+++++|..+.......  .+...+...  ...|+++|.||+|+....    ...+........+......+
T Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~----~~~~i~~~~~~~~~~~~~~~  142 (169)
T d1upta_          67 RCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAM----TSSEMANSLGLPALKDRKWQ  142 (169)
T ss_dssp             GGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC----CHHHHHHHHTGGGCTTSCEE
T ss_pred             hhhhhhhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccc----cHHHHHHHHHHHHHhcCCCE
Confidence            4566789999999998765442221  112222211  468899999999997651    00011111111111113557


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcC
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNK  137 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~  137 (161)
                      ++++||+++                 .|++++++.|.+.++++
T Consensus       143 ~~~~SA~~g-----------------~gv~e~~~~l~~~l~~k  168 (169)
T d1upta_         143 IFKTSATKG-----------------TGLDEAMEWLVETLKSR  168 (169)
T ss_dssp             EEECCTTTC-----------------TTHHHHHHHHHHHHHTC
T ss_pred             EEEEeCCCC-----------------CCHHHHHHHHHHHHHhC
Confidence            899999999                 99999999998877653

>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=98.11  E-value=7.8e-07  Score=63.17  Aligned_cols=94  Identities=14%  Similarity=0.042  Sum_probs=59.4

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHHHHHhC-C-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAEDLVVG-T-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIY   93 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l~~-~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (161)
                      +|...+..||.+|+|+|.+++..... ..+...+.+ . .+.|+++|.||+|+.+..  .... +....+...    .+.
T Consensus        71 ~~~~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~--~~~~-~~~~~~~~~----~~~  143 (194)
T d2bcgy1          71 ITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKR--VVEY-DVAKEFADA----NKM  143 (194)
T ss_dssp             CCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC--CSCH-HHHHHHHHH----TTC
T ss_pred             HHHHHhccCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEecccccccc--chhH-HHHhhhhhc----cCc
Confidence            34567789999999999986543221 112222221 1 468999999999987641  1111 212222222    356


Q ss_pred             ceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          94 SSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        94 ~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      +.+.+||+++                 .|++++++.|.+.+
T Consensus       144 ~~~e~SAk~g-----------------~gi~e~f~~l~~~i  167 (194)
T d2bcgy1         144 PFLETSALDS-----------------TNVEDAFLTMARQI  167 (194)
T ss_dssp             CEEECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             ceEEEecCcC-----------------ccHHHHHHHHHHHH
Confidence            7889999999                 99999988876544

>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=98.10  E-value=5.2e-06  Score=57.35  Aligned_cols=98  Identities=8%  Similarity=0.026  Sum_probs=58.6

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCCc-HH-HHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhcc
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTRC-KV-AEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSI   89 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~~-~~-i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~   89 (161)
                      ....++......+|++++|+|..++.+... .. +....... ...|+++|.||+|+..+.  .... +....+.+.   
T Consensus        68 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~--~v~~-~~~~~~~~~---  141 (170)
T d2g6ba1          68 RFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHER--VVKR-EDGEKLAKE---  141 (170)
T ss_dssp             -------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCC--CSCH-HHHHHHHHH---
T ss_pred             hhHHHHHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcc--cccH-HHHHHHHHH---
Confidence            345565667899999999999987643221 11 11111111 468999999999987641  1111 222233332   


Q ss_pred             CCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          90 QSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        90 ~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                       .+.+.+.+||+++                 .|++++.+.|.+.+
T Consensus       142 -~~~~~~e~Sak~g-----------------~gi~e~f~~l~~~i  168 (170)
T d2g6ba1         142 -YGLPFMETSAKTG-----------------LNVDLAFTAIAKEL  168 (170)
T ss_dssp             -HTCCEEECCTTTC-----------------TTHHHHHHHHHHHH
T ss_pred             -cCCEEEEEeCCCC-----------------cCHHHHHHHHHHHc
Confidence             2567899999999                 99999988886544

>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=98.08  E-value=1.4e-06  Score=61.20  Aligned_cols=91  Identities=13%  Similarity=-0.001  Sum_probs=55.1

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCCcccccccHHHHHHH-------------
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQT-------------   82 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~-------------   82 (161)
                      ...+..+|++++|+|++++.+-..  ..+...+... .+.|+++|.||+|+.+..       .....             
T Consensus        71 ~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~-------~~~~~~~~~~~~~~~~~~  143 (183)
T d1mh1a_          71 PLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK-------DTIEKLKEKKLTPITYPQ  143 (183)
T ss_dssp             GGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCH-------HHHHHHHHTTCCCCCHHH
T ss_pred             hhcccccceeeeeeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhhh-------hhhhhhhhccccchhhHH
Confidence            456789999999999987543111  1122222221 468999999999986541       10000             


Q ss_pred             HhhhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          83 WIPYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        83 ~~~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      ......+....+.+.+||+++                 .|++++.+.|.+.
T Consensus       144 ~~~~a~~~~~~~~~E~SAk~~-----------------~~V~e~F~~l~~~  177 (183)
T d1mh1a_         144 GLAMAKEIGAVKYLECSALTQ-----------------RGLKTVFDEAIRA  177 (183)
T ss_dssp             HHHHHHHTTCSEEEECCTTTC-----------------TTHHHHHHHHHHH
T ss_pred             HHHHHHHcCCceEEEcCCCCC-----------------cCHHHHHHHHHHH
Confidence            000111112346678899999                 8999997776543

>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=98.07  E-value=3.3e-06  Score=58.30  Aligned_cols=96  Identities=13%  Similarity=-0.029  Sum_probs=59.8

Q ss_pred             HHHHHhhhccEEEEEEeCCCCCCCCc-HHHH-HHHhCC-CCCcEEEEeecCCCCCccc-ccccHHHHHHHHhhhhccCCC
Q psy8220          17 IERSVVEAADVILEVVDARDPMGTRC-KVAE-DLVVGT-PGKKLVIVINKAGKPSTKI-QSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        17 ~~~~~i~~aDviL~VvD~~~~~~~~~-~~i~-~~l~~~-~~k~~ilVlNK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      ++...+..+|.+++|.|.+++.+... ..+. ...... ...|.++|.||+|+.+... +.... +....+.+.    .+
T Consensus        68 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~-~~~~~~~~~----~~  142 (170)
T d1ek0a_          68 LAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAR-EEGEKLAEE----KG  142 (170)
T ss_dssp             GHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCH-HHHHHHHHH----HT
T ss_pred             HHHHHHhccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhH-HHHHHHHHH----cC
Confidence            33557889999999999987643221 1111 111111 4689999999999854311 11111 222333333    25


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      .+.+.+||+++                 .|++++...|.+.+
T Consensus       143 ~~~~e~Sak~g-----------------~gV~e~F~~i~~~i  167 (170)
T d1ek0a_         143 LLFFETSAKTG-----------------ENVNDVFLGIGEKI  167 (170)
T ss_dssp             CEEEECCTTTC-----------------TTHHHHHHHHHTTS
T ss_pred             CEEEEecCCCC-----------------cCHHHHHHHHHHHh
Confidence            67889999999                 99999988876544

>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=98.04  E-value=1.2e-06  Score=60.34  Aligned_cols=96  Identities=15%  Similarity=0.021  Sum_probs=62.3

Q ss_pred             HHHHHHhhhccEEEEEEeCCCCCCCCcH-HHHHHHh-CC-CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCC
Q psy8220          16 EIERSVVEAADVILEVVDARDPMGTRCK-VAEDLVV-GT-PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSI   92 (161)
Q Consensus        16 ~~~~~~i~~aDviL~VvD~~~~~~~~~~-~i~~~l~-~~-~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (161)
                      .++...++.||.+++|+|..++.+..+. .+..... .. ...|.+++.||.|+.+...    ..+....+...    .+
T Consensus        66 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~~~----~~~~~~~~~~~----~~  137 (166)
T d1g16a_          66 TITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVV----TADQGEALAKE----LG  137 (166)
T ss_dssp             CCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCCS----CHHHHHHHHHH----HT
T ss_pred             HHHHHHHhcCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhhhhh----hHHHHHHHHHh----cC
Confidence            3445678899999999999886432221 1111111 11 4678999999999876421    11222333322    25


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhhc
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRN  136 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~  136 (161)
                      .+.+.+||+++                 .|++++.+.|.+.+.+
T Consensus       138 ~~~~~~Sa~~~-----------------~~v~e~f~~l~~~i~~  164 (166)
T d1g16a_         138 IPFIESSAKND-----------------DNVNEIFFTLAKLIQE  164 (166)
T ss_dssp             CCEEECBTTTT-----------------BSHHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCC-----------------CCHHHHHHHHHHHHHh
Confidence            78899999999                 9999999988776654

>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=97.98  E-value=5e-06  Score=57.45  Aligned_cols=91  Identities=13%  Similarity=0.005  Sum_probs=55.7

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCc-HHHHHHH---hCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCce
Q psy8220          20 SVVEAADVILEVVDARDPMGTRC-KVAEDLV---VGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSS   95 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~-~~i~~~l---~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (161)
                      ..+..||.+++|.|.+++.+... ..+....   ....+.|+++|.||+|+..+.  .... +....+.+.+    +.+.
T Consensus        68 ~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r--~V~~-~e~~~~a~~~----~~~~  140 (168)
T d2atva1          68 GHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSR--QVST-EEGEKLATEL----ACAF  140 (168)
T ss_dssp             HHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGC--CSCH-HHHHHHHHHH----TSEE
T ss_pred             hhhcccccceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhc--cCcH-HHHHHHHHHh----CCeE
Confidence            45678999999999987643222 1111111   111478999999999986431  1111 2223333332    4677


Q ss_pred             eEEeecCCCCcchhhhhhhhccccccC-HHHHHHHHHhHh
Q psy8220          96 PRFSSRSQKDAQTERDLKAINVSSCVG-AELLMLLLGNYT  134 (161)
Q Consensus        96 i~iSa~~~~~~~~~~~~~~~~~~~~~g-~~~L~~~l~~~~  134 (161)
                      +.+||+++                 .| ++++...|.+.+
T Consensus       141 ~e~Saktg-----------------~gnV~e~F~~l~~~i  163 (168)
T d2atva1         141 YECSACTG-----------------EGNITEIFYELCREV  163 (168)
T ss_dssp             EECCTTTC-----------------TTCHHHHHHHHHHHH
T ss_pred             EEEccccC-----------------CcCHHHHHHHHHHHH
Confidence            88999998                 65 888877665543

>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=97.97  E-value=5e-06  Score=60.07  Aligned_cols=85  Identities=12%  Similarity=0.039  Sum_probs=52.3

Q ss_pred             hccEEEEEEeCCCCCCCCcHHHHHHH-----hCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh--------------
Q psy8220          24 AADVILEVVDARDPMGTRCKVAEDLV-----VGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI--------------   84 (161)
Q Consensus        24 ~aDviL~VvD~~~~~~~~~~~i~~~l-----~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~--------------   84 (161)
                      ..+.+++|+|+......+........     .+ ...|.++|+||+|+.+.. +.    .....+.              
T Consensus       123 ~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~-~~~~~ivvinK~D~~~~~-~~----~~~~~~~~~~~~~~~~~~~~~  196 (244)
T d1yrba1         123 PYPLVVYISDPEILKKPNDYCFVRFFALLIDLR-LGATTIPALNKVDLLSEE-EK----ERHRKYFEDIDYLTARLKLDP  196 (244)
T ss_dssp             SSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHH-HTSCEEEEECCGGGCCHH-HH----HHHHHHHHCHHHHHHHHHHCC
T ss_pred             cCceEEEEeccccccCchhHhhHHHHHHHHHHH-hCCCceeeeeccccccHH-HH----HHHHHHHHHHHHHHHHHhhhh
Confidence            46689999998765443222111111     11 257999999999998751 00    0000000              


Q ss_pred             --------------hhhccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          85 --------------PYNSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        85 --------------~~~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                                    ..+.  ...|++++||.++                 .|+++|...|.+.
T Consensus       197 ~~~~~~~~~~~~~~~~~~--~~~~~v~vSa~~g-----------------eGi~~L~~~l~e~  240 (244)
T d1yrba1         197 SMQGLMAYKMCSMMTEVL--PPVRVLYLSAKTR-----------------EGFEDLETLAYEH  240 (244)
T ss_dssp             SHHHHHHHHHHHHHHHHS--CCCCCEECCTTTC-----------------TTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhC--CCCcEEEEECCCC-----------------CCHHHHHHHHHHH
Confidence                          0111  3457899999999                 9999999999874

>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=97.92  E-value=4e-06  Score=58.68  Aligned_cols=50  Identities=18%  Similarity=0.166  Sum_probs=33.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCc--HHHHHHHhCC-CCCcEEEEeecCCCCC
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRC--KVAEDLVVGT-PGKKLVIVINKAGKPS   68 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~--~~i~~~l~~~-~~k~~ilVlNK~Dl~~   68 (161)
                      ...+..+|++++|.|.+++.+-..  ..+...+... .+.|+++|.||+|+..
T Consensus        68 ~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~  120 (179)
T d1m7ba_          68 PLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT  120 (179)
T ss_dssp             GGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGG
T ss_pred             cchhhhhhhhheeeecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccc
Confidence            456789999999999987643111  1222222211 4789999999999864

>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=97.88  E-value=9e-06  Score=59.92  Aligned_cols=61  Identities=13%  Similarity=0.168  Sum_probs=41.5

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCC-------CCCcHHHHHHHhCCCCCc-EEEEeecCCCCCc
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPM-------GTRCKVAEDLVVGTPGKK-LVIVINKAGKPST   69 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~-------~~~~~~i~~~l~~~~~k~-~ilVlNK~Dl~~~   69 (161)
                      .|.|.-  |..++ ...+..+|.+|+|+||..+.       ..+..+-..++.. .+.| +|+++||+|+.+.
T Consensus        91 tPGH~d--f~~~~-~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~-~gv~~iiv~iNKmD~~~~  159 (239)
T d1f60a3          91 APGHRD--FIKNM-ITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT-LGVRQLIVAVNKMDSVKW  159 (239)
T ss_dssp             CCCCTT--HHHHH-HHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH-TTCCEEEEEEECGGGGTT
T ss_pred             CCCcHH--HHHHH-HHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHH-cCCCeEEEEEECCCCCCC
Confidence            366664  78888 68999999999999998652       1222222222322 3554 7788999998764

>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=97.87  E-value=1.6e-05  Score=59.78  Aligned_cols=60  Identities=13%  Similarity=0.108  Sum_probs=49.6

Q ss_pred             CCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220           6 PMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus         6 p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      |.|.-  |..+. ..++.-+|.+|+|+|+.++...+...+.+...+ .+.|+|+++||.|....
T Consensus        79 PG~~d--F~~e~-~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a~~-~~lP~i~fINKmDr~~a  138 (276)
T d2bv3a2          79 PGHVD--FTIEV-ERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEK-YKVPRIAFANKMDKTGA  138 (276)
T ss_dssp             CSSSS--CSTTH-HHHHHHCCEEEEEEETTTSSCHHHHHHHHHHHT-TTCCEEEEEECTTSTTC
T ss_pred             Cchhh--hHHHH-HHHHHhhhheEEeccccCCcchhHHHHHHHHHH-cCCCEEEEEeccccccc
Confidence            44432  55666 688899999999999999998888888888877 79999999999997654

>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=97.84  E-value=2.8e-05  Score=56.39  Aligned_cols=96  Identities=14%  Similarity=0.074  Sum_probs=54.2

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCC-------CcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHH
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGT-------RCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMA   77 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~-------~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~   77 (161)
                      .|.|.  .|..++ ...+.-+|.+|+|+|+.++..+       +..+-........-.++|+++||+|+.........+.
T Consensus        88 tPGH~--df~~~~-~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~~~~~~~~~~~~  164 (224)
T d1jnya3          88 APGHR--DFVKNM-ITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYDEKRYK  164 (224)
T ss_dssp             CSSST--THHHHH-HHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTTCHHHHH
T ss_pred             CCCcH--HHHHHH-HHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEcccCCCccccHHHHH
Confidence            47774  478888 7899999999999999887421       1111111111102357888999999975421111111


Q ss_pred             HH---HHHHhhhhc-cCCCCceeEEeecCC
Q psy8220          78 QI---FQTWIPYNS-IQSIYSSPRFSSRSQ  103 (161)
Q Consensus        78 ~~---~~~~~~~~~-~~~~~~~i~iSa~~~  103 (161)
                      ..   +......+. .....+++++||.++
T Consensus       165 ~v~~~i~~~~~~~~~~~~~i~~IPISA~~G  194 (224)
T d1jnya3         165 EIVDQVSKFMRSYGFNTNKVRFVPVVAPSG  194 (224)
T ss_dssp             HHHHHHHHHHHHTTCCCTTCEEEECBTTTT
T ss_pred             HHHHHHHhHHHhcCCCcccCeEEEEEccCC
Confidence            11   111111111 012345789999887

>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=97.76  E-value=6.6e-06  Score=63.75  Aligned_cols=58  Identities=24%  Similarity=0.324  Sum_probs=48.3

Q ss_pred             CCCcchHHHHHHHHHHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCC
Q psy8220           5 KPMEMRGVVVQEIERSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGK   66 (161)
Q Consensus         5 ~p~~~~~~~~~~~~~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl   66 (161)
                      .|.|..  |..+. ..++.-+|.+|+|+|+.++...+.+.+.++... .+.|+++++||+|.
T Consensus       103 tPGh~d--F~~ev-~~al~~~D~allVVda~eGv~~qT~~~~~~a~~-~~~p~i~viNKiDr  160 (341)
T d1n0ua2         103 SPGHVD--FSSEV-TAALRVTDGALVVVDTIEGVCVQTETVLRQALG-ERIKPVVVINKVDR  160 (341)
T ss_dssp             CCCCCS--SCHHH-HHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH-TTCEEEEEEECHHH
T ss_pred             CCCcHH--HHHHH-HHHHhhcCceEEEEecccCcchhHHHHHHHHHH-cCCCeEEEEECccc
Confidence            355543  56777 688899999999999999998888888777766 68999999999994

>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=97.75  E-value=3.2e-05  Score=51.77  Aligned_cols=93  Identities=20%  Similarity=0.117  Sum_probs=55.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcH-HHHHHHhCC---CCCcEEEEeecCCCCCcccccccHHHHHHHHhhh--------
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCK-VAEDLVVGT---PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPY--------   86 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~-~i~~~l~~~---~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~--------   86 (161)
                      ......++.+++++|..+....... .+.......   .+.|++++.||.|+....    .. ..+......        
T Consensus        62 ~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~----~~-~~i~~~~~~~~~~~~~~  136 (166)
T d2qtvb1          62 KDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV----SE-AELRSALGLLNTTGSQR  136 (166)
T ss_dssp             GGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCC----CH-HHHHHHHTCSSCCC---
T ss_pred             hhhhhheeeeeeeccccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccC----CH-HHHHHHhhhhhhhHHHh
Confidence            4567889999999998875432111 111111111   468999999999986531    00 111111110        


Q ss_pred             hccCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhH
Q psy8220          87 NSIQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNY  133 (161)
Q Consensus        87 ~~~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~  133 (161)
                      +......+++.+||+++                 .|+++++++|.+|
T Consensus       137 ~~~~~~~~~~~~SA~tg-----------------~Gv~e~~~~l~~~  166 (166)
T d2qtvb1         137 IEGQRPVEVFMCSVVMR-----------------NGYLEAFQWLSQY  166 (166)
T ss_dssp             CCSSCCEEEEEEBTTTT-----------------BSHHHHHHHHTTC
T ss_pred             hcccCCCEEEEeeCCCC-----------------CCHHHHHHHHhCC
Confidence            01011234788899999                 9999999998764

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.73  E-value=2.7e-06  Score=67.27  Aligned_cols=38  Identities=16%  Similarity=0.067  Sum_probs=25.5

Q ss_pred             CHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         122 GAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       122 g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++.+....+.+.++.. .+.+++|+|+|.||||||||++
T Consensus        37 ~~~~~~~~i~~~l~~~-~~~~l~Iai~G~~n~GKSSLiN   74 (400)
T d1tq4a_          37 NIQLTNSAISDALKEI-DSSVLNVAVTGETGSGKSSFIN   74 (400)
T ss_dssp             CHHHHHHHHHHHHHHH-HHCCEEEEEEECTTSSHHHHHH
T ss_pred             CHHHHHHHHHHHHHhc-ccCCcEEEEECCCCCCHHHHHH
Confidence            3444445554444321 1245999999999999999985

>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=97.70  E-value=3.8e-05  Score=52.58  Aligned_cols=94  Identities=15%  Similarity=0.103  Sum_probs=56.6

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcH--HHHHHHhCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc------
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCK--VAEDLVVGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS------   88 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~--~i~~~l~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~------   88 (161)
                      .......+.+++++|..+.......  .+.......  .+.|++++.||.|+....    .. ..+........      
T Consensus        75 ~~~~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~~----~~-~~i~~~~~~~~~~~~~~  149 (186)
T d1f6ba_          75 KNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAI----SE-ERLREMFGLYGQTTGKG  149 (186)
T ss_dssp             GGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCC----CH-HHHHHHHTCTTTCCCSS
T ss_pred             hhhhcccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccccC----CH-HHHHHHHhhcccchhhh
Confidence            5677889999999998765432211  111112111  479999999999986531    00 11121111100      


Q ss_pred             -------cCCCCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          89 -------IQSIYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        89 -------~~~~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                             ...+.+++++||++|                 .|+++++++|.+++
T Consensus       150 ~~~~~~~~~~~~~~~~~SA~tg-----------------~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         150 SVSLKELNARPLEVFMCSVLKR-----------------QGYGEGFRWMAQYI  185 (186)
T ss_dssp             CCCTTTCCSCCEEEEECBTTTT-----------------BSHHHHHHHHHTTC
T ss_pred             hhhHHHhhcCCCEEEEEeCCCC-----------------CCHHHHHHHHHHhh
Confidence                   001224678899999                 99999999987654

>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=97.68  E-value=4.2e-05  Score=53.21  Aligned_cols=91  Identities=10%  Similarity=0.001  Sum_probs=53.2

Q ss_pred             HhhhccEEEEEEeCCCCCCCCc-HHHHHHH---hCC--CCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCc
Q psy8220          21 VVEAADVILEVVDARDPMGTRC-KVAEDLV---VGT--PGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYS   94 (161)
Q Consensus        21 ~i~~aDviL~VvD~~~~~~~~~-~~i~~~l---~~~--~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (161)
                      .+..||++|+|.|.+++.+-.. ..+.+.+   ...  ...|+++|.||.|+.....+.... +....|....   .+.+
T Consensus        67 ~~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~-~~~~~~~~~~---~~~~  142 (175)
T d2bmja1          67 FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGD-ARARALCADM---KRCS  142 (175)
T ss_dssp             HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCH-HHHHHHHHTS---TTEE
T ss_pred             cccccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhH-HHHHHHHHHh---CCCe
Confidence            3567999999999987633111 1222222   211  346899999999975431111111 2223332222   2456


Q ss_pred             eeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHh
Q psy8220          95 SPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGN  132 (161)
Q Consensus        95 ~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~  132 (161)
                      .+.+||+++                 .|++++...|.+
T Consensus       143 ~~e~SAk~~-----------------~~v~~~F~~l~~  163 (175)
T d2bmja1         143 YYETCATYG-----------------LNVDRVFQEVAQ  163 (175)
T ss_dssp             EEEEBTTTT-----------------BTHHHHHHHHHH
T ss_pred             EEEeCCCCC-----------------cCHHHHHHHHHH
Confidence            788899999                 899998776654

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.50  E-value=2.6e-05  Score=59.97  Aligned_cols=20  Identities=20%  Similarity=0.175  Sum_probs=18.1

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..+|||.|.||||||||+.
T Consensus        53 ~~~~IgitG~pGaGKSTLi~   72 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLE   72 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHH
T ss_pred             CceEEEeeCCCCCCHHHHHH
Confidence            46899999999999999974

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.48  E-value=7.9e-05  Score=58.59  Aligned_cols=45  Identities=11%  Similarity=0.017  Sum_probs=36.6

Q ss_pred             HHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCC
Q psy8220          20 SVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKP   67 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~   67 (161)
                      ..+.++|++|++.|.+  +...+..+.+.+.+ .++|+++|+||+|..
T Consensus       131 ~~~~~~d~~l~~~~~~--~~~~d~~l~~~l~~-~~k~~~~V~nK~D~~  175 (400)
T d1tq4a_         131 MKFYEYDFFIIISATR--FKKNDIDIAKAISM-MKKEFYFVRTKVDSD  175 (400)
T ss_dssp             TTGGGCSEEEEEESSC--CCHHHHHHHHHHHH-TTCEEEEEECCHHHH
T ss_pred             hhhhcceEEEEecCCC--CCHHHHHHHHHHHH-cCCCEEEEEeCcccc
Confidence            4678999999998864  45667778888876 789999999999953

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.28  E-value=6.9e-05  Score=57.41  Aligned_cols=20  Identities=25%  Similarity=0.267  Sum_probs=18.1

Q ss_pred             CceEEEEEeecCCCcccccC
Q psy8220         141 TSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       141 ~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +..+|||.|.||+|||||+.
T Consensus        50 ~~~~igitG~pGaGKSTli~   69 (323)
T d2qm8a1          50 RAIRVGITGVPGVGKSTTID   69 (323)
T ss_dssp             CSEEEEEECCTTSCHHHHHH
T ss_pred             CceEEeeeCCCCCCHHHHHH
Confidence            45899999999999999974

>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=97.24  E-value=9.7e-05  Score=51.79  Aligned_cols=108  Identities=12%  Similarity=0.031  Sum_probs=61.1

Q ss_pred             hhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhccCCCCceeEEeec
Q psy8220          22 VEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNSIQSIYSSPRFSSR  101 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iSa~  101 (161)
                      +...+..+.++|+..+.......+.+.+.. .+.+++++.++++  ++        ..+........  ...+ ..+++.
T Consensus        81 ~~~~~~~~vi~d~~~~~~~~r~~~~~~~~~-~~~~~~~~~~~~~--~~--------~~~~~~~~~~~--~~~~-~~~~~~  146 (213)
T d1bifa1          81 LSEEGGHVAVFDATNTTRERRAMIFNFGEQ-NGYKTFFVESICV--DP--------EVIAANIVQVK--LGSP-DYVNRD  146 (213)
T ss_dssp             HHTTCCSEEEEESCCCSHHHHHHHHHHHHH-HTCEEEEEEECCC--CH--------HHHHHHHHHHT--TTST-TTTTSC
T ss_pred             HHhcCCCEEEeecCCccHHHHHHHHHHHHh-cCCeEEEEEeecc--HH--------HHHHHhHHHHh--cCCC-cccccc
Confidence            344555567899987765555566665554 5688888888886  22        21111111111  1111 122322


Q ss_pred             CCCCcchhhhhhhhccccccCHHHHHHHHHhHhhcCC---CCCceEEEEEeecCCCcccccC
Q psy8220         102 SQKDAQTERDLKAINVSSCVGAELLMLLLGNYTRNKD---IKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~~~~---~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ..                 .+.+.+.+.+..+.+...   ......+.+||.||||||+++.
T Consensus       147 ~~-----------------~~~~~~~~~l~~~~~~~e~~~~~~~~~~~~I~~~n~g~~~lvn  191 (213)
T d1bifa1         147 SD-----------------EATEDFMRRIECYENSYESLDEEQDRDLSYIKIMDVGQSYVVN  191 (213)
T ss_dssp             HH-----------------HHHHHHHHHHHHHHTTCCCCCTTTTTTSCEEEEETTTTEEEEE
T ss_pred             hH-----------------HHHHHHHHhhhhccccccccCccccCCcCeEecCCCCceeeec
Confidence            22                 567777777776655321   1122346789999999999864

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.18  E-value=0.00023  Score=54.49  Aligned_cols=87  Identities=14%  Similarity=0.036  Sum_probs=48.8

Q ss_pred             HHhhhccEEEEEEeCCCCCCCC--cHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHh---hhhcc---CC
Q psy8220          20 SVVEAADVILEVVDARDPMGTR--CKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWI---PYNSI---QS   91 (161)
Q Consensus        20 ~~i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~---~~~~~---~~   91 (161)
                      .....+|.+++|+++..+..-+  ..-+.+       .+-++|+||+|+....    ..........   ..+..   ..
T Consensus       163 ~i~~~aD~~l~v~~P~~Gd~iq~~k~gi~e-------~aDi~VvNKaD~~~~~----~~~~~~~~~~~al~~~~~~~~~w  231 (327)
T d2p67a1         163 EVARMVDCFISLQIAGGGDDLQGIKKGLME-------VADLIVINKDDGDNHT----NVAIARHMYESALHILRRKYDEW  231 (327)
T ss_dssp             HHHTTCSEEEEEECC------CCCCHHHHH-------HCSEEEECCCCTTCHH----HHHHHHHHHHHHHHHSCCSBTTB
T ss_pred             hhhhccceEEEEecCCCchhhhhhchhhhc-------cccEEEEEeecccchH----HHHHHHHHHHHHhhhcccCCCCC
Confidence            4567789999998754332111  112222       3348999999987641    0001111111   11211   11


Q ss_pred             CCceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHh
Q psy8220          92 IYSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYT  134 (161)
Q Consensus        92 ~~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~  134 (161)
                      ..|++.+||.++                 .|+++|.+.|.++.
T Consensus       232 ~p~V~~~SA~~g-----------------~Gi~eL~~~I~~~~  257 (327)
T d2p67a1         232 QPRVLTCSALEK-----------------RGIDEIWHAIIDFK  257 (327)
T ss_dssp             CCEEEECBGGGT-----------------BSHHHHHHHHHHHH
T ss_pred             cceeEEEEeeCC-----------------CCHHHHHHHHHHHH
Confidence            235888999999                 99999999998765

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.06  E-value=0.0013  Score=50.13  Aligned_cols=86  Identities=13%  Similarity=-0.024  Sum_probs=47.9

Q ss_pred             hhhccEEEEEEeCCCCCCCC--cHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHH-HHHhhhhc---c---CCC
Q psy8220          22 VEAADVILEVVDARDPMGTR--CKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIF-QTWIPYNS---I---QSI   92 (161)
Q Consensus        22 i~~aDviL~VvD~~~~~~~~--~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~-~~~~~~~~---~---~~~   92 (161)
                      ..-+|..++|+.+..+..-+  ..-+.       ...=++|+||+|+.+..    ...... ..+...+.   .   ...
T Consensus       162 ~~~~D~~v~v~~p~~GD~iQ~~k~gil-------E~aDi~vvNKaD~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~  230 (323)
T d2qm8a1         162 ADLTDFFLVLMLPGAGDELQGIKKGIF-------ELADMIAVNKADDGDGE----RRASAAASEYRAALHILTPPSATWT  230 (323)
T ss_dssp             HTTSSEEEEEECSCC------CCTTHH-------HHCSEEEEECCSTTCCH----HHHHHHHHHHHHHHTTBCCSBTTBC
T ss_pred             hcccceEEEEeeccchhhhhhhhhhHh-------hhhheeeEeccccccch----HHHHHHHHHHHHHhhcccccccCCC
Confidence            34578888888765432110  00111       13449999999987651    000111 11222211   0   012


Q ss_pred             CceeEEeecCCCCcchhhhhhhhccccccCHHHHHHHHHhHhh
Q psy8220          93 YSSPRFSSRSQKDAQTERDLKAINVSSCVGAELLMLLLGNYTR  135 (161)
Q Consensus        93 ~~~i~iSa~~~~~~~~~~~~~~~~~~~~~g~~~L~~~l~~~~~  135 (161)
                      .|++.+||.++                 .|+++|.+.|.++..
T Consensus       231 p~V~~~Sa~~g-----------------~Gi~el~~~I~~~~~  256 (323)
T d2qm8a1         231 PPVVTISGLHG-----------------KGLDSLWSRIEDHRS  256 (323)
T ss_dssp             CCEEEEBTTTT-----------------BSHHHHHHHHHHHHH
T ss_pred             CceEEEEecCC-----------------CCHHHHHHHHHHHHH
Confidence            35889999999                 999999999987653

>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=96.86  E-value=0.00049  Score=48.34  Aligned_cols=55  Identities=15%  Similarity=0.134  Sum_probs=35.2

Q ss_pred             HHHHHHHhhhccEEEEEEeCCCCCCC---CcHHHHHHHhC---C-CCCcEEEEeecCCCCCc
Q psy8220          15 QEIERSVVEAADVILEVVDARDPMGT---RCKVAEDLVVG---T-PGKKLVIVINKAGKPST   69 (161)
Q Consensus        15 ~~~~~~~i~~aDviL~VvD~~~~~~~---~~~~i~~~l~~---~-~~k~~ilVlNK~Dl~~~   69 (161)
                      ...+...+..+|.+++|+|+++....   ..+.+.+.+..   . ...|+++|.||+|+...
T Consensus        62 ~~~~~~~~~~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a  123 (207)
T d2fh5b1          62 FQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA  123 (207)
T ss_dssp             HHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             chhhhhhhhhccccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCC
Confidence            34546677899999999999764321   11222222221   1 35789999999999753

>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=96.80  E-value=0.0025  Score=44.19  Aligned_cols=50  Identities=12%  Similarity=0.095  Sum_probs=34.5

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHH---H------HHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKV---A------EDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~---i------~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      ..+...+|.+++++|+.......+..   +      .+.... .+.|+++|+||+|+.+.
T Consensus        68 ~~~~~~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~piiiv~NK~D~~~~  126 (209)
T d1nrjb_          68 KTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCE-NGIDILIACNKSELFTA  126 (209)
T ss_dssp             HHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHST-TCCCEEEEEECTTSTTC
T ss_pred             HHHhhhccccceEEEEecccccHHHHHHHHHHHHHHHHHHHh-ccCCeEEEEEeeccccc
Confidence            67788899999999987654432211   1      111222 47899999999999764

>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=95.79  E-value=0.0018  Score=47.88  Aligned_cols=34  Identities=12%  Similarity=0.027  Sum_probs=22.6

Q ss_pred             HHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++.+.+.|.+..    +.....|+|+|++++|||||+.
T Consensus        29 ~~~i~~~L~~~~----~~~~~~v~I~GmgGiGKTtLA~   62 (277)
T d2a5yb3          29 VDRVIKKLDEMC----DLDSFFLFLHGRAGSGKSVIAS   62 (277)
T ss_dssp             HHHHHHHHHHHT----TSSSEEEEEECSTTSSHHHHHH
T ss_pred             HHHHHHHHHhcc----CCCceEEEEECCCCCCHHHHHH
Confidence            445544444322    2234578999999999999974

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.16  E-value=0.0066  Score=45.75  Aligned_cols=35  Identities=9%  Similarity=0.187  Sum_probs=24.8

Q ss_pred             HHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         126 LMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       126 L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      |......++.....+.+.-|||-|.+++||||++.
T Consensus        64 ~~~~~~~fl~~~~~k~P~iIGIaG~sgSGKSTla~   98 (308)
T d1sq5a_          64 RQAVLEQFLGTNGQRIPYIISIAGSVAVGKSTTAR   98 (308)
T ss_dssp             HHHHHHHHHTCC-CCCCEEEEEEECTTSSHHHHHH
T ss_pred             HHHHHHHHhcccCCCCCEEEEEeCCCCCCCcHHHH
Confidence            33444445544444678999999999999999864

>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=94.94  E-value=0.0058  Score=43.08  Aligned_cols=36  Identities=8%  Similarity=0.042  Sum_probs=24.1

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCccccc
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~  159 (161)
                      .|.++-.+.+.+.+..+.   .-.+.+||-|+||||+++
T Consensus        25 igRd~Ei~~l~~iL~r~~---k~n~lLvG~pGVGKTalv   60 (195)
T d1jbka_          25 IGRDEEIRRTIQVLQRRT---KNNPVLIGEPGVGKTAIV   60 (195)
T ss_dssp             CSCHHHHHHHHHHHTSSS---SCEEEEECCTTSCHHHHH
T ss_pred             cCcHHHHHHHHHHHhccC---CCCeEEEecCCcccHHHH
Confidence            454544555555554321   247899999999999986

>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=94.90  E-value=0.0083  Score=42.70  Aligned_cols=37  Identities=22%  Similarity=0.284  Sum_probs=26.0

Q ss_pred             HHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ++.|.+.|...+...+ ..+-.+.+.|.|+|||||++.
T Consensus        25 i~~l~~~l~~~l~~~~-~~~~~lll~GppGtGKT~l~~   61 (276)
T d1fnna2          25 LQQLDILLGNWLRNPG-HHYPRATLLGRPGTGKTVTLR   61 (276)
T ss_dssp             HHHHHHHHHHHHHSTT-SSCCEEEEECCTTSSHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CCCCceEEECCCCCCHHHHHH
Confidence            5667777766554332 233578999999999999864

>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=94.88  E-value=0.026  Score=38.11  Aligned_cols=53  Identities=13%  Similarity=0.108  Sum_probs=34.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCCCc------------HHHHHHHhCC--CCCcEEEEeecCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGTRC------------KVAEDLVVGT--PGKKLVIVINKAGK   66 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~~~------------~~i~~~l~~~--~~k~~ilVlNK~Dl   66 (161)
                      ++.+|......+|.+++|.|..+...-..            ..+...+...  .+.|++++.||+|+
T Consensus        55 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~  121 (195)
T d1svsa1          55 ERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDL  121 (195)
T ss_dssp             GGGGGGGGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHH
T ss_pred             cccchhhcccCCceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchh
Confidence            34555677889999999999865532110            1122222221  46899999999996

>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=94.78  E-value=0.0065  Score=44.88  Aligned_cols=37  Identities=14%  Similarity=0.038  Sum_probs=25.5

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +|.++-.+.+.+.+-...   .-.+.+||-|+||||+|+.
T Consensus        21 igRd~Ei~~l~~iL~r~~---k~n~lLVG~~GvGKTalv~   57 (268)
T d1r6bx2          21 IGREKELERAIQVLCRRR---KNNPLLVGESGVGKTAIAE   57 (268)
T ss_dssp             CSCHHHHHHHHHHHTSSS---SCEEEEECCTTSSHHHHHH
T ss_pred             cChHHHHHHHHHHHhcCc---cCCcEEECCCCCcHHHHHH
Confidence            565655566655553321   2479999999999999873

>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=94.75  E-value=0.035  Score=40.63  Aligned_cols=55  Identities=18%  Similarity=0.189  Sum_probs=37.0

Q ss_pred             HHHHHHHHhhhcc-EEEEEEeCCCCCCCCc-HHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          14 VQEIERSVVEAAD-VILEVVDARDPMGTRC-KVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        14 ~~~~~~~~i~~aD-viL~VvD~~~~~~~~~-~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      ...++...+...+ ++++|.++..++.... ..+.+.+.. .+.++++|+||+|..++
T Consensus       151 i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~-~~~r~i~Vltk~D~~~~  207 (299)
T d2akab1         151 IRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP-QGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCT-TCSSEEEEEECGGGSCT
T ss_pred             HHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCc-CCCceeeEEeccccccc
Confidence            3344455565555 6778888877766543 345555544 46899999999998865

>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=94.30  E-value=0.1  Score=38.17  Aligned_cols=55  Identities=16%  Similarity=0.172  Sum_probs=37.6

Q ss_pred             HHHHHHHHhhhccE-EEEEEeCCCCCCCCc-HHHHHHHhCCCCCcEEEEeecCCCCCc
Q psy8220          14 VQEIERSVVEAADV-ILEVVDARDPMGTRC-KVAEDLVVGTPGKKLVIVINKAGKPST   69 (161)
Q Consensus        14 ~~~~~~~~i~~aDv-iL~VvD~~~~~~~~~-~~i~~~l~~~~~k~~ilVlNK~Dl~~~   69 (161)
                      ...++...+..+|. +++|+++..++.... ..+.+.+.. .+.++++|+||+|....
T Consensus       157 ~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~~~-~~~r~i~Vitk~D~~~~  213 (306)
T d1jwyb_         157 IRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDP-EGKRTIGVITKLDLMDK  213 (306)
T ss_dssp             HHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCS-SCSSEEEEEECTTSSCS
T ss_pred             HHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHhCc-CCCeEEEEEeccccccc
Confidence            44555677888885 666677776655433 445555543 46799999999998865

>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=94.17  E-value=0.014  Score=41.44  Aligned_cols=17  Identities=6%  Similarity=0.024  Sum_probs=15.0

Q ss_pred             EEEEEeecCCCcccccC
Q psy8220         144 TVGVVGECNIAGSIRDL  160 (161)
Q Consensus       144 ~v~vvG~pNVGKSsl~~  160 (161)
                      .+.+.|.|+|||||++.
T Consensus        37 ~~Ll~GPpG~GKTtla~   53 (239)
T d1ixsb2          37 HLLLFGPPGLGKTTLAH   53 (239)
T ss_dssp             CEEEECCTTSCHHHHHH
T ss_pred             eEEEECCCCCCHHHHHH
Confidence            48899999999999874

>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=94.13  E-value=0.0078  Score=41.04  Aligned_cols=54  Identities=9%  Similarity=0.051  Sum_probs=36.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCCC------C------cHHHHHHHhCC--CCCcEEEEeecCCCC
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMGT------R------CKVAEDLVVGT--PGKKLVIVINKAGKP   67 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~~------~------~~~i~~~l~~~--~~k~~ilVlNK~Dl~   67 (161)
                      ++.+|......++.+++++|..+...-      .      -..+...+...  .+.|++++.||+|+.
T Consensus        58 ~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~  125 (200)
T d2bcjq2          58 ERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLL  125 (200)
T ss_dssp             GGGGGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHH
T ss_pred             ccccccccccccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhh
Confidence            455566778899999999998765321      0      12233334332  478999999999974

>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=93.72  E-value=0.044  Score=38.81  Aligned_cols=54  Identities=15%  Similarity=0.110  Sum_probs=31.8

Q ss_pred             hccEEEEEEeCCCCCCCC--cHHHHHHHhCCCCCcEEEEeecCCCCCcccccccHHHHHHHHhhhhc
Q psy8220          24 AADVILEVVDARDPMGTR--CKVAEDLVVGTPGKKLVIVINKAGKPSTKIQSGSMAQIFQTWIPYNS   88 (161)
Q Consensus        24 ~aDviL~VvD~~~~~~~~--~~~i~~~l~~~~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~~~~   88 (161)
                      ..|.++.|+|+..+....  .+.+.+.+..    .=++|+||+|++++.       +.+..+.+.+.
T Consensus       121 ~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~~----AD~ivlNK~Dl~~~~-------~~~~~~l~~lN  176 (222)
T d1nija1         121 LLDGVIALVDAVHADEQMNQFTIAQSQVGY----ADRILLTKTDVAGEA-------EKLHERLARIN  176 (222)
T ss_dssp             EEEEEEEEEETTTHHHHHHHCHHHHHHHHT----CSEEEEECTTTCSCT-------HHHHHHHHHHC
T ss_pred             cccchhhhhhhhhhhhhhhhhHHHHHHHHh----CCcccccccccccHH-------HHHHHHHHHHh
Confidence            457889999997653211  1223333432    237899999998752       33455555554

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=93.31  E-value=0.019  Score=40.61  Aligned_cols=37  Identities=11%  Similarity=0.079  Sum_probs=27.5

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCccccc
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~  159 (161)
                      ...-.++..++.++...  ++.--+.+.|.||+|||+++
T Consensus        34 i~~~~Fl~~l~~~l~~~--PKkn~i~~~GP~~TGKS~f~   70 (205)
T d1tuea_          34 IEFITFLGALKSFLKGT--PKKNCLVFCGPANTGKSYFG   70 (205)
T ss_dssp             CCHHHHHHHHHHHHHTC--TTCSEEEEESCGGGCHHHHH
T ss_pred             ccHHHHHHHHHHHHcCC--CCceEEEEECCCCccHHHHH
Confidence            55667778888877533  23357888999999999986

>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=93.21  E-value=0.019  Score=40.47  Aligned_cols=37  Identities=19%  Similarity=0.301  Sum_probs=25.4

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-++..+.|.+++.....   -.+.+.|.|++||||++.
T Consensus        27 ig~~~~~~~l~~~i~~~~~---~~lll~Gp~G~GKTtla~   63 (231)
T d1iqpa2          27 VGQEHIVKRLKHYVKTGSM---PHLLFAGPPGVGKTTAAL   63 (231)
T ss_dssp             CSCHHHHHHHHHHHHHTCC---CEEEEESCTTSSHHHHHH
T ss_pred             cCcHHHHHHHHHHHHcCCC---CeEEEECCCCCcHHHHHH
Confidence            3445666666666654321   247889999999999874

>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=92.86  E-value=0.017  Score=44.74  Aligned_cols=36  Identities=8%  Similarity=0.040  Sum_probs=23.1

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCccccc
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRD  159 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~  159 (161)
                      +|.++=.+.+.+.+-.+.   .-++.+||-|+||||+|+
T Consensus        25 ~gr~~ei~~~~~~L~r~~---k~n~llvG~~GvGKtaiv   60 (387)
T d1qvra2          25 IGRDEEIRRVIQILLRRT---KNNPVLIGEPGVGKTAIV   60 (387)
T ss_dssp             CSCHHHHHHHHHHHHCSS---CCCCEEEECTTSCHHHHH
T ss_pred             cCcHHHHHHHHHHHhcCC---CCCCeEECCCCCCHHHHH
Confidence            455544455555443221   135789999999999986

>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=92.82  E-value=0.035  Score=39.44  Aligned_cols=38  Identities=18%  Similarity=0.055  Sum_probs=22.7

Q ss_pred             HHHHHHHHHhHhhcCCCC-Cce-EEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIK-TSI-TVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~-~~~-~v~vvG~pNVGKSsl~~  160 (161)
                      +++|.+.+...+...... ... -+.+.|.|++||||++.
T Consensus        25 ~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~   64 (287)
T d1w5sa2          25 AEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAK   64 (287)
T ss_dssp             HHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHH
Confidence            566777665554332211 122 23445999999999874

>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=92.74  E-value=0.013  Score=42.94  Aligned_cols=19  Identities=26%  Similarity=0.006  Sum_probs=16.9

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++|||.++.|||||+.
T Consensus        44 Ge~vaivG~sGsGKSTLl~   62 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLIN   62 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHH
Confidence            3589999999999999975

>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=92.69  E-value=0.027  Score=39.40  Aligned_cols=37  Identities=5%  Similarity=0.073  Sum_probs=25.6

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|-++..+.|.+++.....   -.+.+.|.|++||||++.
T Consensus        17 vg~~~~~~~L~~~i~~~~~---~~lLl~Gp~G~GKttl~~   53 (227)
T d1sxjc2          17 YGQNEVITTVRKFVDEGKL---PHLLFYGPPGTGKTSTIV   53 (227)
T ss_dssp             CSCHHHHHHHHHHHHTTCC---CCEEEECSSSSSHHHHHH
T ss_pred             cCcHHHHHHHHHHHHcCCC---CeEEEECCCCCChhHHHH
Confidence            4445666777777654321   137788999999999864

>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=92.59  E-value=0.014  Score=42.50  Aligned_cols=19  Identities=26%  Similarity=0.209  Sum_probs=16.7

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +-.++|||.++.|||||+.
T Consensus        41 Ge~iaivG~sGsGKSTLl~   59 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIAS   59 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHH
T ss_pred             CCEEEEECCCCChHHHHHH
Confidence            3589999999999999974

>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=92.46  E-value=0.013  Score=41.49  Aligned_cols=56  Identities=9%  Similarity=0.018  Sum_probs=36.2

Q ss_pred             HHHHHHHHhhhccEEEEEEeCCCCCC------CCc------HHHHHHHhCC--CCCcEEEEeecCCCCCc
Q psy8220          14 VQEIERSVVEAADVILEVVDARDPMG------TRC------KVAEDLVVGT--PGKKLVIVINKAGKPST   69 (161)
Q Consensus        14 ~~~~~~~~i~~aDviL~VvD~~~~~~------~~~------~~i~~~l~~~--~~k~~ilVlNK~Dl~~~   69 (161)
                      ++..|....+.++.+++|+|.++...      ...      ..+...+...  .+.|+++++||+|+..+
T Consensus        60 ~r~~w~~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~  129 (221)
T d1azta2          60 ERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAE  129 (221)
T ss_dssp             TTTGGGGGCTTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHH
T ss_pred             eccchhhhcccccceEEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhh
Confidence            44555667789999999999875321      011      1122323221  46899999999998654

>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=92.35  E-value=0.015  Score=42.43  Aligned_cols=19  Identities=16%  Similarity=0.069  Sum_probs=16.6

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +=.++|||..++|||||+.
T Consensus        40 Ge~vaivG~sGsGKSTLl~   58 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAA   58 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHH
Confidence            3589999999999999974

>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=92.17  E-value=0.032  Score=39.33  Aligned_cols=36  Identities=14%  Similarity=0.020  Sum_probs=22.2

Q ss_pred             HHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      ...|..+|........  ..--+.+.|.|++||||++.
T Consensus        18 ~~~l~~~i~~~~~~~~--~~~~~L~~GPpGtGKT~lA~   53 (238)
T d1in4a2          18 KKKLSLALEAAKMRGE--VLDHVLLAGPPGLGKTTLAH   53 (238)
T ss_dssp             HHHHHHHHHHHHHHTC--CCCCEEEESSTTSSHHHHHH
T ss_pred             HHHHHHHHHHHHhcCC--CCCeEEEECCCCCcHHHHHH
Confidence            3455555554332221  11247889999999999874

>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=92.05  E-value=0.029  Score=39.26  Aligned_cols=35  Identities=9%  Similarity=0.028  Sum_probs=23.3

Q ss_pred             HHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      -++..+.|++++.....   -.+.+-|.|++||||++.
T Consensus        20 ~~~~~~~L~~~~~~~~~---~~~ll~Gp~G~GKTt~a~   54 (224)
T d1sxjb2          20 NKETIDRLQQIAKDGNM---PHMIISGMPGIGKTTSVH   54 (224)
T ss_dssp             CTHHHHHHHHHHHSCCC---CCEEEECSTTSSHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCC---CeEEEECCCCCCchhhHH
Confidence            34555666666654321   137788999999999863

>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=91.59  E-value=0.043  Score=37.22  Aligned_cols=56  Identities=13%  Similarity=0.122  Sum_probs=33.9

Q ss_pred             HHHHHHHHHhhhccEEEEEEeCCCCCCCC---------cH---HHHHHHhCC--CCCcEEEEeecCCCCC
Q psy8220          13 VVQEIERSVVEAADVILEVVDARDPMGTR---------CK---VAEDLVVGT--PGKKLVIVINKAGKPS   68 (161)
Q Consensus        13 ~~~~~~~~~i~~aDviL~VvD~~~~~~~~---------~~---~i~~~l~~~--~~k~~ilVlNK~Dl~~   68 (161)
                      .++..|....+.++.++++.|.++...-.         +.   .+...+...  .+.|++++.||+|+.+
T Consensus        56 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~  125 (200)
T d1zcba2          56 SERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLE  125 (200)
T ss_dssp             -----CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHH
T ss_pred             eecccccccccccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhh
Confidence            34555667788999999999988754310         01   112222221  4789999999999753

>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=91.58  E-value=0.033  Score=40.49  Aligned_cols=19  Identities=16%  Similarity=0.057  Sum_probs=15.9

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +--+.+.|.|++|||+|+.
T Consensus        45 ~~~iLL~GppGtGKT~la~   63 (256)
T d1lv7a_          45 PKGVLMVGPPGTGKTLLAK   63 (256)
T ss_dssp             CCEEEEECCTTSCHHHHHH
T ss_pred             CCeEEeeCCCCCCccHHHH
Confidence            3458889999999999874

>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=91.46  E-value=0.023  Score=42.06  Aligned_cols=19  Identities=5%  Similarity=0.057  Sum_probs=16.7

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +=.++|||..++|||||+.
T Consensus        62 Ge~vaivG~nGsGKSTLl~   80 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLM   80 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHH
T ss_pred             CCEEEEECCCCChHHHHHH
Confidence            4579999999999999974

>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=91.35  E-value=0.047  Score=39.29  Aligned_cols=39  Identities=10%  Similarity=-0.049  Sum_probs=24.8

Q ss_pred             CHHHHHHHHHhHh---hcCCCCCceEEEEEeecCCCcccccC
Q psy8220         122 GAELLMLLLGNYT---RNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       122 g~~~L~~~l~~~~---~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      +++.+++....++   .......+..|.+.|.|++|||+|+.
T Consensus        17 ~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~   58 (246)
T d1d2na_          17 PVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAA   58 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHH
Confidence            4555655555443   22222234569999999999999874

>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=91.16  E-value=0.19  Score=36.04  Aligned_cols=47  Identities=15%  Similarity=0.142  Sum_probs=31.5

Q ss_pred             hhccEEEEEEeCCCC-CCCCcHHHHHHHhCC----CCCcEEEEeecCCCCCc
Q psy8220          23 EAADVILEVVDARDP-MGTRCKVAEDLVVGT----PGKKLVIVINKAGKPST   69 (161)
Q Consensus        23 ~~aDviL~VvD~~~~-~~~~~~~i~~~l~~~----~~k~~ilVlNK~Dl~~~   69 (161)
                      ...|++++|++.... ++..+....+.+...    ..+++|+|+||+|..++
T Consensus       111 ~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~  162 (257)
T d1h65a_         111 KTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPP  162 (257)
T ss_dssp             CEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCG
T ss_pred             CCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCc
Confidence            467889999988654 444444444444321    13689999999999875

>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=91.13  E-value=0.045  Score=38.68  Aligned_cols=18  Identities=11%  Similarity=0.010  Sum_probs=15.2

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.+.|.|++||||++.
T Consensus        53 ~~lll~GPpG~GKTt~a~   70 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAH   70 (253)
T ss_dssp             SEEEEECSTTSSHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHH
Confidence            357788999999999874

>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=90.28  E-value=0.091  Score=37.76  Aligned_cols=18  Identities=17%  Similarity=0.030  Sum_probs=15.6

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.+.|.|++|||+|+.
T Consensus        43 ~giLl~GppGtGKT~la~   60 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLAR   60 (247)
T ss_dssp             SEEEEECCTTSSHHHHHH
T ss_pred             ceEEEecCCCCChhHHHH
Confidence            458999999999999874

>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=89.40  E-value=0.099  Score=39.80  Aligned_cols=18  Identities=6%  Similarity=-0.199  Sum_probs=15.3

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.+.|.||+|||+|+.
T Consensus       155 ~~~~~~g~~~~gk~~~~~  172 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAA  172 (362)
T ss_dssp             CEEEEECSTTSSHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHH
Confidence            467889999999999863

>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=88.54  E-value=0.04  Score=39.70  Aligned_cols=34  Identities=9%  Similarity=-0.160  Sum_probs=21.4

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|...|-+.+.-+.+.      --+.|.|.|++|||||++
T Consensus        20 TG~~~lD~~~~G~~~G------~l~vi~G~~G~GKT~~~~   53 (277)
T d1cr2a_          20 SGCTGINDKTLGARGG------EVIMVTSGSGMGKSTFVR   53 (277)
T ss_dssp             CSCTTHHHHHCSBCTT------CEEEEECSTTSSHHHHHH
T ss_pred             CCchhHHHHhcCCCCC------eEEEEEeCCCCCHHHHHH
Confidence            3455555544323332      246788999999999864

>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=86.92  E-value=0.12  Score=37.24  Aligned_cols=18  Identities=6%  Similarity=-0.044  Sum_probs=15.4

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.+.|.|++|||+|+.
T Consensus        39 ~giLL~GppGtGKT~l~~   56 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIAR   56 (258)
T ss_dssp             CEEEEECCTTSSHHHHHH
T ss_pred             ceeEEecCCCCCchHHHH
Confidence            458889999999999864

>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=86.54  E-value=0.14  Score=38.37  Aligned_cols=33  Identities=12%  Similarity=-0.082  Sum_probs=24.0

Q ss_pred             HHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         123 AELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       123 ~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .+++...|...+...     ..+.|.|-+++|||||..
T Consensus       152 ~~~~~~~l~~~v~~~-----~nili~G~tgSGKTT~l~  184 (323)
T d1g6oa_         152 KEQAISAIKDGIAIG-----KNVIVCGGTGSGKTTYIK  184 (323)
T ss_dssp             HHHHHHHHHHHHHHT-----CCEEEEESTTSSHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-----CCEEEEeeccccchHHHH
Confidence            355566666666544     358999999999999863

>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=86.14  E-value=0.28  Score=35.60  Aligned_cols=39  Identities=8%  Similarity=-0.003  Sum_probs=25.5

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .....+...+...+.... +....+.+.|.|+.|||+|+.
T Consensus        84 ~~~~~f~~~l~~~L~~~~-~k~n~~~l~G~~~tGKS~f~~  122 (267)
T d1u0ja_          84 YDPQYAASVFLGWATKKF-GKRNTIWLFGPATTGKTNIAE  122 (267)
T ss_dssp             CCHHHHHHHHHHHHTTCS-TTCCEEEEECSTTSSHHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCC-CccEEEEEEcCCCCCHHHHHH
Confidence            444555566666653321 223578888999999999863

>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=84.84  E-value=0.14  Score=35.67  Aligned_cols=35  Identities=20%  Similarity=0.239  Sum_probs=24.1

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|+..|-+.|.     -+.+.+--+.|.|.|++|||+|.+
T Consensus        21 TGi~~LD~~lg-----GGip~G~~~~i~G~~GsGKT~lal   55 (258)
T d1v5wa_          21 TGSQEFDKLLG-----GGIESMAITEAFGEFRTGKTQLSH   55 (258)
T ss_dssp             CSCHHHHHHTT-----SSBCSSEEEEEECCTTCTHHHHHH
T ss_pred             CCCHHHHHhhc-----CCCcCCEEEEEECCCCCCHHHHHH
Confidence            56666655542     234445578888999999999864

>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=84.60  E-value=0.094  Score=36.66  Aligned_cols=35  Identities=29%  Similarity=0.312  Sum_probs=23.7

Q ss_pred             cCHHHHHHHHHhHhhcCCCCCceEEEEEeecCCCcccccC
Q psy8220         121 VGAELLMLLLGNYTRNKDIKTSITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       121 ~g~~~L~~~l~~~~~~~~~~~~~~v~vvG~pNVGKSsl~~  160 (161)
                      .|+..|-+.|.-     +.+.+--+.|.|-|++|||||.+
T Consensus        20 TGi~~LD~ll~G-----Glp~G~~~li~G~pGsGKT~~~l   54 (254)
T d1pzna2          20 TGSKSLDKLLGG-----GIETQAITEVFGEFGSGKTQLAH   54 (254)
T ss_dssp             CSCHHHHHHHTS-----SEESSEEEEEEESTTSSHHHHHH
T ss_pred             CCCHHHHHhhcC-----CccCCEEEEEEcCCCCCHHHHHH
Confidence            566665555432     33444567888999999999864

>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=84.46  E-value=0.092  Score=38.88  Aligned_cols=18  Identities=6%  Similarity=0.080  Sum_probs=15.4

Q ss_pred             eEEEEEeecCCCcccccC
Q psy8220         143 ITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       143 ~~v~vvG~pNVGKSsl~~  160 (161)
                      --+.++|.|+|||+.|+.
T Consensus        50 ~~iLl~GPpG~GKT~lAk   67 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIAR   67 (309)
T ss_dssp             CCEEEECCTTSSHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHH
Confidence            458899999999999874

>d1s2da_ c.23.14.1 (A:) Purine transdeoxyribosylase {Lactobacillus helveticus [TaxId: 1587]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: N-(deoxy)ribosyltransferase-like
family: N-deoxyribosyltransferase
domain: Purine transdeoxyribosylase
species: Lactobacillus helveticus [TaxId: 1587]

Probab=81.81  E-value=0.82  Score=30.48  Aligned_cols=42  Identities=10%  Similarity=-0.100  Sum_probs=26.9

Q ss_pred             HHHhhhccEEEEEEeCCCCCCCCcHHHHHHHhCCCCCcEEEEee
Q psy8220          19 RSVVEAADVILEVVDARDPMGTRCKVAEDLVVGTPGKKLVIVIN   62 (161)
Q Consensus        19 ~~~i~~aDviL~VvD~~~~~~~~~~~i~~~l~~~~~k~~ilVlN   62 (161)
                      .+.+++||++|.++|+..+...---++-- ... .+||++++-.
T Consensus        76 ~~~i~~sD~vIA~ldg~~~D~GTa~EiG~-A~a-~gKPvi~~~~  117 (167)
T d1s2da_          76 LTGISNATCGVFLYDMDQLDDGSAFEIGF-MRA-MHKPVILVPF  117 (167)
T ss_dssp             HHHHHHCSEEEEEEESSSCCHHHHHHHHH-HHH-TTCCEEEEEE
T ss_pred             HHHHHHCCEEEEEeCCCCCCccHHHHHHH-HHH-CCCeEEEEec
Confidence            47899999999999987543211122222 222 4899988864

>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=81.63  E-value=0.24  Score=35.70  Aligned_cols=19  Identities=16%  Similarity=-0.025  Sum_probs=15.9

Q ss_pred             ceEEEEEeecCCCcccccC
Q psy8220         142 SITVGVVGECNIAGSIRDL  160 (161)
Q Consensus       142 ~~~v~vvG~pNVGKSsl~~  160 (161)
                      +--|.+.|.|++|||+|+.
T Consensus        41 ~~giLL~Gp~GtGKT~l~~   59 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAK   59 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHH
T ss_pred             CCeEEEECCCCCcchhHHH
Confidence            3458899999999999864